HEADER OXIDOREDUCTASE 24-APR-17 5VKV TITLE SOLUTION NMR STRUCTURE OF THE MEMBRANE ELECTRON TRANSPORTER CCDA COMPND MOL_ID: 1; COMPND 2 MOLECULE: CYTOCHROME C-TYPE BIOGENESIS PROTEIN CCDA; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: THERMUS THERMOPHILUS (STRAIN HB8 / ATCC 27634 / SOURCE 3 DSM 579); SOURCE 4 ORGANISM_TAXID: 300852; SOURCE 5 STRAIN: HB8 / ATCC 27634 / DSM 579; SOURCE 6 GENE: TTHA1409; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET22B KEYWDS MEMBRANE TRANSPORTER, OXIDOREDUCTASE, DSBD EXPDTA SOLUTION NMR NUMMDL 10 AUTHOR Y.ZHOU,J.H.BUSHWELLER REVDAT 5 14-JUN-23 5VKV 1 REMARK REVDAT 4 01-JAN-20 5VKV 1 REMARK REVDAT 3 21-FEB-18 5VKV 1 JRNL REVDAT 2 14-FEB-18 5VKV 1 JRNL REVDAT 1 31-JAN-18 5VKV 0 JRNL AUTH Y.ZHOU,J.H.BUSHWELLER JRNL TITL SOLUTION STRUCTURE AND ELEVATOR MECHANISM OF THE MEMBRANE JRNL TITL 2 ELECTRON TRANSPORTER CCDA. JRNL REF NAT. STRUCT. MOL. BIOL. V. 25 163 2018 JRNL REFN ESSN 1545-9985 JRNL PMID 29379172 JRNL DOI 10.1038/S41594-018-0022-Z REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : XPLOR-NIH 2.39 REMARK 3 AUTHORS : SCHWIETERS, KUSZEWSKI, TJANDRA AND CLORE REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 5VKV COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 25-APR-17. REMARK 100 THE DEPOSITION ID IS D_1000227133. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 343 REMARK 210 PH : 5.5 REMARK 210 IONIC STRENGTH : 100 REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : 0.37 MM [U-13C; U-15N; U-2H] REMARK 210 CCDA, 25 MM SODIUM ACETATE, 25 REMARK 210 MM POTASSIUM PHOSPHATE, 50 MM REMARK 210 SODIUM CHLORIDE, 0.05 % SODIUM REMARK 210 AZIDE, 90% H2O/10% D2O; 0.7 MM REMARK 210 [U-15N; U-2H] CCDA, 25 MM SODIUM REMARK 210 ACETATE, 25 MM POTASSIUM REMARK 210 PHOSPHATE, 50 MM SODIUM CHLORIDE, REMARK 210 0.05 % SODIUM AZIDE, 90% H2O/10% REMARK 210 D2O; 0.7 MM [U-15N; U-2H] CCDA, REMARK 210 25 MM SODIUM ACETATE, 25 MM REMARK 210 POTASSIUM PHOSPHATE, 50 MM REMARK 210 SODIUM CHLORIDE, 0.05 % SODIUM REMARK 210 AZIDE, 90% H2O/10% D2O; 0.2 MM REMARK 210 [U-15N] CCDA SINGLE CYS MUTANTS REMARK 210 LABELED WITH MTSL, 25 MM SODIUM REMARK 210 ACETATE, 25 MM POTASSIUM REMARK 210 PHOSPHATE, 50 MM SODIUM CHLORIDE, REMARK 210 0.05 % SODIUM AZIDE, 90% H2O/10% REMARK 210 D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 3D HNCA; 3D REMARK 210 HN(CO)CA; 3D HNCO; 3D HN(CA)CO; REMARK 210 3D HNCACB; 3D 1H-15N NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 800 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE III REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : X-PLOR NIH 2.39, ANALYSIS 2.4.2, REMARK 210 TOPSPIN, NMRPIPE, TALOS-N REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 200 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 10 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 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 1-10 REMARK 465 RES C SSSEQI REMARK 465 HIS A 225 REMARK 465 HIS A 226 REMARK 465 HIS A 227 REMARK 465 HIS A 228 REMARK 465 HIS A 229 REMARK 465 HIS A 230 REMARK 465 HIS A 231 REMARK 465 HIS A 232 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 VAL A 21 -79.74 -116.98 REMARK 500 1 LEU A 22 82.61 51.15 REMARK 500 1 ALA A 35 -113.28 57.74 REMARK 500 1 ARG A 36 -36.92 -132.11 REMARK 500 1 GLU A 70 -133.36 -97.27 REMARK 500 1 GLU A 106 -93.58 62.28 REMARK 500 1 THR A 202 -133.42 57.30 REMARK 500 2 VAL A 21 137.01 71.11 REMARK 500 2 GLU A 70 -110.14 -94.50 REMARK 500 2 TYR A 103 77.08 -100.10 REMARK 500 2 TRP A 124 -170.44 63.41 REMARK 500 3 ALA A 35 -101.06 62.99 REMARK 500 3 LEU A 101 78.39 -109.64 REMARK 500 3 GLU A 104 -157.59 61.84 REMARK 500 4 VAL A 21 65.69 60.65 REMARK 500 4 ALA A 35 -68.34 -124.50 REMARK 500 4 ARG A 38 82.82 58.38 REMARK 500 4 ARG A 102 -72.15 70.71 REMARK 500 4 THR A 202 -72.20 67.23 REMARK 500 4 PHE A 203 -50.19 -163.84 REMARK 500 5 ARG A 38 91.25 66.40 REMARK 500 5 TRP A 97 -90.44 65.83 REMARK 500 5 VAL A 99 -89.64 -120.73 REMARK 500 5 ALA A 176 -70.10 -59.08 REMARK 500 5 THR A 202 -65.22 70.57 REMARK 500 5 THR A 204 -41.42 73.72 REMARK 500 6 CYS A 20 44.84 -82.43 REMARK 500 6 VAL A 21 54.66 -94.78 REMARK 500 6 SER A 100 40.53 -85.63 REMARK 500 6 LEU A 101 -106.19 59.36 REMARK 500 6 THR A 107 70.98 59.52 REMARK 500 6 THR A 202 -70.31 68.37 REMARK 500 6 THR A 204 -40.33 74.24 REMARK 500 7 VAL A 21 65.28 61.46 REMARK 500 7 GLU A 70 39.84 -95.52 REMARK 500 7 HIS A 71 160.87 73.40 REMARK 500 7 SER A 100 -76.22 -103.40 REMARK 500 7 LEU A 101 -108.53 58.50 REMARK 500 7 ARG A 102 -146.44 58.07 REMARK 500 7 TYR A 103 -59.64 -121.91 REMARK 500 7 THR A 125 85.66 58.50 REMARK 500 8 LEU A 3 48.28 -90.45 REMARK 500 8 VAL A 21 -155.71 55.60 REMARK 500 8 LEU A 22 -56.79 -173.62 REMARK 500 8 PRO A 95 -72.92 -69.77 REMARK 500 8 VAL A 99 41.19 -93.92 REMARK 500 8 THR A 107 52.38 -92.28 REMARK 500 8 THR A 202 68.64 -67.64 REMARK 500 8 PHE A 203 -73.05 -165.23 REMARK 500 8 THR A 204 12.19 -158.22 REMARK 500 REMARK 500 THIS ENTRY HAS 64 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 30286 RELATED DB: BMRB REMARK 900 SOLUTION NMR STRUCTURE OF THE MEMBRANE ELECTRON TRANSPORTER CCDA DBREF 5VKV A 1 222 UNP Q5SIG0 Q5SIG0_THET8 1 222 SEQADV 5VKV ALA A 35 UNP Q5SIG0 GLU 35 ENGINEERED MUTATION SEQADV 5VKV PRO A 223 UNP Q5SIG0 EXPRESSION TAG SEQADV 5VKV SER A 224 UNP Q5SIG0 EXPRESSION TAG SEQADV 5VKV HIS A 225 UNP Q5SIG0 EXPRESSION TAG SEQADV 5VKV HIS A 226 UNP Q5SIG0 EXPRESSION TAG SEQADV 5VKV HIS A 227 UNP Q5SIG0 EXPRESSION TAG SEQADV 5VKV HIS A 228 UNP Q5SIG0 EXPRESSION TAG SEQADV 5VKV HIS A 229 UNP Q5SIG0 EXPRESSION TAG SEQADV 5VKV HIS A 230 UNP Q5SIG0 EXPRESSION TAG SEQADV 5VKV HIS A 231 UNP Q5SIG0 EXPRESSION TAG SEQADV 5VKV HIS A 232 UNP Q5SIG0 EXPRESSION TAG SEQRES 1 A 232 MET SER LEU SER LEU THR ALA ALA PHE LEU ALA GLY VAL SEQRES 2 A 232 LEU SER PHE LEU SER PRO CYS VAL LEU PRO LEU VAL PRO SEQRES 3 A 232 THR TYR LEU PHE TYR LEU GLY GLY ALA ARG GLY ARG PRO SEQRES 4 A 232 LEU PHE ASN ALA LEU PHE PHE ILE LEU GLY PHE GLY ALA SEQRES 5 A 232 VAL PHE PHE LEU LEU GLY LEU PRO PHE THR LEU LEU GLY SEQRES 6 A 232 GLY LEU LEU PHE GLU HIS ARG GLN THR LEU ALA ARG VAL SEQRES 7 A 232 GLY GLY VAL VAL LEU VAL LEU PHE GLY LEU TYR MET LEU SEQRES 8 A 232 GLY LEU ARG PRO ARG TRP GLY VAL SER LEU ARG TYR GLU SEQRES 9 A 232 GLY GLU THR SER ARG PRO LEU GLY ALA PHE LEU LEU GLY SEQRES 10 A 232 ALA THR LEU ALA LEU GLY TRP THR PRO CYS ILE GLY PRO SEQRES 11 A 232 ILE LEU GLY ALA ILE LEU THR LEU THR ALA VAL GLY GLY SEQRES 12 A 232 GLY VAL GLY PHE LEU LEU ALA TYR ILE LEU GLY LEU ALA SEQRES 13 A 232 VAL PRO PHE PHE VAL VAL ALA LEU PHE ALA ASP ARG ILE SEQRES 14 A 232 LYS GLY TRP LEU ARG ARG ALA GLY ARG ILE SER HIS TYR SEQRES 15 A 232 VAL GLU VAL LEU ALA GLY VAL VAL LEU VAL LEU VAL GLY SEQRES 16 A 232 VAL LEU LEU PHE THR GLY THR PHE THR ALA LEU ASN THR SEQRES 17 A 232 PHE PHE LEU ARG ILE THR PRO GLU TRP LEU GLN ARG TYR SEQRES 18 A 232 LEU PRO SER HIS HIS HIS HIS HIS HIS HIS HIS HELIX 1 AA1 SER A 4 SER A 18 1 15 HELIX 2 AA2 PRO A 23 TYR A 31 1 9 HELIX 3 AA3 LEU A 32 GLY A 34 5 3 HELIX 4 AA4 ARG A 38 LEU A 57 1 20 HELIX 5 AA5 PRO A 60 GLY A 65 1 6 HELIX 6 AA6 GLY A 66 GLU A 70 5 5 HELIX 7 AA7 GLN A 73 LEU A 91 1 19 HELIX 8 AA8 SER A 108 GLY A 123 1 16 HELIX 9 AA9 THR A 125 CYS A 127 5 3 HELIX 10 AB1 ILE A 128 ALA A 140 1 13 HELIX 11 AB2 GLY A 144 GLY A 177 1 34 HELIX 12 AB3 ARG A 178 THR A 200 1 23 HELIX 13 AB4 THR A 204 THR A 214 1 11 HELIX 14 AB5 PRO A 215 ARG A 220 1 6 SSBOND 1 CYS A 20 CYS A 127 1555 1555 2.03 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