PDB Short entry for 1EA4 HEADER GENE REGULATION/DNA 05-NOV-00 1EA4 TITLE TRANSCRIPTIONAL REPRESSOR COPG/22BP DSDNA COMPLEX COMPND MOL_ID: 1; COMPND 2 MOLECULE: TRANSCRIPTIONAL REPRESSOR COPG; COMPND 3 CHAIN: A, B, D, E, F, G, H, J, K, L; COMPND 4 FRAGMENT: DNA-BINDING PROTEIN; COMPND 5 SYNONYM: REPA PROTEIN; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: DNA (5'-D(*TP*AP*AP*CP*CP*GP*TP*GP COMPND 9 *CP*AP*CP*TP*CP*AP*AP*TP*GP*CP*AP*AP*TP*C)-3'); COMPND 10 CHAIN: U, W, Y; COMPND 11 FRAGMENT: 22BP SSDNA - FIRST STRAND; COMPND 12 ENGINEERED: YES; COMPND 13 MOL_ID: 3; COMPND 14 MOLECULE: DNA(5'-D(*AP*GP*AP*TP*TP*GP*CP*AP*TP COMPND 15 *TP*GP*AP*GP*TP*GP*CP*AP*CP*GP*GP*TP*T)-3'); COMPND 16 CHAIN: V, X, Z; COMPND 17 FRAGMENT: 22BP SSDNA - SECOND STRAND; COMPND 18 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STREPTOCOCCUS AGALACTIAE; SOURCE 3 ORGANISM_TAXID: 1311; SOURCE 4 CELLULAR_LOCATION: PLASMID PMV158; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PMV158; SOURCE 9 MOL_ID: 2; SOURCE 10 SYNTHETIC: YES; SOURCE 11 MOL_ID: 3; SOURCE 12 SYNTHETIC: YES KEYWDS TRANSCRIPTIONAL REPRESSOR, DNA-BINDING PROTEIN, PLASMID, PROTEIN-DNA KEYWDS 2 COMPLEX, GENE REGULATION/DNA, GENE REGULATION-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR F.X.GOMIS-RUETH,M.COSTA,M.SOLA,P.ACEBO,R.ERITJA,M.ESPINOSA,G.D.SOLAR, AUTHOR 2 M.COLL REVDAT 4 13-DEC-23 1EA4 1 DBREF REVDAT 3 24-FEB-09 1EA4 1 VERSN REVDAT 2 03-JUN-02 1EA4 1 SEQRES ATOM TER REVDAT 1 05-JUL-01 1EA4 0 JRNL AUTH M.COSTA,M.SOLA,G.DEL,R.ERITJA,A.M.HERNAINDEZ-ARRIAGA, JRNL AUTH 2 M.ESPINOSA,F.X.GOMIS-RUETH,M.COLL JRNL TITL PLASMID TRANSCRIPTIONAL REPRESSOR COPG OLIGOMERISES TO JRNL TITL 2 RENDER HELICAL SUPERSTRUCTURES UNBOUND AND IN COMPLEXES WITH JRNL TITL 3 OLIGONUCLEOTIDES JRNL REF J.MOL.BIOL. V. 310 403 2001 JRNL REFN ISSN 0022-2836 JRNL PMID 11428897 JRNL DOI 10.1006/JMBI.2001.4760 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH F.X.GOMIS-RUETH,M.SOLA,P.ACEBO,A.PARRAGA,A.GUASCH,R.ERITJA, REMARK 1 AUTH 2 A.GONZALEZ,M.ESPINOSA,G.D.SOLAR,M.COLL REMARK 1 TITL THE STRUCTURE OF PLASMID-ENCODED TRANSCRIPTIONAL REPRESSOR REMARK 1 TITL 2 COPG UNLIGANDED AND BOUND TO ITS OPERATOR REMARK 1 REF EMBO J. V. 17 7404 1998 REMARK 1 REFN ISSN 0261-4189 REMARK 1 PMID 9857196 REMARK 1 DOI 10.1093/EMBOJ/17.24.7404 REMARK 1 REFERENCE 2 REMARK 1 AUTH F.X.GOMIS-RUETH,M.SOLA,R.PEREZ-LUQUE,P.ACEBO,M.T.ALDA, REMARK 1 AUTH 2 A.GONZALEZ,M.ESPINOSA,G.D.SOLAR,M.COLL REMARK 1 TITL OVEREXPRESSION, PURIFICATION, CRYSTALLIZATION AND REMARK 1 TITL 2 PRELIMINARY X-RAY DIFFRACTION ANALYSIS OF THE PMV158-ENCODED REMARK 1 TITL 3 PLASMID TRANSCRIPTIONAL REPRESSOR PROTEIN COPG REMARK 1 REF FEBS LETT. V. 425 161 1998 REMARK 1 REFN ISSN 0014-5793 REMARK 1 PMID 9541028 REMARK 1 DOI 10.1016/S0014-5793(98)00219-1 REMARK 2 REMARK 2 RESOLUTION. 2.95 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.0 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.95 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 40.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 96.9 REMARK 3 NUMBER OF REFLECTIONS : 17507 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 SET) : 0.230 REMARK 3 FREE R VALUE : 0.307 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 7.000 REMARK 3 FREE R VALUE TEST SET COUNT : NULL 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 : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL 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 : 3377 REMARK 3 NUCLEIC ACID ATOMS : 2535 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 101 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 80.80 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 66.30 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 COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.009 REMARK 3 BOND ANGLES (DEGREES) : 1.340 REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : NULL REMARK 3 KSOL : NULL REMARK 3 BSOL : NULL REMARK 3 REMARK 3 NCS MODEL : RESTRAINTS REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : NULL REMARK 3 PARAMETER FILE 2 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 TOPOLOGY FILE 2 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NOE RESTRAINTS FOR WATSON & CRICK BASE REMARK 3 PAIRING. THE COMPLEX SET UP FOR CRYSTALLIZATION WAS MADE UP BY A REMARK 3 COPG DIMER-OF-HOMODIMERS AND A 22-BP DSDNA. THERE ARE 2,5 OF REMARK 3 THOSE COMPLEXES IN THE ASYMMETRIC UNIT, DEFG+WX (PROTEIN + DNA), REMARK 3 HJKL+UV, AND ABA'B'+YZ. THE LATTER REPRESENTS THE "HALF" REMARK 3 COMPLEX. THE OTHER HALF IS CREATED BY A CRYSTALLOGRAPHIC TWOFOLD REMARK 3 (RENDERING A' AND B'). THE DNA PART HAS BEEN MODELLED WITH THE REMARK 3 TWO OBSERVED ORIENTATIONS, EACH WITH OCCUPANCY 0.5. THERE ARE REMARK 3 NCS RESTRAINTS, BUT SO MANY THAT THE MATRICES AND TRANSLATIONS REMARK 3 HAVE NOT BEEN INCLUDED IN THIS ENTRY. ESSENTIALLY, ALL PROTEIN REMARK 3 CHAINS AND ALL DNA STRANDS HAVE BEEN SUBJECTED TO RESTRAINTS. REMARK 4 REMARK 4 1EA4 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 05-NOV-00. REMARK 100 THE DEPOSITION ID IS D_1290005528. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 110.0 REMARK 200 PH : 4.60 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ELETTRA REMARK 200 BEAMLINE : 5.2R REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0527 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 17592 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.920 REMARK 200 RESOLUTION RANGE LOW (A) : 43.850 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 93.6 REMARK 200 DATA REDUNDANCY : 5.900 REMARK 200 R MERGE (I) : 0.10600 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 5.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL 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: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: PDB ENTRY 1B01 REMARK 200 REMARK 200 REMARK: ONE COPG DIMER/ 9BP DSDNA MODEL WAS USED AS SEARCHING REMARK 200 MODEL. REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.94 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.23 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: MPD, NACL, NAACO, PH 4.60 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 106.70000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 38.02000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 106.70000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 38.02000 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, 3, 4 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: FUNCTIONAL TETRAMERS (EACH ONE CONTACTING A REMARK 300 22BP DSDNA)ARE DEFG, HJKL, AND ABA'B' (A' AND REMARK 300 B' ARE SYMMETRYEQUIVALENT MOLECULES).TETRAMER DEFG REMARK 300 CONTACTS DSDNA WX, HJKL PAIRS UV, ANDABA'B' REMARK 300 INTERACTS WITH YZ(DOUBLE OCCUPANCY DUE TO REMARK 300 CRYSTALLOGRAPHIC TWOFOLD AXIS)THE BIOMOLECULE 1 IS REMARK 300 THE SUPERHELICAL STRUCTURE AND THETETRAMERS CAN BE REMARK 300 GENERATED USING THE MATRICES GIVENFOR BIOMOLECULES 2 REMARK 300 , 3 AND 4 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: 32-MERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: 32-MERIC REMARK 350 SOFTWARE USED: PQS REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, D, E, F, G, H, J, K, L, REMARK 350 AND CHAINS: U, V, W, X, Y, Z 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 BIOMT1 2 -1.000000 0.000000 0.000000 213.40000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 76.04000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: HEXAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: HEXAMERIC REMARK 350 SOFTWARE USED: PQS REMARK 350 APPLY THE FOLLOWING TO CHAINS: D, E, F, G, W, X 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: 3 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: HEXAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: HEXAMERIC REMARK 350 SOFTWARE USED: PQS REMARK 350 APPLY THE FOLLOWING TO CHAINS: H, J, K, L, U, V 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: 4 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: OCTAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: OCTAMERIC REMARK 350 SOFTWARE USED: PQS REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, Y, Z 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 BIOMT1 2 -1.000000 0.000000 0.000000 213.40000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 76.04000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 400 REMARK 400 COMPOUND REMARK 400 REGULATES THE PLASMID COPY NUMBER BY BINDING TO THE REMARK 400 REPAB PROMOTER THUS CONTROLING THE SYNTHESIS OF THE PLASMID REMARK 400 REPLICATION INITIATOR PROTEIN REPB AND ITS OWN ONE. 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 GLU A 44 REMARK 465 LYS A 45 REMARK 465 GLY B 42 REMARK 465 GLN B 43 REMARK 465 GLU B 44 REMARK 465 LYS B 45 REMARK 465 GLU D 44 REMARK 465 LYS D 45 REMARK 465 LYS E 45 REMARK 465 GLN G 43 REMARK 465 GLU G 44 REMARK 465 LYS G 45 REMARK 465 MET H 1 REMARK 465 LYS J 45 REMARK 465 GLU K 44 REMARK 465 LYS K 45 REMARK 465 LYS L 45 REMARK 465 DT U 201 REMARK 465 DC U 222 REMARK 465 DT V 222 REMARK 465 DT Y 201 REMARK 465 DT Z 222 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 U 202 P OP1 OP2 REMARK 470 DT U 221 C5' C4' O4' C3' O3' C2' C1' REMARK 470 DT U 221 N1 C2 O2 N3 C4 O4 C5 REMARK 470 DT U 221 C7 C6 REMARK 470 DT V 221 C5' C4' O4' C3' O3' C2' C1' REMARK 470 DT V 221 N1 C2 O2 N3 C4 O4 C5 REMARK 470 DT V 221 C7 C6 REMARK 470 DT X 222 C5' C4' O4' C3' O3' C2' C1' REMARK 470 DT X 222 N1 C2 O2 N3 C4 O4 C5 REMARK 470 DT X 222 C7 C6 REMARK 470 DA Y 202 P OP1 OP2 REMARK 470 DC Y 213 P OP1 OP2 REMARK 470 DA Z 212 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 O TYR B 39 N LYS B 41 2.04 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 LYS F 45 CE LYS F 45 NZ -0.154 REMARK 500 LYS H 45 CE LYS H 45 NZ -0.153 REMARK 500 DG Z 211 N1 DG Z 211 C2 0.052 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 DT V 214 O4' - C1' - N1 ANGL. DEV. = 1.9 DEGREES REMARK 500 DG Z 211 O4' - C1' - N9 ANGL. DEV. = 2.5 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 LYS A 19 -71.16 -53.06 REMARK 500 LYS B 40 51.08 -64.46 REMARK 500 GLN E 43 -31.50 -143.29 REMARK 500 GLN F 43 26.42 -144.64 REMARK 500 GLU F 44 -114.96 -69.93 REMARK 500 LYS G 2 95.67 -178.21 REMARK 500 GLN H 43 42.64 -88.47 REMARK 500 GLU H 44 -163.12 -127.81 REMARK 500 LYS K 2 45.86 -105.94 REMARK 500 LYS K 3 143.83 -22.13 REMARK 500 LYS K 19 -70.23 -58.29 REMARK 500 LYS L 2 54.62 149.48 REMARK 500 LYS L 3 140.61 -11.12 REMARK 500 LYS L 19 -71.00 -51.95 REMARK 500 GLN L 43 -44.20 -25.76 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 H2002 DISTANCE = 6.57 ANGSTROMS REMARK 525 HOH Y2001 DISTANCE = 6.26 ANGSTROMS REMARK 525 HOH Y2002 DISTANCE = 6.55 ANGSTROMS REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1B01 RELATED DB: PDB REMARK 900 TRANSCRIPTIONAL REPRESSOR COPG/DEOXYRIBONUCLEIC ACID COMPLEX REMARK 900 RELATED ID: 2CPG RELATED DB: PDB REMARK 900 TRANSCRIPTIONAL REPRESSOR COPG DBREF 1EA4 A 1 45 UNP P13920 REPA_STRPN 1 45 DBREF 1EA4 B 1 45 UNP P13920 REPA_STRPN 1 45 DBREF 1EA4 D 1 45 UNP P13920 REPA_STRPN 1 45 DBREF 1EA4 E 1 45 UNP P13920 REPA_STRPN 1 45 DBREF 1EA4 F 1 45 UNP P13920 REPA_STRPN 1 45 DBREF 1EA4 G 1 45 UNP P13920 REPA_STRPN 1 45 DBREF 1EA4 H 1 45 UNP P13920 REPA_STRPN 1 45 DBREF 1EA4 J 1 45 UNP P13920 REPA_STRPN 1 45 DBREF 1EA4 K 1 45 UNP P13920 REPA_STRPN 1 45 DBREF 1EA4 L 1 45 UNP P13920 REPA_STRPN 1 45 DBREF 1EA4 U 201 222 PDB 1EA4 1EA4 201 222 DBREF 1EA4 V 201 222 PDB 1EA4 1EA4 201 222 DBREF 1EA4 W 201 222 PDB 1EA4 1EA4 201 222 DBREF 1EA4 X 201 222 PDB 1EA4 1EA4 201 222 DBREF 1EA4 Y 202 222 PDB 1EA4 1EA4 202 222 DBREF 1EA4 Z 201 222 PDB 1EA4 1EA4 201 222 SEQRES 1 A 45 MET LYS LYS ARG LEU THR ILE THR LEU SER GLU SER VAL SEQRES 2 A 45 LEU GLU ASN LEU GLU LYS MET ALA ARG GLU MET GLY LEU SEQRES 3 A 45 SER LYS SER ALA MET ILE SER VAL ALA LEU GLU ASN TYR SEQRES 4 A 45 LYS LYS GLY GLN GLU LYS SEQRES 1 B 45 MET LYS LYS ARG LEU THR ILE THR LEU SER GLU SER VAL SEQRES 2 B 45 LEU GLU ASN LEU GLU LYS MET ALA ARG GLU MET GLY LEU SEQRES 3 B 45 SER LYS SER ALA MET ILE SER VAL ALA LEU GLU ASN TYR SEQRES 4 B 45 LYS LYS GLY GLN GLU LYS SEQRES 1 D 45 MET LYS LYS ARG LEU THR ILE THR LEU SER GLU SER VAL SEQRES 2 D 45 LEU GLU ASN LEU GLU LYS MET ALA ARG GLU MET GLY LEU SEQRES 3 D 45 SER LYS SER ALA MET ILE SER VAL ALA LEU GLU ASN TYR SEQRES 4 D 45 LYS LYS GLY GLN GLU LYS SEQRES 1 E 45 MET LYS LYS ARG LEU THR ILE THR LEU SER GLU SER VAL SEQRES 2 E 45 LEU GLU ASN LEU GLU LYS MET ALA ARG GLU MET GLY LEU SEQRES 3 E 45 SER LYS SER ALA MET ILE SER VAL ALA LEU GLU ASN TYR SEQRES 4 E 45 LYS LYS GLY GLN GLU LYS SEQRES 1 F 45 MET LYS LYS ARG LEU THR ILE THR LEU SER GLU SER VAL SEQRES 2 F 45 LEU GLU ASN LEU GLU LYS MET ALA ARG GLU MET GLY LEU SEQRES 3 F 45 SER LYS SER ALA MET ILE SER VAL ALA LEU GLU ASN TYR SEQRES 4 F 45 LYS LYS GLY GLN GLU LYS SEQRES 1 G 45 MET LYS LYS ARG LEU THR ILE THR LEU SER GLU SER VAL SEQRES 2 G 45 LEU GLU ASN LEU GLU LYS MET ALA ARG GLU MET GLY LEU SEQRES 3 G 45 SER LYS SER ALA MET ILE SER VAL ALA LEU GLU ASN TYR SEQRES 4 G 45 LYS LYS GLY GLN GLU LYS SEQRES 1 H 45 MET LYS LYS ARG LEU THR ILE THR LEU SER GLU SER VAL SEQRES 2 H 45 LEU GLU ASN LEU GLU LYS MET ALA ARG GLU MET GLY LEU SEQRES 3 H 45 SER LYS SER ALA MET ILE SER VAL ALA LEU GLU ASN TYR SEQRES 4 H 45 LYS LYS GLY GLN GLU LYS SEQRES 1 J 45 MET LYS LYS ARG LEU THR ILE THR LEU SER GLU SER VAL SEQRES 2 J 45 LEU GLU ASN LEU GLU LYS MET ALA ARG GLU MET GLY LEU SEQRES 3 J 45 SER LYS SER ALA MET ILE SER VAL ALA LEU GLU ASN TYR SEQRES 4 J 45 LYS LYS GLY GLN GLU LYS SEQRES 1 K 45 MET LYS LYS ARG LEU THR ILE THR LEU SER GLU SER VAL SEQRES 2 K 45 LEU GLU ASN LEU GLU LYS MET ALA ARG GLU MET GLY LEU SEQRES 3 K 45 SER LYS SER ALA MET ILE SER VAL ALA LEU GLU ASN TYR SEQRES 4 K 45 LYS LYS GLY GLN GLU LYS SEQRES 1 L 45 MET LYS LYS ARG LEU THR ILE THR LEU SER GLU SER VAL SEQRES 2 L 45 LEU GLU ASN LEU GLU LYS MET ALA ARG GLU MET GLY LEU SEQRES 3 L 45 SER LYS SER ALA MET ILE SER VAL ALA LEU GLU ASN TYR SEQRES 4 L 45 LYS LYS GLY GLN GLU LYS SEQRES 1 U 22 DT DA DA DC DC DG DT DG DC DA DC DT DC SEQRES 2 U 22 DA DA DT DG DC DA DA DT DC SEQRES 1 V 22 DA DG DA DT DT DG DC DA DT DT DG DA DG SEQRES 2 V 22 DT DG DC DA DC DG DG DT DT SEQRES 1 W 22 DT DA DA DC DC DG DT DG DC DA DC DT DC SEQRES 2 W 22 DA DA DT DG DC DA DA DT DC SEQRES 1 X 22 DA DG DA DT DT DG DC DA DT DT DG DA DG SEQRES 2 X 22 DT DG DC DA DC DG DG DT DT SEQRES 1 Y 22 DT DA DA DC DC DG DT DG DC DA DC DT DC SEQRES 2 Y 22 DA DA DT DG DC DA DA DT DC SEQRES 1 Z 22 DA DG DA DT DT DG DC DA DT DT DG DA DG SEQRES 2 Z 22 DT DG DC DA DC DG DG DT DT FORMUL 17 HOH *101(H2 O) HELIX 1 1 GLU A 11 GLY A 25 1 15 HELIX 2 2 SER A 27 LYS A 40 1 14 HELIX 3 3 SER B 10 MET B 24 1 15 HELIX 4 4 SER B 27 LYS B 40 1 14 HELIX 5 5 GLU D 11 GLY D 25 1 15 HELIX 6 6 SER D 27 LYS D 41 1 15 HELIX 7 7 SER E 10 GLY E 25 1 16 HELIX 8 8 SER E 27 GLY E 42 1 16 HELIX 9 9 SER F 10 GLY F 25 1 16 HELIX 10 10 SER F 27 GLY F 42 1 16 HELIX 11 11 GLU G 11 GLY G 25 1 15 HELIX 12 12 SER G 27 LYS G 41 1 15 HELIX 13 13 GLU H 11 GLY H 25 1 15 HELIX 14 14 SER H 27 GLN H 43 1 17 HELIX 15 15 SER J 10 GLY J 25 1 16 HELIX 16 16 SER J 27 GLY J 42 1 16 HELIX 17 17 SER K 10 GLY K 25 1 16 HELIX 18 18 SER K 27 GLY K 42 1 16 HELIX 19 19 SER L 10 GLY L 25 1 16 HELIX 20 20 SER L 27 GLU L 44 1 18 SHEET 1 A 2 LYS A 3 SER A 10 0 SHEET 2 A 2 LYS B 2 LEU B 9 -1 O LEU B 9 N LYS A 3 SHEET 1 B 2 LYS D 3 SER D 10 0 SHEET 2 B 2 LYS E 2 LEU E 9 -1 O LEU E 9 N LYS D 3 SHEET 1 C 2 LYS F 2 LEU F 9 0 SHEET 2 C 2 LYS G 3 SER G 10 -1 O LEU G 9 N LYS F 3 SHEET 1 D 2 LYS H 3 SER H 10 0 SHEET 2 D 2 LYS J 2 LEU J 9 -1 O LEU J 9 N LYS H 3 SHEET 1 E 2 ARG K 4 THR K 8 0 SHEET 2 E 2 ARG L 4 THR L 8 -1 O LEU L 5 N ILE K 7 CRYST1 213.400 76.040 50.520 90.00 90.00 90.00 P 21 21 2 40 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 0.004686 0.000000 0.000000 0.00000 SCALE2 0.000000 0.013151 0.000000 0.00000 SCALE3 0.000000 0.000000 0.019794 0.00000