HEADER TRANSFERASE/TRANSFERASE INHIBITOR 23-DEC-10 3Q4K TITLE STRUCTURE OF A SMALL PEPTIDE LIGAND BOUND TO E.COLI DNA SLIDING CLAMP COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA POLYMERASE III SUBUNIT BETA; COMPND 3 CHAIN: A, B; COMPND 4 EC: 2.7.7.7; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: PEPTIDE LIGAND; COMPND 8 CHAIN: C, D; COMPND 9 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 83333; SOURCE 4 STRAIN: K12; SOURCE 5 GENE: DNAN, B3701, JW3678; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET15B; SOURCE 11 MOL_ID: 2; SOURCE 12 SYNTHETIC: YES; SOURCE 13 OTHER_DETAILS: CHEMICAL SYNTHESIS KEYWDS DNA POLYMERASE, SLIDING CLAMP, PROCESSIVITY FACTORS, LIGAND BINDING, KEYWDS 2 DNA REPLICATION, DNA-DIRECTED DNA POLYMERASE, KEYWDS 3 NUCLEOTIDYLTRANSFERASE, TRANSFERASE, TRANSFERASE-PEPTIDE COMPLEX, KEYWDS 4 TRANSFERASE-TRANSFERASE INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR P.WOLFF,V.OLIERIC,J.P.BRIAND,O.CHALOIN,A.DEJAEGERE,P.DUMAS,E.ENNIFAR, AUTHOR 2 G.GUICHARD,J.WAGNER,D.BURNOUF REVDAT 2 20-MAR-13 3Q4K 1 JRNL REVDAT 1 28-DEC-11 3Q4K 0 JRNL AUTH P.WOLFF,V.OLIERIC,J.P.BRIAND,O.CHALOIN,A.DEJAEGERE,P.DUMAS, JRNL AUTH 2 E.ENNIFAR,G.GUICHARD,J.WAGNER,D.Y.BURNOUF JRNL TITL STRUCTURE-BASED DESIGN OF SHORT PEPTIDE LIGANDS BINDING ONTO JRNL TITL 2 THE E. COLI PROCESSIVITY RING. JRNL REF J.MED.CHEM. V. 54 4627 2011 JRNL REFN ISSN 0022-2623 JRNL PMID 21619076 JRNL DOI 10.1021/JM200311M REMARK 2 REMARK 2 RESOLUTION. 2.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : BUSTER 2.8.0 REMARK 3 AUTHORS : BRICOGNE,BLANC,BRANDL,FLENSBURG,KELLER, REMARK 3 : PACIOREK,ROVERSI,SHARFF,SMART,VONRHEIN, REMARK 3 : WOMACK,MATTHEWS,TEN EYCK,TRONRUD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.92 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : NULL REMARK 3 NUMBER OF REFLECTIONS : 22980 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) : 0.232 REMARK 3 R VALUE (WORKING SET) : 0.228 REMARK 3 FREE R VALUE : 0.294 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.040 REMARK 3 FREE R VALUE TEST SET COUNT : 1158 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 12 REMARK 3 BIN RESOLUTION RANGE HIGH (ANGSTROMS) : 2.60 REMARK 3 BIN RESOLUTION RANGE LOW (ANGSTROMS) : 2.71 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING + TEST SET) : 1905 REMARK 3 BIN R VALUE (WORKING + TEST SET) : 0.2691 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 1816 REMARK 3 BIN R VALUE (WORKING SET) : 0.2627 REMARK 3 BIN FREE R VALUE : 0.3956 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 4.67 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 89 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5537 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 136 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 29.90 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -3.18490 REMARK 3 B22 (A**2) : 3.84590 REMARK 3 B33 (A**2) : -0.66100 REMARK 3 B12 (A**2) : 1.99890 REMARK 3 B13 (A**2) : -0.06700 REMARK 3 B23 (A**2) : 2.06250 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.39 REMARK 3 DPI (BLOW EQ-10) BASED ON R VALUE (A) : NULL REMARK 3 DPI (BLOW EQ-9) BASED ON FREE R VALUE (A) : NULL REMARK 3 DPI (CRUICKSHANK) BASED ON R VALUE (A) : NULL REMARK 3 DPI (CRUICKSHANK) BASED ON FREE R VALUE (A) : NULL REMARK 3 REMARK 3 REFERENCES: BLOW, D. (2002) ACTA CRYST D58, 792-797 REMARK 3 CRUICKSHANK, D.W.J. (1999) ACTA CRYST D55, 583-601 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.889 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.827 REMARK 3 REMARK 3 NUMBER OF GEOMETRIC FUNCTION TERMS DEFINED : 15 REMARK 3 TERM COUNT WEIGHT FUNCTION. REMARK 3 BOND LENGTHS : 5640 ; 2.000 ; HARMONIC REMARK 3 BOND ANGLES : 7651 ; 2.000 ; HARMONIC REMARK 3 TORSION ANGLES : 1916 ; 2.000 ; SINUSOIDAL REMARK 3 TRIGONAL CARBON PLANES : 159 ; 2.000 ; HARMONIC REMARK 3 GENERAL PLANES : 833 ; 5.000 ; HARMONIC REMARK 3 ISOTROPIC THERMAL FACTORS : 5640 ; 20.000 ; HARMONIC REMARK 3 BAD NON-BONDED CONTACTS : 0 ; 5.000 ; SEMIHARMONIC REMARK 3 IMPROPER TORSIONS : NULL ; NULL ; NULL REMARK 3 PSEUDOROTATION ANGLES : NULL ; NULL ; NULL REMARK 3 CHIRAL IMPROPER TORSION : 751 ; 5.000 ; SEMIHARMONIC REMARK 3 SUM OF OCCUPANCIES : NULL ; NULL ; NULL REMARK 3 UTILITY DISTANCES : NULL ; NULL ; NULL REMARK 3 UTILITY ANGLES : NULL ; NULL ; NULL REMARK 3 UTILITY TORSION : NULL ; NULL ; NULL REMARK 3 IDEAL-DIST CONTACT TERM : 6093 ; 4.000 ; SEMIHARMONIC REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.010 REMARK 3 BOND ANGLES (DEGREES) : 1.23 REMARK 3 PEPTIDE OMEGA TORSION ANGLES (DEGREES) : 2.88 REMARK 3 OTHER TORSION ANGLES (DEGREES) : 19.98 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 3Q4K COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 29-DEC-10. REMARK 100 THE RCSB ID CODE IS RCSB063185. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 03-DEC-06 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 : ESRF REMARK 200 BEAMLINE : ID14-4 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9794 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : AREA DETECTOR REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : D*TREK REMARK 200 DATA SCALING SOFTWARE : D*TREK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 22982 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.600 REMARK 200 RESOLUTION RANGE LOW (A) : 19.920 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 91.9 REMARK 200 DATA REDUNDANCY : 1.860 REMARK 200 R MERGE (I) : 0.06700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 8.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.69 REMARK 200 COMPLETENESS FOR SHELL (%) : 60.5 REMARK 200 DATA REDUNDANCY IN SHELL : 1.83 REMARK 200 R MERGE FOR SHELL (I) : 0.10600 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 4.000 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: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 51.62 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.54 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M MES PH 6.0, 0.1M CACL2, 30% PEG REMARK 280 400 + 0.2% AGAROSE IN DROP, TEMPERATURE 298K, VAPOR DIFFUSION REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,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 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 300 REMARK: BIOLOGICAL UNIT IS THE SAME AS ASYM. 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4970 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 32160 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -33.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, D, C 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 400 REMARK 400 COMPOUND REMARK 400 THE SHORT PEPTIDE BINDS ONTO PROCESSIVITY FACTOR BETA CLAMP, REMARK 400 INHIBITING BETA-DEPENDENT ELONGATION ACTIVITY REMARK 400 REMARK 400 THE PEPTIDE LIGAND IS OLIGOPEPTIDE, A MEMBER OF INHIBITOR CLASS. REMARK 400 REMARK 400 GROUP: 1 REMARK 400 NAME: PEPTIDE LIGAND REMARK 400 CHAIN: C, D REMARK 400 COMPONENT_1: PEPTIDE LIKE POLYMER REMARK 400 DESCRIPTION: NULL 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 19 REMARK 465 PRO A 20 REMARK 465 LEU A 21 REMARK 465 GLY A 22 REMARK 465 GLY A 23 REMARK 465 ARG A 24 REMARK 465 PRO A 25 REMARK 465 LYS A 250 REMARK 465 ASN A 251 REMARK 465 LEU A 366 REMARK 465 GLY B 19 REMARK 465 PRO B 20 REMARK 465 LEU B 21 REMARK 465 GLY B 22 REMARK 465 GLY B 23 REMARK 465 ARG B 24 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 LYS A 2 CG CD CE NZ REMARK 470 THR A 26 OG1 CG2 REMARK 470 LEU A 27 CG CD1 CD2 REMARK 470 GLU A 50 CG CD OE1 OE2 REMARK 470 GLU A 64 CG CD OE1 OE2 REMARK 470 ARG A 73 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 84 CG CD OE1 OE2 REMARK 470 ARG A 96 CG CD NE CZ NH1 NH2 REMARK 470 ASN A 118 CG OD1 ND2 REMARK 470 LEU A 119 CG CD1 CD2 REMARK 470 LYS A 198 CG CD CE NZ REMARK 470 ASP A 211 CG OD1 OD2 REMARK 470 ARG A 215 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 240 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 276 CG CD OE1 OE2 REMARK 470 ARG A 282 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 287 CG CD OE1 OE2 REMARK 470 LYS A 332 CG CD CE NZ REMARK 470 GLU B 6 CG CD OE1 OE2 REMARK 470 GLN B 15 CG CD OE1 NE2 REMARK 470 THR B 26 OG1 CG2 REMARK 470 ASP B 39 CG OD1 OD2 REMARK 470 GLU B 50 CG CD OE1 OE2 REMARK 470 GLU B 64 CG CD OE1 OE2 REMARK 470 GLU B 95 CG CD OE1 OE2 REMARK 470 ARG B 96 CG CD NE CZ NH1 NH2 REMARK 470 ASN B 118 CG OD1 ND2 REMARK 470 LEU B 119 CG CD1 CD2 REMARK 470 ASP B 120 CG OD1 OD2 REMARK 470 ASP B 121 CG OD1 OD2 REMARK 470 ARG B 240 CG CD NE CZ NH1 NH2 REMARK 470 ARG B 246 NH1 NH2 REMARK 470 LYS B 250 CG CD CE NZ REMARK 470 GLN B 299 CG CD OE1 NE2 REMARK 470 SER B 311 OG REMARK 470 LYS B 332 CG CD CE NZ REMARK 470 ARG B 365 CG CD NE CZ NH1 NH2 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 ASP C 370 C LEU C 371 N 0.153 REMARK 500 ASP D 370 C LEU D 371 N 0.140 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 C 370 CB - CG - OD2 ANGL. DEV. = -6.5 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 LEU A 49 -26.86 88.62 REMARK 500 GLU A 287 110.01 -25.12 REMARK 500 ASN A 288 28.53 44.85 REMARK 500 THR A 341 -67.12 -134.51 REMARK 500 LEU B 11 -70.25 -45.21 REMARK 500 LEU B 49 -43.71 80.10 REMARK 500 PRO B 249 130.63 -34.22 REMARK 500 GLU B 287 111.15 -37.21 REMARK 500 ASN B 288 25.49 48.90 REMARK 500 LYS B 332 67.34 -115.78 REMARK 500 THR B 341 -74.94 -119.18 REMARK 500 ASP C 370 68.98 81.75 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 GLN C 368 ALC C 369 142.21 REMARK 500 ALC C 369 ASP C 370 44.20 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 ALC C 369 13.20 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CHIRAL CENTERS REMARK 500 REMARK 500 UNEXPECTED CONFIGURATION OF THE FOLLOWING CHIRAL REMARK 500 CENTER(S) USING IMPROPER CA--C--CB--N CHIRALITY REMARK 500 FOR AMINO ACIDS AND C1'--O4'--N1(N9)--C2' FOR REMARK 500 NUCLEIC ACIDS OR EQUIVALENT ANGLE REMARK 500 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,A1,6X,F5.1,6X,A1,10X,A1,3X,A16) REMARK 500 REMARK 500 M RES CSSEQI IMPROPER EXPECTED FOUND DETAILS REMARK 500 LEU A 11 23.8 L L OUTSIDE RANGE REMARK 500 ILE A 184 23.7 L L OUTSIDE RANGE REMARK 500 SER A 311 24.6 L L OUTSIDE RANGE REMARK 500 VAL A 321 24.9 L L OUTSIDE RANGE REMARK 500 VAL B 247 24.5 L L OUTSIDE RANGE REMARK 500 LYS B 250 23.1 L L OUTSIDE RANGE REMARK 500 PHE B 278 24.9 L L OUTSIDE RANGE REMARK 500 VAL B 321 24.7 L L OUTSIDE RANGE REMARK 500 GLN C 368 23.9 L L OUTSIDE RANGE REMARK 500 ASP C 370 21.0 L L OUTSIDE RANGE REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 450 DISTANCE = 6.16 ANGSTROMS REMARK 525 HOH A 452 DISTANCE = 5.45 ANGSTROMS REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR CHAIN C OF PEPTIDE LIGAND REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR CHAIN D OF PEPTIDE LIGAND REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2POL RELATED DB: PDB REMARK 900 RELATED ID: 1OK7 RELATED DB: PDB REMARK 900 RELATED ID: 3D1E RELATED DB: PDB REMARK 900 RELATED ID: 3D1F RELATED DB: PDB REMARK 900 RELATED ID: 3D1G RELATED DB: PDB REMARK 900 RELATED ID: 3Q4J RELATED DB: PDB REMARK 900 RELATED ID: 3Q4L RELATED DB: PDB DBREF 3Q4K A 1 366 UNP P0A988 DPO3B_ECOLI 1 366 DBREF 3Q4K B 1 366 UNP P0A988 DPO3B_ECOLI 1 366 DBREF 3Q4K C 367 372 PDB 3Q4K 3Q4K 367 372 DBREF 3Q4K D 367 372 PDB 3Q4K 3Q4K 367 372 SEQRES 1 A 366 MET LYS PHE THR VAL GLU ARG GLU HIS LEU LEU LYS PRO SEQRES 2 A 366 LEU GLN GLN VAL SER GLY PRO LEU GLY GLY ARG PRO THR SEQRES 3 A 366 LEU PRO ILE LEU GLY ASN LEU LEU LEU GLN VAL ALA ASP SEQRES 4 A 366 GLY THR LEU SER LEU THR GLY THR ASP LEU GLU MET GLU SEQRES 5 A 366 MET VAL ALA ARG VAL ALA LEU VAL GLN PRO HIS GLU PRO SEQRES 6 A 366 GLY ALA THR THR VAL PRO ALA ARG LYS PHE PHE ASP ILE SEQRES 7 A 366 CYS ARG GLY LEU PRO GLU GLY ALA GLU ILE ALA VAL GLN SEQRES 8 A 366 LEU GLU GLY GLU ARG MET LEU VAL ARG SER GLY ARG SER SEQRES 9 A 366 ARG PHE SER LEU SER THR LEU PRO ALA ALA ASP PHE PRO SEQRES 10 A 366 ASN LEU ASP ASP TRP GLN SER GLU VAL GLU PHE THR LEU SEQRES 11 A 366 PRO GLN ALA THR MET LYS ARG LEU ILE GLU ALA THR GLN SEQRES 12 A 366 PHE SER MET ALA HIS GLN ASP VAL ARG TYR TYR LEU ASN SEQRES 13 A 366 GLY MET LEU PHE GLU THR GLU GLY GLU GLU LEU ARG THR SEQRES 14 A 366 VAL ALA THR ASP GLY HIS ARG LEU ALA VAL CYS SER MET SEQRES 15 A 366 PRO ILE GLY GLN SER LEU PRO SER HIS SER VAL ILE VAL SEQRES 16 A 366 PRO ARG LYS GLY VAL ILE GLU LEU MET ARG MET LEU ASP SEQRES 17 A 366 GLY GLY ASP ASN PRO LEU ARG VAL GLN ILE GLY SER ASN SEQRES 18 A 366 ASN ILE ARG ALA HIS VAL GLY ASP PHE ILE PHE THR SER SEQRES 19 A 366 LYS LEU VAL ASP GLY ARG PHE PRO ASP TYR ARG ARG VAL SEQRES 20 A 366 LEU PRO LYS ASN PRO ASP LYS HIS LEU GLU ALA GLY CYS SEQRES 21 A 366 ASP LEU LEU LYS GLN ALA PHE ALA ARG ALA ALA ILE LEU SEQRES 22 A 366 SER ASN GLU LYS PHE ARG GLY VAL ARG LEU TYR VAL SER SEQRES 23 A 366 GLU ASN GLN LEU LYS ILE THR ALA ASN ASN PRO GLU GLN SEQRES 24 A 366 GLU GLU ALA GLU GLU ILE LEU ASP VAL THR TYR SER GLY SEQRES 25 A 366 ALA GLU MET GLU ILE GLY PHE ASN VAL SER TYR VAL LEU SEQRES 26 A 366 ASP VAL LEU ASN ALA LEU LYS CYS GLU ASN VAL ARG MET SEQRES 27 A 366 MET LEU THR ASP SER VAL SER SER VAL GLN ILE GLU ASP SEQRES 28 A 366 ALA ALA SER GLN SER ALA ALA TYR VAL VAL MET PRO MET SEQRES 29 A 366 ARG LEU SEQRES 1 B 366 MET LYS PHE THR VAL GLU ARG GLU HIS LEU LEU LYS PRO SEQRES 2 B 366 LEU GLN GLN VAL SER GLY PRO LEU GLY GLY ARG PRO THR SEQRES 3 B 366 LEU PRO ILE LEU GLY ASN LEU LEU LEU GLN VAL ALA ASP SEQRES 4 B 366 GLY THR LEU SER LEU THR GLY THR ASP LEU GLU MET GLU SEQRES 5 B 366 MET VAL ALA ARG VAL ALA LEU VAL GLN PRO HIS GLU PRO SEQRES 6 B 366 GLY ALA THR THR VAL PRO ALA ARG LYS PHE PHE ASP ILE SEQRES 7 B 366 CYS ARG GLY LEU PRO GLU GLY ALA GLU ILE ALA VAL GLN SEQRES 8 B 366 LEU GLU GLY GLU ARG MET LEU VAL ARG SER GLY ARG SER SEQRES 9 B 366 ARG PHE SER LEU SER THR LEU PRO ALA ALA ASP PHE PRO SEQRES 10 B 366 ASN LEU ASP ASP TRP GLN SER GLU VAL GLU PHE THR LEU SEQRES 11 B 366 PRO GLN ALA THR MET LYS ARG LEU ILE GLU ALA THR GLN SEQRES 12 B 366 PHE SER MET ALA HIS GLN ASP VAL ARG TYR TYR LEU ASN SEQRES 13 B 366 GLY MET LEU PHE GLU THR GLU GLY GLU GLU LEU ARG THR SEQRES 14 B 366 VAL ALA THR ASP GLY HIS ARG LEU ALA VAL CYS SER MET SEQRES 15 B 366 PRO ILE GLY GLN SER LEU PRO SER HIS SER VAL ILE VAL SEQRES 16 B 366 PRO ARG LYS GLY VAL ILE GLU LEU MET ARG MET LEU ASP SEQRES 17 B 366 GLY GLY ASP ASN PRO LEU ARG VAL GLN ILE GLY SER ASN SEQRES 18 B 366 ASN ILE ARG ALA HIS VAL GLY ASP PHE ILE PHE THR SER SEQRES 19 B 366 LYS LEU VAL ASP GLY ARG PHE PRO ASP TYR ARG ARG VAL SEQRES 20 B 366 LEU PRO LYS ASN PRO ASP LYS HIS LEU GLU ALA GLY CYS SEQRES 21 B 366 ASP LEU LEU LYS GLN ALA PHE ALA ARG ALA ALA ILE LEU SEQRES 22 B 366 SER ASN GLU LYS PHE ARG GLY VAL ARG LEU TYR VAL SER SEQRES 23 B 366 GLU ASN GLN LEU LYS ILE THR ALA ASN ASN PRO GLU GLN SEQRES 24 B 366 GLU GLU ALA GLU GLU ILE LEU ASP VAL THR TYR SER GLY SEQRES 25 B 366 ALA GLU MET GLU ILE GLY PHE ASN VAL SER TYR VAL LEU SEQRES 26 B 366 ASP VAL LEU ASN ALA LEU LYS CYS GLU ASN VAL ARG MET SEQRES 27 B 366 MET LEU THR ASP SER VAL SER SER VAL GLN ILE GLU ASP SEQRES 28 B 366 ALA ALA SER GLN SER ALA ALA TYR VAL VAL MET PRO MET SEQRES 29 B 366 ARG LEU SEQRES 1 C 6 ACE GLN ALC ASP LEU 200 SEQRES 1 D 6 ACE GLN ALC ASP LEU 200 MODRES 3Q4K ALC C 369 ALA 2-AMINO-3-CYCLOHEXYL-PROPIONIC ACID MODRES 3Q4K 200 C 372 PHE 4-CHLORO-L-PHENYLALANINE MODRES 3Q4K ALC D 369 ALA 2-AMINO-3-CYCLOHEXYL-PROPIONIC ACID MODRES 3Q4K 200 D 372 PHE 4-CHLORO-L-PHENYLALANINE HET ACE C 367 3 HET ALC C 369 11 HET 200 C 372 13 HET ACE D 367 3 HET ALC D 369 11 HET 200 D 372 13 HETNAM ACE ACETYL GROUP HETNAM ALC 2-AMINO-3-CYCLOHEXYL-PROPIONIC ACID HETNAM 200 4-CHLORO-L-PHENYLALANINE FORMUL 3 ACE 2(C2 H4 O) FORMUL 3 ALC 2(C9 H17 N O2) FORMUL 3 200 2(C9 H10 CL N O2) FORMUL 5 HOH *136(H2 O) HELIX 1 1 ARG A 7 SER A 18 1 12 HELIX 2 2 LEU A 27 LEU A 30 5 4 HELIX 3 3 ALA A 72 LEU A 82 1 11 HELIX 4 4 PRO A 131 GLN A 143 1 13 HELIX 5 5 PHE A 144 MET A 146 5 3 HELIX 6 6 ARG A 152 ASN A 156 5 5 HELIX 7 7 PRO A 196 MET A 206 1 11 HELIX 8 8 TYR A 244 LEU A 248 5 5 HELIX 9 9 CYS A 260 LEU A 273 1 14 HELIX 10 10 VAL A 321 ALA A 330 1 10 HELIX 11 11 ARG B 7 SER B 18 1 12 HELIX 12 12 LEU B 27 LEU B 30 5 4 HELIX 13 13 ALA B 72 LEU B 82 1 11 HELIX 14 14 PRO B 131 GLN B 143 1 13 HELIX 15 15 PHE B 144 MET B 146 5 3 HELIX 16 16 ARG B 152 GLY B 157 5 6 HELIX 17 17 PRO B 196 MET B 206 1 11 HELIX 18 18 ASP B 243 LEU B 248 5 6 HELIX 19 19 CYS B 260 LEU B 273 1 14 HELIX 20 20 VAL B 321 LEU B 331 1 11 SHEET 1 A 8 LYS A 2 GLU A 6 0 SHEET 2 A 8 GLU A 87 GLU A 93 -1 O ILE A 88 N VAL A 5 SHEET 3 A 8 ARG A 96 SER A 101 -1 O LEU A 98 N GLN A 91 SHEET 4 A 8 SER A 104 SER A 109 -1 O PHE A 106 N VAL A 99 SHEET 5 A 8 GLU B 301 ASP B 307 -1 O GLU B 301 N SER A 107 SHEET 6 A 8 GLN B 289 ASN B 295 -1 N ILE B 292 O GLU B 304 SHEET 7 A 8 GLY B 280 SER B 286 -1 N ARG B 282 O THR B 293 SHEET 8 A 8 MET B 315 ASN B 320 -1 O PHE B 319 N VAL B 281 SHEET 1 B 8 GLY A 66 PRO A 71 0 SHEET 2 B 8 ASN A 32 ALA A 38 -1 N VAL A 37 O GLY A 66 SHEET 3 B 8 THR A 41 THR A 47 -1 O SER A 43 N GLN A 36 SHEET 4 B 8 MET A 51 ALA A 58 -1 O ALA A 55 N LEU A 44 SHEET 5 B 8 PHE A 230 LYS A 235 -1 O THR A 233 N GLU A 52 SHEET 6 B 8 ASN A 222 VAL A 227 -1 N ALA A 225 O PHE A 232 SHEET 7 B 8 LEU A 214 ILE A 218 -1 N GLN A 217 O ARG A 224 SHEET 8 B 8 VAL A 126 LEU A 130 -1 N VAL A 126 O ILE A 218 SHEET 1 C 6 LYS A 254 GLY A 259 0 SHEET 2 C 6 ASN A 335 LEU A 340 -1 O VAL A 336 N ALA A 258 SHEET 3 C 6 VAL A 347 ASP A 351 -1 O GLU A 350 N ARG A 337 SHEET 4 C 6 ALA A 357 VAL A 361 -1 O TYR A 359 N ILE A 349 SHEET 5 C 6 ARG A 176 VAL A 195 -1 N VAL A 179 O ALA A 358 SHEET 6 C 6 MET A 158 THR A 172 -1 O MET A 158 N VAL A 195 SHEET 1 D 8 MET A 315 ASN A 320 0 SHEET 2 D 8 GLY A 280 SER A 286 -1 N VAL A 281 O PHE A 319 SHEET 3 D 8 GLN A 289 ASN A 295 -1 O GLN A 289 N SER A 286 SHEET 4 D 8 GLU A 301 ASP A 307 -1 O LEU A 306 N LEU A 290 SHEET 5 D 8 SER B 104 SER B 109 -1 O SER B 107 N GLU A 301 SHEET 6 D 8 ARG B 96 SER B 101 -1 N VAL B 99 O PHE B 106 SHEET 7 D 8 GLU B 87 GLU B 93 -1 N GLN B 91 O LEU B 98 SHEET 8 D 8 PHE B 3 GLU B 6 -1 N VAL B 5 O ILE B 88 SHEET 1 E 8 GLY B 66 PRO B 71 0 SHEET 2 E 8 ASN B 32 ALA B 38 -1 N LEU B 35 O THR B 68 SHEET 3 E 8 THR B 41 THR B 47 -1 O THR B 45 N LEU B 34 SHEET 4 E 8 MET B 51 ALA B 58 -1 O ALA B 55 N LEU B 44 SHEET 5 E 8 PHE B 230 LYS B 235 -1 O THR B 233 N GLU B 52 SHEET 6 E 8 ASN B 222 VAL B 227 -1 N ALA B 225 O PHE B 232 SHEET 7 E 8 LEU B 214 ILE B 218 -1 N ARG B 215 O HIS B 226 SHEET 8 E 8 VAL B 126 LEU B 130 -1 N LEU B 130 O LEU B 214 SHEET 1 F 8 HIS B 191 VAL B 195 0 SHEET 2 F 8 MET B 158 GLU B 163 -1 N MET B 158 O VAL B 195 SHEET 3 F 8 GLU B 166 THR B 172 -1 O ARG B 168 N GLU B 161 SHEET 4 F 8 ARG B 176 PRO B 183 -1 O ALA B 178 N ALA B 171 SHEET 5 F 8 ALA B 357 VAL B 361 -1 O VAL B 360 N LEU B 177 SHEET 6 F 8 VAL B 347 ASP B 351 -1 N ILE B 349 O TYR B 359 SHEET 7 F 8 ASN B 335 LEU B 340 -1 N MET B 339 O GLN B 348 SHEET 8 F 8 LYS B 254 GLY B 259 -1 N ALA B 258 O VAL B 336 LINK C GLN C 368 N ALC C 369 1555 1555 1.48 LINK C ALC C 369 N ASP C 370 1555 1555 1.46 LINK C LEU C 371 N 200 C 372 1555 1555 1.49 LINK C GLN D 368 N ALC D 369 1555 1555 1.46 LINK C ALC D 369 N ASP D 370 1555 1555 1.47 LINK C LEU D 371 N 200 D 372 1555 1555 1.47 LINK C ACE C 367 N GLN C 368 1555 1555 1.46 LINK C ACE D 367 N GLN D 368 1555 1555 1.45 SITE 1 AC1 16 THR A 172 GLY A 174 HIS A 175 ARG A 176 SITE 2 AC1 16 PRO A 242 ASP A 243 VAL A 247 VAL A 344 SITE 3 AC1 16 ALA A 353 MET A 362 PRO A 363 MET A 364 SITE 4 AC1 16 ARG A 365 HOH A 433 LYS B 250 ASN B 251 SITE 1 AC2 12 THR B 172 GLY B 174 HIS B 175 ARG B 176 SITE 2 AC2 12 LEU B 177 VAL B 247 VAL B 344 VAL B 360 SITE 3 AC2 12 MET B 362 PRO B 363 MET B 364 ARG B 365 CRYST1 36.250 80.000 82.180 66.15 74.94 82.03 P 1 2 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 0.027586 -0.003862 -0.006431 0.00000 SCALE2 0.000000 0.012622 -0.005268 0.00000 SCALE3 0.000000 0.000000 0.013655 0.00000