HEADER MEMBRANE PROTEIN, OXIDOREDUCTASE 01-AUG-08 2K74 TITLE SOLUTION NMR STRUCTURE OF DSBB-UBIQUINONE COMPLEX COMPND MOL_ID: 1; COMPND 2 MOLECULE: DISULFIDE BOND FORMATION PROTEIN B; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: DISULFIDE OXIDOREDUCTASE; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 83333; SOURCE 4 STRAIN: K12; SOURCE 5 GENE: DSBB, ROXB, YCGA; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21-ROSETTA(DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET22B KEYWDS MEMBRANE PROTEIN, DISULFIDE BOND, REDOX ENZYME, DSBB, UBIQUINONE, KEYWDS 2 OXIDATIVE PROTEIN FOLDING, CHAPERONE, ELECTRON TRANSPORT, INNER KEYWDS 3 MEMBRANE, OXIDOREDUCTASE, REDOX-ACTIVE CENTER, TRANSMEMBRANE, KEYWDS 4 TRANSPORT EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR Y.ZHOU,T.CIERPICKI,R.H.FLORES JIMENEZ,S.M.LUKASIK,J.F.ELLENA, AUTHOR 2 D.S.CAFISO,H.KADOKURA,J.BECKWITH,J.H.BUSHWELLER REVDAT 6 20-OCT-21 2K74 1 REMARK SEQADV REVDAT 5 07-DEC-11 2K74 1 JRNL REVDAT 4 13-JUL-11 2K74 1 VERSN REVDAT 3 24-FEB-09 2K74 1 VERSN REVDAT 2 14-OCT-08 2K74 1 REMARK REVDAT 1 07-OCT-08 2K74 0 JRNL AUTH Y.ZHOU,T.CIERPICKI,R.H.JIMENEZ,S.M.LUKASIK,J.F.ELLENA, JRNL AUTH 2 D.S.CAFISO,H.KADOKURA,J.BECKWITH,J.H.BUSHWELLER JRNL TITL NMR SOLUTION STRUCTURE OF THE INTEGRAL MEMBRANE ENZYME DSBB: JRNL TITL 2 FUNCTIONAL INSIGHTS INTO DSBB-CATALYZED DISULFIDE BOND JRNL TITL 3 FORMATION. JRNL REF MOL.CELL V. 31 896 2008 JRNL REFN ISSN 1097-2765 JRNL PMID 18922471 JRNL DOI 10.1016/J.MOLCEL.2008.08.028 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : VNMR, X-PLOR NIH REMARK 3 AUTHORS : VARIAN (VNMR), SCHWIETERS, KUSZEWSKI, TJANDRA AND REMARK 3 CLORE (X-PLOR NIH) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2K74 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 05-AUG-08. REMARK 100 THE DEPOSITION ID IS D_1000100759. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 313 REMARK 210 PH : 6.2 REMARK 210 IONIC STRENGTH : 0.1 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1.2 MM [U-13C; U-15N; U-2H] REMARK 210 DSBB[CSSC], 100 MM [U-2H] DPC, REMARK 210 25 MM SODIUM PHOSPHATE, 50 MM REMARK 210 POTASSIUM CHLORIDE, 95% H2O/5% REMARK 210 D2O; 1.5 MM I,L,V METHYL REMARK 210 PROTONATED, [U-13C; U-15N; U-2H] REMARK 210 DSBB[CSSC], 100 MM [U-2H] DPC, REMARK 210 25 MM SODIUM PHOSPHATE, 50 MM REMARK 210 POTASSIUM CHLORIDE, 95% H2O/5% REMARK 210 D2O; 0.75 MM [U-15N; U-2H] REMARK 210 DSBB[CSSC] SINGLE CYS MUTANTS, REMARK 210 100 MM DPC, 25 MM SODIUM REMARK 210 PHOSPHATE, 50 MM POTASSIUM REMARK 210 CHLORIDE, 95% H2O/5% D2O; 0.4 MM REMARK 210 [U-13C; U-15N; U-2H] DSBB[CSSC], REMARK 210 2.0 MM UQ2, 5 % [U-2H] DMSO, 25 REMARK 210 MM SODIUM PHOSPHATE, 50 MM REMARK 210 POTASSIUM CHLORIDE, 100 MM [U-2H] REMARK 210 DPC, 100% D2O; 0.4 MM [U-13C; U- REMARK 210 15N; U-2H] DSBB[CSSC], 2.0 MM REMARK 210 UQ2, 5 % [U-2H] DMSO, 25 MM REMARK 210 SODIUM PHOSPHATE, 50 MM REMARK 210 POTASSIUM CHLORIDE, 100 MM [U-2H] REMARK 210 DPC, 95% H2O/5% D2O; 10 UM [U- REMARK 210 15N; U-2H] DSBB[CSSC] L30C-MTSL/ REMARK 210 DMTSL, 0.6 MM UQ2, 5 % [U-2H] REMARK 210 DMSO, 25 MM SODIUM PHOSPHATE, 50 REMARK 210 MM POTASSIUM CHLORIDE, 100 MM [U- REMARK 210 2H] DPC, 100% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D HNCO; 3D HN(CA)CO; 3D HNCA; REMARK 210 3D HN(CO)CA; 3D HNCACB; 2D 1H- REMARK 210 15N HSQC; 3D HNCO BASED RDC REMARK 210 EXPERIMENTS; 3D 1H-15N NOESY; 3D REMARK 210 1H-13C NOESY; 2D 1H-13C HSQC; 3D REMARK 210 13C-13C NOESY; 3D HMCM[CG]CBCA; REMARK 210 2D 1H-1H NOESY; CPMG EXPERIMENTS REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : INOVA REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NMRPIPE, SPARKY, MOLMOL REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 195 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: 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 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 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 GLN A 10 6.55 -69.03 REMARK 500 1 ALA A 62 4.67 -67.85 REMARK 500 1 ALA A 64 65.48 -173.23 REMARK 500 1 PRO A 68 -16.66 -38.16 REMARK 500 1 PRO A 98 -159.90 -53.60 REMARK 500 1 SER A 99 152.50 175.09 REMARK 500 1 PRO A 100 154.38 -37.77 REMARK 500 1 PHE A 101 37.78 -78.58 REMARK 500 1 SER A 104 129.90 58.81 REMARK 500 1 PHE A 106 -142.31 -159.33 REMARK 500 1 PRO A 115 15.78 -56.55 REMARK 500 1 PHE A 124 -36.87 -148.57 REMARK 500 1 ALA A 131 -5.41 101.04 REMARK 500 1 TRP A 135 146.54 -173.68 REMARK 500 1 LEU A 138 17.44 48.61 REMARK 500 1 GLN A 164 104.04 -40.07 REMARK 500 1 PRO A 165 2.56 -51.59 REMARK 500 1 PHE A 166 -95.20 56.73 REMARK 500 1 LYS A 167 -11.13 -163.61 REMARK 500 1 LYS A 169 -143.08 -76.06 REMARK 500 1 LYS A 170 -1.53 -158.51 REMARK 500 1 ARG A 171 -68.49 65.08 REMARK 500 1 ARG A 176 -76.24 -91.95 REMARK 500 1 HIS A 178 -136.69 59.45 REMARK 500 1 HIS A 180 91.69 -161.47 REMARK 500 1 HIS A 181 -176.33 -58.70 REMARK 500 1 HIS A 182 82.38 54.24 REMARK 500 2 GLN A 10 5.66 -68.28 REMARK 500 2 ALA A 64 74.38 176.63 REMARK 500 2 PRO A 65 26.80 -77.31 REMARK 500 2 PRO A 68 -4.83 -48.65 REMARK 500 2 ARG A 70 -70.48 -40.83 REMARK 500 2 PRO A 98 -140.72 -52.94 REMARK 500 2 PRO A 100 -88.81 -73.66 REMARK 500 2 PHE A 101 99.23 73.21 REMARK 500 2 THR A 103 -60.64 -96.58 REMARK 500 2 SER A 104 -65.45 -120.00 REMARK 500 2 ASP A 105 -172.02 60.87 REMARK 500 2 VAL A 108 -5.52 61.39 REMARK 500 2 PRO A 111 151.95 -40.96 REMARK 500 2 PRO A 115 4.85 -53.03 REMARK 500 2 PHE A 124 -35.69 -159.54 REMARK 500 2 SER A 127 117.67 -164.19 REMARK 500 2 ALA A 131 -4.37 90.53 REMARK 500 2 TRP A 135 141.68 -172.73 REMARK 500 2 LEU A 138 17.52 54.08 REMARK 500 2 PRO A 143 -37.62 -35.98 REMARK 500 2 SER A 163 -4.82 -54.19 REMARK 500 2 PHE A 166 -109.89 41.26 REMARK 500 2 LYS A 167 98.22 -169.76 REMARK 500 REMARK 500 THIS ENTRY HAS 521 RAMACHANDRAN OUTLIERS. 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 UQ2 A 201 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2HI7 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF DSBB-DSBA COMPLEX REMARK 900 RELATED ID: 2K73 RELATED DB: PDB REMARK 900 SOLUTION NMR STRUCTURE OF DSBB DBREF 2K74 A 1 176 UNP P0A6M2 DSBB_ECOLI 1 176 SEQADV 2K74 ALA A 8 UNP P0A6M2 CYS 8 ENGINEERED MUTATION SEQADV 2K74 SER A 44 UNP P0A6M2 CYS 44 ENGINEERED MUTATION SEQADV 2K74 ALA A 49 UNP P0A6M2 CYS 49 ENGINEERED MUTATION SEQADV 2K74 SER A 104 UNP P0A6M2 CYS 104 ENGINEERED MUTATION SEQADV 2K74 GLY A 177 UNP P0A6M2 EXPRESSION TAG SEQADV 2K74 HIS A 178 UNP P0A6M2 EXPRESSION TAG SEQADV 2K74 HIS A 179 UNP P0A6M2 EXPRESSION TAG SEQADV 2K74 HIS A 180 UNP P0A6M2 EXPRESSION TAG SEQADV 2K74 HIS A 181 UNP P0A6M2 EXPRESSION TAG SEQADV 2K74 HIS A 182 UNP P0A6M2 EXPRESSION TAG SEQADV 2K74 HIS A 183 UNP P0A6M2 EXPRESSION TAG SEQRES 1 A 183 MET LEU ARG PHE LEU ASN GLN ALA SER GLN GLY ARG GLY SEQRES 2 A 183 ALA TRP LEU LEU MET ALA PHE THR ALA LEU ALA LEU GLU SEQRES 3 A 183 LEU THR ALA LEU TRP PHE GLN HIS VAL MET LEU LEU LYS SEQRES 4 A 183 PRO CYS VAL LEU SER ILE TYR GLU ARG ALA ALA LEU PHE SEQRES 5 A 183 GLY VAL LEU GLY ALA ALA LEU ILE GLY ALA ILE ALA PRO SEQRES 6 A 183 LYS THR PRO LEU ARG TYR VAL ALA MET VAL ILE TRP LEU SEQRES 7 A 183 TYR SER ALA PHE ARG GLY VAL GLN LEU THR TYR GLU HIS SEQRES 8 A 183 THR MET LEU GLN LEU TYR PRO SER PRO PHE ALA THR SER SEQRES 9 A 183 ASP PHE MET VAL ARG PHE PRO GLU TRP LEU PRO LEU ASP SEQRES 10 A 183 LYS TRP VAL PRO GLN VAL PHE VAL ALA SER GLY ASP CYS SEQRES 11 A 183 ALA GLU ARG GLN TRP ASP PHE LEU GLY LEU GLU MET PRO SEQRES 12 A 183 GLN TRP LEU LEU GLY ILE PHE ILE ALA TYR LEU ILE VAL SEQRES 13 A 183 ALA VAL LEU VAL VAL ILE SER GLN PRO PHE LYS ALA LYS SEQRES 14 A 183 LYS ARG ASP LEU PHE GLY ARG GLY HIS HIS HIS HIS HIS SEQRES 15 A 183 HIS HET UQ2 A 201 49 HETNAM UQ2 UBIQUINONE-2 FORMUL 2 UQ2 C19 H26 O4 HELIX 1 1 MET A 1 GLN A 10 1 10 HELIX 2 2 GLY A 11 LEU A 37 1 27 HELIX 3 3 CYS A 41 ALA A 62 1 22 HELIX 4 4 PRO A 68 TYR A 97 1 30 HELIX 5 5 LEU A 114 TRP A 119 1 6 HELIX 6 6 VAL A 120 PHE A 124 5 5 HELIX 7 7 MET A 142 SER A 163 1 22 SHEET 1 A 2 ASP A 136 PHE A 137 0 SHEET 2 A 2 LEU A 140 GLU A 141 -1 O LEU A 140 N PHE A 137 SSBOND 1 CYS A 41 CYS A 130 1555 1555 2.02 SITE 1 AC1 14 LEU A 25 GLU A 26 THR A 28 ALA A 29 SITE 2 AC1 14 PHE A 32 GLN A 33 LEU A 38 LYS A 39 SITE 3 AC1 14 PRO A 40 CYS A 41 SER A 44 GLU A 47 SITE 4 AC1 14 GLN A 134 MET A 142 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