HEADER TRANSHYDROGENASE 22-JUN-00 1E3T TITLE SOLUTION STRUCTURE OF THE NADP(H) BINDING COMPONENT (DIII) OF PROTON- TITLE 2 TRANSLOCATING TRANSHYDROGENASE FROM RHODOSPIRILLUM RUBRUM COMPND MOL_ID: 1; COMPND 2 MOLECULE: NICOTINAMIDE NUCLEOTIDE TRANSHYDROGENASE (SUBUNIT BETA); COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: NADP(H) BINDING DOMAIN; COMPND 5 SYNONYM: DIII, NAD(P)(+) TRANSHYDROGENASE (B-SPECIFIC), PYRIDINE COMPND 6 NUCLEOTIDE TRANSHYDROGENASE; COMPND 7 EC: 1.6.1.1; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: RHODOSPIRILLUM RUBRUM; SOURCE 3 ORGANISM_TAXID: 1085; SOURCE 4 GENE: PNTB; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PET11C KEYWDS TRANSHYDROGENASE, MEMBRANE PROTEIN, PROTON TRANSLOCATION, NUCLEOTIDE KEYWDS 2 BINDING EXPDTA SOLUTION NMR MDLTYP MINIMIZED AVERAGE AUTHOR M.JEEVES,K.J.SMITH,P.G.QUIRK,N.P.J.COTTON,J.B.JACKSON REVDAT 3 15-MAY-24 1E3T 1 REMARK REVDAT 2 24-FEB-09 1E3T 1 VERSN REVDAT 1 03-OCT-00 1E3T 0 JRNL AUTH M.JEEVES,K.J.SMITH,P.G.QUIRK,N.P.J.COTTON,J.B.JACKSON JRNL TITL SOLUTION STRUCTURE OF THE NADP(H)-BINDING COMPONENT (DIII) JRNL TITL 2 OF PROTON-TRANSLOCATING TRANSHYDROGENASE FROM RHODOSPIRILLUM JRNL TITL 3 RUBRUM JRNL REF BIOCHIM.BIOPHYS.ACTA V.1459 248 2000 JRNL REFN ISSN 0006-3002 JRNL PMID 11004437 JRNL DOI 10.1016/S0005-2728(00)00159-6 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR 3.851 REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REFINEMENT DETAILS CAN BE FOUND IN THE REMARK 3 BBA REFERNCE CITED. REMARK 4 REMARK 4 1E3T COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 22-JUN-00. REMARK 100 THE DEPOSITION ID IS D_1290005065. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 303 REMARK 210 PH : 7.2 REMARK 210 IONIC STRENGTH : 20 MM HEPES REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : NULL REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 13C; 15N RESOLVED NOESYS REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : UNITY REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : ARIA IN XPLOR 3.851 REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 1 REMARK 210 CONFORMERS, SELECTION CRITERIA : AVERAGE OF 10 LOWEST ENERGY REMARK 210 STRUCTURES REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : NULL REMARK 210 REMARK 210 REMARK: AVERAGE STRUCTURE. THE STRUCTURE WAS DETERMINED USING REMARK 210 TRIPLE-RESONANCE NMR SPECTROSCOPY ON UNLABELLED, 15N LABELLED REMARK 210 AND 13C, 15N-LABELLED DIII. 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 RES C SSSEQI REMARK 465 MET A 1 REMARK 465 ASN A 2 REMARK 465 ARG A 3 REMARK 465 SER A 4 REMARK 465 ILE A 5 REMARK 465 PHE A 6 REMARK 465 ASN A 7 REMARK 465 VAL A 8 REMARK 465 ILE A 9 REMARK 465 LEU A 10 REMARK 465 GLY A 11 REMARK 465 GLY A 12 REMARK 465 PHE A 13 REMARK 465 GLY A 14 REMARK 465 SER A 15 REMARK 465 GLU A 16 REMARK 465 GLY A 17 REMARK 465 GLY A 18 REMARK 465 VAL A 19 REMARK 465 ALA A 20 REMARK 465 ALA A 21 REMARK 465 ALA A 22 REMARK 465 GLY A 23 REMARK 465 GLY A 24 REMARK 465 ALA A 25 REMARK 465 ALA A 26 REMARK 465 GLY A 27 REMARK 465 ASP A 28 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 O HIS A 94 H VAL A 97 1.37 REMARK 500 H PHE A 162 O MET A 185 1.47 REMARK 500 O GLY A 158 HG1 THR A 184 1.51 REMARK 500 O GLN A 61 H ALA A 65 1.51 REMARK 500 O ASP A 190 H LYS A 193 1.52 REMARK 500 O HIS A 85 H VAL A 87 1.53 REMARK 500 O ALA A 39 H MET A 43 1.56 REMARK 500 O PRO A 92 H HIS A 94 1.58 REMARK 500 O VAL A 127 O LEU A 161 2.13 REMARK 500 O ASN A 182 N THR A 184 2.15 REMARK 500 O LEU A 152 N VAL A 154 2.19 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 SER A 30 -101.41 -137.63 REMARK 500 VAL A 31 36.13 -175.23 REMARK 500 ALA A 33 -77.23 -156.59 REMARK 500 SER A 35 -124.61 -81.16 REMARK 500 ALA A 40 -32.80 -38.05 REMARK 500 MET A 43 -72.69 -114.87 REMARK 500 ASN A 45 46.86 -167.23 REMARK 500 SER A 47 -45.51 -19.57 REMARK 500 VAL A 49 -157.30 -135.69 REMARK 500 ILE A 50 103.26 -162.35 REMARK 500 MET A 57 -76.83 -10.66 REMARK 500 GLN A 61 -27.74 155.03 REMARK 500 ALA A 70 -8.33 -48.63 REMARK 500 VAL A 80 101.74 -168.68 REMARK 500 PRO A 86 41.78 -65.93 REMARK 500 VAL A 87 18.35 -165.65 REMARK 500 ALA A 88 82.30 -69.54 REMARK 500 ARG A 90 -113.32 -83.69 REMARK 500 MET A 91 176.78 -53.66 REMARK 500 PRO A 92 -80.97 -76.38 REMARK 500 ALA A 102 -79.28 -79.93 REMARK 500 ASN A 103 -30.70 -178.21 REMARK 500 VAL A 104 155.46 -47.81 REMARK 500 GLU A 111 -89.80 -57.09 REMARK 500 LEU A 112 -79.59 -132.05 REMARK 500 VAL A 124 -169.62 -169.69 REMARK 500 ALA A 125 93.15 -172.74 REMARK 500 ASN A 131 -77.74 -156.58 REMARK 500 ASN A 135 91.27 -32.20 REMARK 500 PRO A 136 0.48 -69.44 REMARK 500 THR A 140 -62.18 -104.57 REMARK 500 SER A 144 157.35 -39.78 REMARK 500 ILE A 146 -159.45 -114.90 REMARK 500 MET A 149 -153.23 -176.71 REMARK 500 ILE A 151 -132.40 -55.11 REMARK 500 ASP A 153 70.37 -10.55 REMARK 500 LYS A 156 49.48 -82.09 REMARK 500 ARG A 165 -75.05 -54.10 REMARK 500 SER A 166 -70.24 -174.26 REMARK 500 SER A 169 -70.37 -73.25 REMARK 500 ALA A 172 -62.01 -151.38 REMARK 500 VAL A 174 -140.82 -85.38 REMARK 500 GLU A 175 121.79 -36.13 REMARK 500 ASN A 176 36.42 -165.81 REMARK 500 LEU A 178 -29.12 -35.57 REMARK 500 PHE A 179 38.45 -77.69 REMARK 500 ASN A 182 132.88 -22.50 REMARK 500 ASN A 183 58.17 -14.15 REMARK 500 MET A 185 -143.15 -170.22 REMARK 500 PHE A 188 139.49 -35.17 REMARK 500 REMARK 500 THIS ENTRY HAS 54 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 ARG A 29 0.30 SIDE CHAIN REMARK 500 ARG A 67 0.31 SIDE CHAIN REMARK 500 ARG A 90 0.32 SIDE CHAIN REMARK 500 ARG A 165 0.15 SIDE CHAIN REMARK 500 ARG A 181 0.16 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 650 REMARK 650 HELIX REMARK 650 DETERMINATION METHOD: AUTHOR PROVIDED. REMARK 700 REMARK 700 SHEET REMARK 700 DETERMINATION METHOD: AUTHOR PROVIDED. REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NAP A 755 DBREF 1E3T A 1 203 UNP Q59765 Q59765 262 464 SEQRES 1 A 203 MET ASN ARG SER ILE PHE ASN VAL ILE LEU GLY GLY PHE SEQRES 2 A 203 GLY SER GLU GLY GLY VAL ALA ALA ALA GLY GLY ALA ALA SEQRES 3 A 203 GLY ASP ARG SER VAL LYS ALA GLY SER ALA GLU ASP ALA SEQRES 4 A 203 ALA PHE ILE MET LYS ASN ALA SER LYS VAL ILE ILE VAL SEQRES 5 A 203 PRO GLY TYR GLY MET ALA VAL ALA GLN ALA GLN HIS ALA SEQRES 6 A 203 LEU ARG GLU MET ALA ASP VAL LEU LYS LYS GLU GLY VAL SEQRES 7 A 203 GLU VAL SER TYR ALA ILE HIS PRO VAL ALA GLY ARG MET SEQRES 8 A 203 PRO GLY HIS MET ASN VAL LEU LEU ALA GLU ALA ASN VAL SEQRES 9 A 203 PRO TYR ASP GLU VAL PHE GLU LEU GLU GLU ILE ASN SER SEQRES 10 A 203 SER PHE GLN THR ALA ASP VAL ALA PHE VAL ILE GLY ALA SEQRES 11 A 203 ASN ASP VAL THR ASN PRO ALA ALA LYS THR ASP PRO SER SEQRES 12 A 203 SER PRO ILE TYR GLY MET PRO ILE LEU ASP VAL GLU LYS SEQRES 13 A 203 ALA GLY THR VAL LEU PHE ILE LYS ARG SER MET ALA SER SEQRES 14 A 203 GLY TYR ALA GLY VAL GLU ASN GLU LEU PHE PHE ARG ASN SEQRES 15 A 203 ASN THR MET MET LEU PHE GLY ASP ALA LYS LYS MET THR SEQRES 16 A 203 GLU GLN ILE VAL GLN ALA MET ASN HET NAP A 755 73 HETNAM NAP NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE HETSYN NAP 2'-MONOPHOSPHOADENOSINE 5'-DIPHOSPHORIBOSE FORMUL 2 NAP C21 H28 N7 O17 P3 HELIX 1 1 ALA A 36 ILE A 42 1 7 HELIX 2 2 GLY A 56 ALA A 62 1 7 HELIX 3 3 ALA A 62 GLU A 76 1 15 HELIX 4 4 GLY A 93 ASN A 103 1 11 HELIX 5 5 GLU A 114 ALA A 122 1 9 HELIX 6 6 ALA A 137 THR A 140 1 4 HELIX 7 7 ALA A 191 GLN A 200 1 10 SHEET 1 A 6 GLU A 108 GLU A 111 0 SHEET 2 A 6 GLU A 79 HIS A 85 1 O ILE A 84 N PHE A 110 SHEET 3 A 6 LYS A 48 GLY A 54 1 O VAL A 49 N GLU A 79 SHEET 4 A 6 VAL A 124 GLY A 129 1 O ILE A 128 N GLY A 54 SHEET 5 A 6 GLY A 158 PHE A 162 1 O THR A 159 N ALA A 125 SHEET 6 A 6 ASN A 183 MET A 185 1 O MET A 185 N PHE A 162 SITE 1 AC1 18 TYR A 55 GLY A 56 VAL A 87 ALA A 88 SITE 2 AC1 18 GLY A 89 ARG A 90 MET A 91 PRO A 92 SITE 3 AC1 18 GLY A 129 ASN A 131 ASP A 132 VAL A 133 SITE 4 AC1 18 LYS A 164 ARG A 165 ALA A 168 SER A 169 SITE 5 AC1 18 GLY A 170 TYR A 171 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