HEADER TOXIN/TOXIN REPRESSOR 17-DEC-08 2KC8 TITLE STRUCTURE OF E. COLI TOXIN RELE (R81A/R83A) MUTANT IN COMPLEX WITH TITLE 2 ANTITOXIN RELBC (K47-L79) PEPTIDE COMPND MOL_ID: 1; COMPND 2 MOLECULE: TOXIN RELE; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 MUTATION: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: ANTITOXIN RELB; COMPND 8 CHAIN: B; COMPND 9 FRAGMENT: UNP RESIDUES 47-79; COMPND 10 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 83333; SOURCE 4 STRAIN: K-12; SOURCE 5 GENE: RELE, B1563, JW1555; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 9 EXPRESSION_SYSTEM_VARIANT: DE3; SOURCE 10 EXPRESSION_SYSTEM_VECTOR: PET28A; SOURCE 11 OTHER_DETAILS: RELE IS EXPRESSED WITH HIS-TAG FUSION. THE HIS-TAG IS SOURCE 12 REMOVED BY THROMBIN AFTERWARD; SOURCE 13 MOL_ID: 2; SOURCE 14 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 15 ORGANISM_TAXID: 83333; SOURCE 16 STRAIN: K-12; SOURCE 17 GENE: RELB, B1564, JW1556; SOURCE 18 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 19 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 20 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 21 EXPRESSION_SYSTEM_VARIANT: DE3; SOURCE 22 EXPRESSION_SYSTEM_VECTOR: PGEX2T; SOURCE 23 OTHER_DETAILS: RELBC (K47-L79) IS EXPRESSED WITH GST-TAG FUSION. THE SOURCE 24 GST-TAG IS REMOVED BY THROMBIN AFTERWARD KEYWDS PROTEIN-PROTEIN COMPLEX, TOXIN RELE, ANTITOXIN RELB, REPRESSOR, KEYWDS 2 STRESS RESPONSE, TOXIN, TRANSCRIPTION, TRANSCRIPTION REGULATION, KEYWDS 3 TOXIN-TOXIN REPRESSOR COMPLEX EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR G.LI,Y.ZHANG,M.INOUYE,M.IKURA REVDAT 4 22-MAY-24 2KC8 1 REMARK REVDAT 3 20-OCT-21 2KC8 1 REMARK SEQADV REVDAT 2 30-JUN-09 2KC8 1 JRNL REVDAT 1 17-MAR-09 2KC8 0 JRNL AUTH G.Y.LI,Y.ZHANG,M.INOUYE,M.IKURA JRNL TITL INHIBITORY MECHANISM OF ESCHERICHIA COLI RELE-RELB JRNL TITL 2 TOXIN-ANTITOXIN MODULE INVOLVES A HELIX DISPLACEMENT NEAR AN JRNL TITL 3 MRNA INTERFERASE ACTIVE SITE. JRNL REF J.BIOL.CHEM. V. 284 14628 2009 JRNL REFN ISSN 0021-9258 JRNL PMID 19297318 JRNL DOI 10.1074/JBC.M809656200 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : TOPSPIN 2.0, CNS 1.1 REMARK 3 AUTHORS : BRUKER BIOSPIN (TOPSPIN), BRUNGER, ADAMS, CLORE, REMARK 3 GROS, NILGES AND READ (CNS) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2KC8 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 02-FEB-09. REMARK 100 THE DEPOSITION ID IS D_1000100940. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 296.5 REMARK 210 PH : 6.5 REMARK 210 IONIC STRENGTH : 0.5 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 0.5 MM [U-13C; U-15N] RELE-1, REMARK 210 0.5 MM RELBC-2, 25 MM SODIUM REMARK 210 PHOSPHATE-3, 500 MM SODIUM REMARK 210 CHLORIDE-4, 1 MM DTT-5, 0.5 MM REMARK 210 SODIUM AZIDE-6, 90% H2O/10% D2O; REMARK 210 0.5 MM RELE-7, 0.5 MM [U-13C; U- REMARK 210 15N] RELBC-8, 25 MM SODIUM REMARK 210 PHOSPHATE-9, 500 MM SODIUM REMARK 210 CHLORIDE-10, 1 MM DTT-11, 0.5 MM REMARK 210 SODIUM AZIDE-12, 90% H2O/10% D2O; REMARK 210 0.5 MM [U-13C; U-15N] RELE-13, REMARK 210 0.5 MM RELBC-14, 25 MM SODIUM REMARK 210 PHOSPHATE-15, 500 MM SODIUM REMARK 210 CHLORIDE-16, 1 MM DTT-17, 0.5 MM REMARK 210 SODIUM AZIDE-18, 100% D2O; 0.5 REMARK 210 MM RELE-19, 0.5 MM [U-13C; U-15N] REMARK 210 RELBC-20, 25 MM SODIUM REMARK 210 PHOSPHATE-21, 500 MM SODIUM REMARK 210 CHLORIDE-22, 1 MM DTT-23, 0.5 MM REMARK 210 SODIUM AZIDE-24, 100% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 3D HNCACB; 3D REMARK 210 C(CO)NH; 3D H(CCO)NH; 3D HNCO; REMARK 210 3D 1H-15N NOESY; 2D 1H-13C HSQC; REMARK 210 3D HCCH-COSY; 3D HCCH-TOCSY; 3D REMARK 210 1H-13C NOESY; 3D X-FILTERED 1H- REMARK 210 13C NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 800 MHZ; 600 MHZ; 500 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE; INOVA REMARK 210 SPECTROMETER MANUFACTURER : BRUKER; VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NMRPIPE, XEASY, CYANA 2.1, CNS REMARK 210 1.1, MOLMOL, PROCHECKNMR, VNMR REMARK 210 METHOD USED : TORSION ANGLE DYNAMICS, REMARK 210 SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LOWEST REMARK 210 ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: NULL REMARK 215 REMARK 215 NMR STUDY REMARK 215 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM SOLUTION REMARK 215 NMR DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE THAT REMARK 215 CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES ON REMARK 215 THESE RECORDS ARE MEANINGLESS. 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: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 465 SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 MODELS 1-20 REMARK 465 RES C SSSEQI REMARK 465 GLY A -2 REMARK 465 SER A -1 REMARK 465 HIS A 0 REMARK 465 GLY B 44 REMARK 465 SER B 45 REMARK 465 HIS B 46 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS 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 HZ2 LYS A 52 OD2 ASP B 55 1.60 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 1 SER A 84 -70.58 -56.01 REMARK 500 1 ALA A 90 -84.62 60.61 REMARK 500 1 ARG A 93 -75.23 -110.62 REMARK 500 1 GLN B 48 140.72 77.04 REMARK 500 1 SER B 52 -155.58 -145.41 REMARK 500 1 ASN B 68 73.15 -169.69 REMARK 500 1 LYS B 70 81.81 69.10 REMARK 500 2 SER A 36 84.68 -161.10 REMARK 500 2 SER A 58 -53.90 -148.95 REMARK 500 2 VAL A 71 74.19 56.63 REMARK 500 2 ALA A 90 103.18 69.00 REMARK 500 2 VAL A 91 -171.84 53.08 REMARK 500 2 ARG A 93 -52.21 -158.24 REMARK 500 2 SER B 52 -159.32 -151.61 REMARK 500 2 ASN B 68 89.54 -160.24 REMARK 500 2 LYS B 70 84.41 69.39 REMARK 500 3 ALA A 83 24.13 -144.18 REMARK 500 3 SER B 52 -159.98 -154.76 REMARK 500 3 ASN B 68 80.54 -150.54 REMARK 500 3 LYS B 70 81.03 63.73 REMARK 500 4 SER A 36 108.06 -166.12 REMARK 500 4 ALA A 81 -162.18 -120.51 REMARK 500 4 SER A 84 -54.44 76.67 REMARK 500 4 GLU A 85 33.79 -96.09 REMARK 500 4 ARG A 93 112.09 179.42 REMARK 500 4 ASN B 68 81.49 -160.32 REMARK 500 5 SER A 36 86.40 -150.19 REMARK 500 5 SER A 58 -36.76 -143.44 REMARK 500 5 ALA A 83 -29.99 -143.59 REMARK 500 5 SER B 52 -152.99 -154.88 REMARK 500 5 ASN B 68 88.50 -169.52 REMARK 500 5 PRO B 69 -71.85 -82.98 REMARK 500 5 LYS B 70 79.53 75.33 REMARK 500 6 VAL A 71 63.53 62.69 REMARK 500 6 GLU A 85 97.65 173.52 REMARK 500 6 ILE A 94 -61.64 71.33 REMARK 500 6 SER B 52 -88.33 -164.26 REMARK 500 6 ASN B 68 78.39 -168.90 REMARK 500 6 PRO B 69 -66.23 -92.83 REMARK 500 6 LYS B 70 85.16 71.03 REMARK 500 7 ALA A 83 11.39 -140.10 REMARK 500 7 GLU A 85 19.13 -146.77 REMARK 500 7 SER B 52 -155.16 -156.79 REMARK 500 7 ASN B 68 78.05 -163.64 REMARK 500 7 LYS B 70 87.11 68.64 REMARK 500 8 VAL A 71 72.98 54.94 REMARK 500 8 ALA A 83 29.35 -170.66 REMARK 500 8 ALA A 90 -169.93 68.76 REMARK 500 8 ASN B 68 83.99 -155.23 REMARK 500 8 LYS B 70 74.36 61.75 REMARK 500 REMARK 500 THIS ENTRY HAS 115 RAMACHANDRAN OUTLIERS. 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 2 ARG B 73 0.08 SIDE CHAIN REMARK 500 5 ARG B 73 0.10 SIDE CHAIN REMARK 500 8 ARG A 45 0.07 SIDE CHAIN REMARK 500 12 ARG B 73 0.07 SIDE CHAIN REMARK 500 13 ARG A 45 0.09 SIDE CHAIN REMARK 500 13 ARG B 73 0.08 SIDE CHAIN REMARK 500 19 ARG B 73 0.08 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2KC9 RELATED DB: PDB REMARK 900 STRUCTURE OF E. COLI TOXIN RELE (R81A/R83A) MUTANT IN THE FREE STATE DBREF 2KC8 A 1 95 UNP P0C077 RELE_ECOLI 1 95 DBREF 2KC8 B 47 79 UNP P0C079 RELB_ECOLI 47 79 SEQADV 2KC8 GLY A -2 UNP P0C077 EXPRESSION TAG SEQADV 2KC8 SER A -1 UNP P0C077 EXPRESSION TAG SEQADV 2KC8 HIS A 0 UNP P0C077 EXPRESSION TAG SEQADV 2KC8 ALA A 81 UNP P0C077 ARG 81 ENGINEERED MUTATION SEQADV 2KC8 ALA A 83 UNP P0C077 ARG 83 ENGINEERED MUTATION SEQADV 2KC8 GLY B 44 UNP P0C079 EXPRESSION TAG SEQADV 2KC8 SER B 45 UNP P0C079 EXPRESSION TAG SEQADV 2KC8 HIS B 46 UNP P0C079 EXPRESSION TAG SEQRES 1 A 98 GLY SER HIS MET ALA TYR PHE LEU ASP PHE ASP GLU ARG SEQRES 2 A 98 ALA LEU LYS GLU TRP ARG LYS LEU GLY SER THR VAL ARG SEQRES 3 A 98 GLU GLN LEU LYS LYS LYS LEU VAL GLU VAL LEU GLU SER SEQRES 4 A 98 PRO ARG ILE GLU ALA ASN LYS LEU ARG GLY MET PRO ASP SEQRES 5 A 98 CYS TYR LYS ILE LYS LEU ARG SER SER GLY TYR ARG LEU SEQRES 6 A 98 VAL TYR GLN VAL ILE ASP GLU LYS VAL VAL VAL PHE VAL SEQRES 7 A 98 ILE SER VAL GLY LYS ALA GLU ALA SER GLU VAL TYR SER SEQRES 8 A 98 GLU ALA VAL LYS ARG ILE LEU SEQRES 1 B 36 GLY SER HIS LYS GLN THR LEU LEU SER ASP GLU ASP ALA SEQRES 2 B 36 GLU LEU VAL GLU ILE VAL LYS GLU ARG LEU ARG ASN PRO SEQRES 3 B 36 LYS PRO VAL ARG VAL THR LEU ASP GLU LEU HELIX 1 1 GLU A 9 LYS A 17 1 9 HELIX 2 2 GLY A 19 LEU A 34 1 16 HELIX 3 3 ILE A 39 LYS A 43 5 5 HELIX 4 4 ALA A 83 GLU A 89 1 7 HELIX 5 5 GLU B 54 ARG B 67 1 14 SHEET 1 A 5 CYS A 50 LYS A 54 0 SHEET 2 A 5 ARG A 61 ILE A 67 -1 O LEU A 62 N ILE A 53 SHEET 3 A 5 VAL A 72 GLY A 79 -1 O VAL A 72 N ILE A 67 SHEET 4 A 5 PHE A 4 ASP A 8 1 N ASP A 6 O VAL A 75 SHEET 5 A 5 PRO B 71 VAL B 74 -1 O VAL B 74 N LEU A 5 CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 P 1 1 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 1.000000 0.000000 0.000000 0.00000 SCALE2 0.000000 1.000000 0.000000 0.00000 SCALE3 0.000000 0.000000 1.000000 0.00000 MODEL 1