HEADER OXIDOREDUCTASE 23-JUN-03 1PTJ TITLE CRYSTAL STRUCTURE ANALYSIS OF THE DI AND DIII COMPLEX OF TITLE 2 TRANSHYDROGENASE WITH A THIO-NICOTINAMIDE NUCLEOTIDE ANALOGUE COMPND MOL_ID: 1; COMPND 2 MOLECULE: NAD(P) TRANSHYDROGENASE SUBUNIT ALPHA PART 1; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: PYRIDINE NUCLEOTIDE TRANSHYDROGENASE SUBUNIT ALPHA 1, COMPND 5 NICOTINAMIDE NUCLEOTIDE TRANSHYDROGENASE SUBUNIT ALPHA 1, PROTON- COMPND 6 TRANSLOCATING TRANSHYDROGENASE COMPONENT 1, DI; COMPND 7 EC: 1.6.1.2; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: NAD(P) TRANSHYDROGENASE SUBUNIT BETA; COMPND 10 CHAIN: C; COMPND 11 FRAGMENT: RESIDUES 291-464; COMPND 12 SYNONYM: PYRIDINE NUCLEOTIDE TRANSHYDROGENASE SUBUNIT BETA, COMPND 13 NICOTINAMIDE NUCLEOTIDE TRANSHYDROGENASE SUBUNIT BETA, PROTON- COMPND 14 TRANSLOCATING TRANSHYDROGENASE NADP(H)-BINDING COMPONENT, DIII; COMPND 15 EC: 1.6.1.2 SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: RHODOSPIRILLUM RUBRUM; SOURCE 3 ORGANISM_TAXID: 1085; SOURCE 4 MOL_ID: 2; SOURCE 5 ORGANISM_SCIENTIFIC: RHODOSPIRILLUM RUBRUM; SOURCE 6 ORGANISM_TAXID: 1085 KEYWDS TRANSHYDROGENASE, THIO-NICOTINAMIDE, MITOCHONDRIA, PROTON KEYWDS 2 TRANSLOCATION, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR A.SINGH,J.D.VENNING,P.G.QUIRK,G.I.VAN BOXEL,D.J.RODRIGUES,S.A.WHITE, AUTHOR 2 J.B.JACKSON REVDAT 5 16-AUG-23 1PTJ 1 REMARK REVDAT 4 31-JAN-18 1PTJ 1 REMARK REVDAT 3 13-JUL-11 1PTJ 1 VERSN REVDAT 2 24-FEB-09 1PTJ 1 VERSN REVDAT 1 07-OCT-03 1PTJ 0 JRNL AUTH A.SINGH,J.D.VENNING,P.G.QUIRK,G.I.VAN BOXEL,D.J.RODRIGUES, JRNL AUTH 2 S.A.WHITE,J.B.JACKSON JRNL TITL INTERACTIONS BETWEEN TRANSHYDROGENASE AND THIO-NICOTINAMIDE JRNL TITL 2 ANALOGUES OF NAD(H) AND NADP(H) UNDERLINE THE IMPORTANCE OF JRNL TITL 3 NUCLEOTIDE CONFORMATIONAL CHANGES IN COUPLING TO PROTON JRNL TITL 4 TRANSLOCATION JRNL REF J.BIOL.CHEM. V. 278 33208 2003 JRNL REFN ISSN 0021-9258 JRNL PMID 12791694 JRNL DOI 10.1074/JBC.M303061200 REMARK 2 REMARK 2 RESOLUTION. 2.61 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 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 : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.61 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 42.26 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 98.4 REMARK 3 NUMBER OF REFLECTIONS : 162328 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) : 0.234 REMARK 3 FREE R VALUE : 0.287 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL 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) : 2.61 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.65 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.40 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.2350 REMARK 3 BIN FREE R VALUE : 0.2870 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 : 6668 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 110 REMARK 3 SOLVENT ATOMS : 146 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 76.50 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 67.70 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -7.04700 REMARK 3 B22 (A**2) : -9.29200 REMARK 3 B33 (A**2) : 16.33900 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 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) : 0.008 REMARK 3 BOND ANGLES (DEGREES) : NULL REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : ISOTROPIC 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 : NULL 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 : PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : THIO_NUC2.PAR REMARK 3 PARAMETER FILE 3 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 4 : GLYCEROL.PAR REMARK 3 PARAMETER FILE 5 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 TOPOLOGY FILE 2 : NULL REMARK 3 TOPOLOGY FILE 3 : NULL REMARK 3 TOPOLOGY FILE 4 : NULL REMARK 3 TOPOLOGY FILE 5 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1PTJ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 24-JUN-03. REMARK 100 THE DEPOSITION ID IS D_1000019558. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID14-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.93 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA, CCP4 (SCALA) REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 162328 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.610 REMARK 200 RESOLUTION RANGE LOW (A) : 42.260 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.4 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.06100 REMARK 200 FOR THE DATA SET : 6.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.61 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.75 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.4 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.33900 REMARK 200 FOR SHELL : 2.000 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: CNS REMARK 200 STARTING MODEL: 1HZZ REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 55.91 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.79 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PH 6.5, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 100K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 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 36.04450 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 102.50700 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 37.34900 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 102.50700 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 36.04450 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 37.34900 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 8910 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 35480 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -45.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C 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. (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 ASP A 223 REMARK 465 GLU A 224 REMARK 465 ALA A 225 REMARK 465 MET A 226 REMARK 465 LYS A 227 REMARK 465 THR A 228 REMARK 465 ALA A 229 REMARK 465 GLU A 230 REMARK 465 THR A 231 REMARK 465 GLY A 372 REMARK 465 ALA A 373 REMARK 465 ILE A 374 REMARK 465 VAL A 375 REMARK 465 HIS A 376 REMARK 465 PRO A 377 REMARK 465 ALA A 378 REMARK 465 LEU A 379 REMARK 465 THR A 380 REMARK 465 GLY A 381 REMARK 465 LYS B 227 REMARK 465 THR B 228 REMARK 465 ALA B 229 REMARK 465 GLU B 230 REMARK 465 THR B 231 REMARK 465 ALA B 232 REMARK 465 GLY B 233 REMARK 465 GLY B 234 REMARK 465 TYR B 235 REMARK 465 ALA B 236 REMARK 465 LYS B 237 REMARK 465 GLU B 238 REMARK 465 MET B 239 REMARK 465 GLY B 240 REMARK 465 GLU B 241 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 LYS B 352 CE NZ 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 LYS A 349 N ASP A 350 1.13 REMARK 500 O LEU A 358 CA GLU A 359 1.36 REMARK 500 O LEU A 358 N GLU A 359 1.38 REMARK 500 O ALA B 4 O HOH B 409 2.09 REMARK 500 N ALA B 4 O HOH B 409 2.16 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 A 349 C ASP A 350 N -0.228 REMARK 500 LEU A 358 C GLU A 359 N -0.761 REMARK 500 LYS B 352 CA LYS B 352 CB 1.409 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 LYS A 349 CA - C - N ANGL. DEV. = 41.8 DEGREES REMARK 500 LYS A 349 O - C - N ANGL. DEV. = -65.5 DEGREES REMARK 500 ASP A 350 C - N - CA ANGL. DEV. = 35.3 DEGREES REMARK 500 LEU A 358 O - C - N ANGL. DEV. = -30.3 DEGREES REMARK 500 LYS B 352 N - CA - CB ANGL. DEV. = -27.9 DEGREES REMARK 500 LYS B 352 CA - CB - CG ANGL. DEV. = 24.9 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 VAL A 74 -62.84 -91.97 REMARK 500 THR A 84 112.78 177.55 REMARK 500 ILE A 90 113.82 -39.68 REMARK 500 CYS A 98 -177.66 176.56 REMARK 500 ALA A 102 -100.84 -18.68 REMARK 500 LEU A 103 -62.06 -14.20 REMARK 500 ARG A 127 41.03 -83.87 REMARK 500 VAL A 180 59.09 -102.42 REMARK 500 ALA A 206 2.45 -69.64 REMARK 500 LYS A 208 -41.66 -27.14 REMARK 500 VAL A 221 -101.22 -139.64 REMARK 500 TYR A 235 -157.88 -146.48 REMARK 500 ALA A 248 14.79 -57.78 REMARK 500 GLU A 249 -92.66 -73.53 REMARK 500 PRO A 345 0.47 -65.84 REMARK 500 ASP A 348 101.06 -51.13 REMARK 500 LYS A 349 141.15 -37.27 REMARK 500 THR A 351 -28.36 -163.45 REMARK 500 LYS A 357 -67.71 -17.87 REMARK 500 LYS A 357 -34.42 -17.87 REMARK 500 LEU A 358 -51.80 66.31 REMARK 500 GLU A 361 -9.71 -55.27 REMARK 500 ARG A 370 41.06 -105.66 REMARK 500 SER B 66 -72.80 -9.66 REMARK 500 VAL B 74 -60.23 -94.84 REMARK 500 CYS B 98 -178.59 179.75 REMARK 500 VAL B 180 66.57 -116.25 REMARK 500 ALA B 206 -6.10 -50.96 REMARK 500 LYS B 208 -38.64 -35.19 REMARK 500 GLU B 224 -127.30 -164.48 REMARK 500 LYS B 245 10.53 -62.84 REMARK 500 ALA B 248 4.80 -63.04 REMARK 500 PRO B 306 107.39 -37.19 REMARK 500 ASP B 348 -169.28 -126.12 REMARK 500 LYS B 349 -86.70 -42.46 REMARK 500 ASP B 350 32.15 24.39 REMARK 500 LYS B 352 74.65 70.96 REMARK 500 ASP B 371 74.65 27.31 REMARK 500 ALA B 378 2.46 -54.90 REMARK 500 THR B 380 39.40 22.70 REMARK 500 VAL C 31 114.30 78.52 REMARK 500 ALA C 33 -152.35 -95.64 REMARK 500 ASN C 45 65.31 -119.79 REMARK 500 MET C 69 -6.51 -49.33 REMARK 500 PRO C 86 -38.77 -32.88 REMARK 500 ASP C 107 68.63 -68.79 REMARK 500 GLU C 108 -8.07 178.56 REMARK 500 LEU C 112 -61.64 -27.18 REMARK 500 ILE C 115 -14.53 -147.06 REMARK 500 ASN C 116 -17.38 -47.16 REMARK 500 REMARK 500 THIS ENTRY HAS 66 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 LYS A 349 ASP A 350 -65.99 REMARK 500 LEU A 358 GLU A 359 142.42 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 LYS A 349 81.84 REMARK 500 LYS A 357 18.26 REMARK 500 LEU A 358 -47.20 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 SND A 500 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NAP C 300 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 403 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1PT9 RELATED DB: PDB REMARK 900 ANALYSIS OF COMPONENTS OF TRANSHYDROGENASE AND THIO-NICOTINAMIDE REMARK 900 ANALOGOUES OF NAD(H) DBREF 1PTJ A 1 381 UNP Q60164 PNTAA_RHORU 1 381 DBREF 1PTJ B 1 381 UNP Q60164 PNAA_RHORU 1 381 DBREF 1PTJ C 30 203 UNP Q59765 PNTB_RHORU 291 464 SEQRES 1 A 381 MET LYS ILE ALA ILE PRO LYS GLU ARG ARG PRO GLY GLU SEQRES 2 A 381 ASP ARG VAL ALA ILE SER PRO GLU VAL VAL LYS LYS LEU SEQRES 3 A 381 VAL GLY LEU GLY PHE GLU VAL ILE VAL GLU GLN GLY ALA SEQRES 4 A 381 GLY VAL GLY ALA SER ILE THR ASP ASP ALA LEU THR ALA SEQRES 5 A 381 ALA GLY ALA THR ILE ALA SER THR ALA ALA GLN ALA LEU SEQRES 6 A 381 SER GLN ALA ASP VAL VAL TRP LYS VAL GLN ARG PRO MET SEQRES 7 A 381 THR ALA GLU GLU GLY THR ASP GLU VAL ALA LEU ILE LYS SEQRES 8 A 381 GLU GLY ALA VAL LEU MET CYS HIS LEU GLY ALA LEU THR SEQRES 9 A 381 ASN ARG PRO VAL VAL GLU ALA LEU THR LYS ARG LYS ILE SEQRES 10 A 381 THR ALA TYR ALA MET GLU LEU MET PRO ARG ILE SER ARG SEQRES 11 A 381 ALA GLN SER MET ASP ILE LEU SER SER GLN SER ASN LEU SEQRES 12 A 381 ALA GLY TYR ARG ALA VAL ILE ASP GLY ALA TYR GLU PHE SEQRES 13 A 381 ALA ARG ALA PHE PRO MET MET MET THR ALA ALA GLY THR SEQRES 14 A 381 VAL PRO PRO ALA ARG VAL LEU VAL PHE GLY VAL GLY VAL SEQRES 15 A 381 ALA GLY LEU GLN ALA ILE ALA THR ALA LYS ARG LEU GLY SEQRES 16 A 381 ALA VAL VAL MET ALA THR ASP VAL ARG ALA ALA THR LYS SEQRES 17 A 381 GLU GLN VAL GLU SER LEU GLY GLY LYS PHE ILE THR VAL SEQRES 18 A 381 ASP ASP GLU ALA MET LYS THR ALA GLU THR ALA GLY GLY SEQRES 19 A 381 TYR ALA LYS GLU MET GLY GLU GLU PHE ARG LYS LYS GLN SEQRES 20 A 381 ALA GLU ALA VAL LEU LYS GLU LEU VAL LYS THR ASP ILE SEQRES 21 A 381 ALA ILE THR THR ALA LEU ILE PRO GLY LYS PRO ALA PRO SEQRES 22 A 381 VAL LEU ILE THR GLU GLU MET VAL THR LYS MET LYS PRO SEQRES 23 A 381 GLY SER VAL ILE ILE ASP LEU ALA VAL GLU ALA GLY GLY SEQRES 24 A 381 ASN CYS PRO LEU SER GLU PRO GLY LYS ILE VAL VAL LYS SEQRES 25 A 381 HIS GLY VAL LYS ILE VAL GLY HIS THR ASN VAL PRO SER SEQRES 26 A 381 ARG VAL ALA ALA ASP ALA SER PRO LEU PHE ALA LYS ASN SEQRES 27 A 381 LEU LEU ASN PHE LEU THR PRO HIS VAL ASP LYS ASP THR SEQRES 28 A 381 LYS THR LEU VAL MET LYS LEU GLU ASP GLU THR VAL SER SEQRES 29 A 381 GLY THR CYS VAL THR ARG ASP GLY ALA ILE VAL HIS PRO SEQRES 30 A 381 ALA LEU THR GLY SEQRES 1 B 381 MET LYS ILE ALA ILE PRO LYS GLU ARG ARG PRO GLY GLU SEQRES 2 B 381 ASP ARG VAL ALA ILE SER PRO GLU VAL VAL LYS LYS LEU SEQRES 3 B 381 VAL GLY LEU GLY PHE GLU VAL ILE VAL GLU GLN GLY ALA SEQRES 4 B 381 GLY VAL GLY ALA SER ILE THR ASP ASP ALA LEU THR ALA SEQRES 5 B 381 ALA GLY ALA THR ILE ALA SER THR ALA ALA GLN ALA LEU SEQRES 6 B 381 SER GLN ALA ASP VAL VAL TRP LYS VAL GLN ARG PRO MET SEQRES 7 B 381 THR ALA GLU GLU GLY THR ASP GLU VAL ALA LEU ILE LYS SEQRES 8 B 381 GLU GLY ALA VAL LEU MET CYS HIS LEU GLY ALA LEU THR SEQRES 9 B 381 ASN ARG PRO VAL VAL GLU ALA LEU THR LYS ARG LYS ILE SEQRES 10 B 381 THR ALA TYR ALA MET GLU LEU MET PRO ARG ILE SER ARG SEQRES 11 B 381 ALA GLN SER MET ASP ILE LEU SER SER GLN SER ASN LEU SEQRES 12 B 381 ALA GLY TYR ARG ALA VAL ILE ASP GLY ALA TYR GLU PHE SEQRES 13 B 381 ALA ARG ALA PHE PRO MET MET MET THR ALA ALA GLY THR SEQRES 14 B 381 VAL PRO PRO ALA ARG VAL LEU VAL PHE GLY VAL GLY VAL SEQRES 15 B 381 ALA GLY LEU GLN ALA ILE ALA THR ALA LYS ARG LEU GLY SEQRES 16 B 381 ALA VAL VAL MET ALA THR ASP VAL ARG ALA ALA THR LYS SEQRES 17 B 381 GLU GLN VAL GLU SER LEU GLY GLY LYS PHE ILE THR VAL SEQRES 18 B 381 ASP ASP GLU ALA MET LYS THR ALA GLU THR ALA GLY GLY SEQRES 19 B 381 TYR ALA LYS GLU MET GLY GLU GLU PHE ARG LYS LYS GLN SEQRES 20 B 381 ALA GLU ALA VAL LEU LYS GLU LEU VAL LYS THR ASP ILE SEQRES 21 B 381 ALA ILE THR THR ALA LEU ILE PRO GLY LYS PRO ALA PRO SEQRES 22 B 381 VAL LEU ILE THR GLU GLU MET VAL THR LYS MET LYS PRO SEQRES 23 B 381 GLY SER VAL ILE ILE ASP LEU ALA VAL GLU ALA GLY GLY SEQRES 24 B 381 ASN CYS PRO LEU SER GLU PRO GLY LYS ILE VAL VAL LYS SEQRES 25 B 381 HIS GLY VAL LYS ILE VAL GLY HIS THR ASN VAL PRO SER SEQRES 26 B 381 ARG VAL ALA ALA ASP ALA SER PRO LEU PHE ALA LYS ASN SEQRES 27 B 381 LEU LEU ASN PHE LEU THR PRO HIS VAL ASP LYS ASP THR SEQRES 28 B 381 LYS THR LEU VAL MET LYS LEU GLU ASP GLU THR VAL SER SEQRES 29 B 381 GLY THR CYS VAL THR ARG ASP GLY ALA ILE VAL HIS PRO SEQRES 30 B 381 ALA LEU THR GLY SEQRES 1 C 174 SER VAL LYS ALA GLY SER ALA GLU ASP ALA ALA PHE ILE SEQRES 2 C 174 MET LYS ASN ALA SER LYS VAL ILE ILE VAL PRO GLY TYR SEQRES 3 C 174 GLY MET ALA VAL ALA GLN ALA GLN HIS ALA LEU ARG GLU SEQRES 4 C 174 MET ALA ASP VAL LEU LYS LYS GLU GLY VAL GLU VAL SER SEQRES 5 C 174 TYR ALA ILE HIS PRO VAL ALA GLY ARG MET PRO GLY HIS SEQRES 6 C 174 MET ASN VAL LEU LEU ALA GLU ALA ASN VAL PRO TYR ASP SEQRES 7 C 174 GLU VAL PHE GLU LEU GLU GLU ILE ASN SER SER PHE GLN SEQRES 8 C 174 THR ALA ASP VAL ALA PHE VAL ILE GLY ALA ASN ASP VAL SEQRES 9 C 174 THR ASN PRO ALA ALA LYS THR ASP PRO SER SER PRO ILE SEQRES 10 C 174 TYR GLY MET PRO ILE LEU ASP VAL GLU LYS ALA GLY THR SEQRES 11 C 174 VAL LEU PHE ILE LYS ARG SER MET ALA SER GLY TYR ALA SEQRES 12 C 174 GLY VAL GLU ASN GLU LEU PHE PHE ARG ASN ASN THR MET SEQRES 13 C 174 MET LEU PHE GLY ASP ALA LYS LYS MET THR GLU GLN ILE SEQRES 14 C 174 VAL GLN ALA MET ASN HET SND A 500 44 HET GOL A 402 6 HET GOL A 403 6 HET GOL B 401 6 HET NAP C 300 48 HETNAM SND THIONICOTINAMIDE-ADENINE-DINUCLEOTIDE HETNAM GOL GLYCEROL HETNAM NAP NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL HETSYN NAP 2'-MONOPHOSPHOADENOSINE 5'-DIPHOSPHORIBOSE FORMUL 4 SND C21 H27 N7 O13 P2 S FORMUL 5 GOL 3(C3 H8 O3) FORMUL 8 NAP C21 H28 N7 O17 P3 FORMUL 9 HOH *146(H2 O) HELIX 1 1 SER A 19 LEU A 29 1 11 HELIX 2 2 THR A 46 ALA A 53 1 8 HELIX 3 3 THR A 60 SER A 66 1 7 HELIX 4 4 THR A 79 GLY A 83 5 5 HELIX 5 5 GLY A 101 THR A 104 5 4 HELIX 6 6 ASN A 105 ARG A 115 1 11 HELIX 7 7 GLU A 123 MET A 125 5 3 HELIX 8 8 ALA A 131 MET A 134 5 4 HELIX 9 9 ASP A 135 PHE A 156 1 22 HELIX 10 10 GLY A 181 LEU A 194 1 14 HELIX 11 11 ALA A 206 GLY A 215 1 10 HELIX 12 12 GLY A 240 ALA A 248 1 9 HELIX 13 13 GLU A 249 VAL A 256 1 8 HELIX 14 14 THR A 277 THR A 282 1 6 HELIX 15 15 ALA A 294 GLY A 298 5 5 HELIX 16 16 ASN A 322 ARG A 326 5 5 HELIX 17 17 VAL A 327 THR A 344 1 18 HELIX 18 18 PRO A 345 VAL A 347 5 3 HELIX 19 19 ASP A 360 GLY A 365 1 6 HELIX 20 20 SER B 19 LEU B 29 1 11 HELIX 21 21 GLY B 40 SER B 44 5 5 HELIX 22 22 THR B 46 ALA B 52 1 7 HELIX 23 23 THR B 60 SER B 66 1 7 HELIX 24 24 THR B 79 GLY B 83 5 5 HELIX 25 25 GLY B 101 THR B 104 5 4 HELIX 26 26 ASN B 105 ARG B 115 1 11 HELIX 27 27 GLU B 123 MET B 125 5 3 HELIX 28 28 ILE B 128 MET B 134 5 7 HELIX 29 29 ASP B 135 PHE B 156 1 22 HELIX 30 30 GLY B 181 LEU B 194 1 14 HELIX 31 31 ALA B 206 SER B 213 1 8 HELIX 32 32 LYS B 246 ALA B 248 5 3 HELIX 33 33 GLU B 249 VAL B 256 1 8 HELIX 34 34 THR B 277 THR B 282 1 6 HELIX 35 35 ALA B 294 GLY B 298 5 5 HELIX 36 36 ASN B 322 ARG B 326 5 5 HELIX 37 37 VAL B 327 THR B 344 1 18 HELIX 38 38 ASP B 360 THR B 366 1 7 HELIX 39 39 SER C 35 ASN C 45 1 11 HELIX 40 40 GLY C 54 ALA C 60 1 7 HELIX 41 41 ALA C 62 VAL C 72 1 11 HELIX 42 42 GLY C 93 ALA C 102 1 10 HELIX 43 43 LEU C 112 ASN C 116 1 5 HELIX 44 44 ASN C 135 LYS C 139 5 5 HELIX 45 45 ASP C 190 ALA C 201 1 12 SHEET 1 A 7 THR A 56 ALA A 58 0 SHEET 2 A 7 GLU A 32 GLU A 36 1 N VAL A 35 O ALA A 58 SHEET 3 A 7 LYS A 2 ILE A 5 1 N ILE A 3 O GLU A 32 SHEET 4 A 7 VAL A 70 GLN A 75 1 O TRP A 72 N ALA A 4 SHEET 5 A 7 VAL A 95 HIS A 99 1 O VAL A 95 N VAL A 71 SHEET 6 A 7 THR A 118 ALA A 121 1 O TYR A 120 N LEU A 96 SHEET 7 A 7 CYS A 367 ARG A 370 -1 O THR A 369 N ALA A 119 SHEET 1 B 2 MET A 163 THR A 165 0 SHEET 2 B 2 GLY A 168 VAL A 170 -1 O GLY A 168 N THR A 165 SHEET 1 C 7 LYS A 217 PHE A 218 0 SHEET 2 C 7 VAL A 197 THR A 201 1 N ALA A 200 O LYS A 217 SHEET 3 C 7 ARG A 174 PHE A 178 1 N VAL A 177 O MET A 199 SHEET 4 C 7 ILE A 260 THR A 263 1 O ILE A 260 N LEU A 176 SHEET 5 C 7 VAL A 289 ASP A 292 1 O ILE A 291 N ALA A 261 SHEET 6 C 7 VAL A 315 VAL A 318 1 O VAL A 318 N ILE A 290 SHEET 7 C 7 VAL A 310 LYS A 312 -1 N VAL A 310 O ILE A 317 SHEET 1 D 6 GLU B 32 VAL B 35 0 SHEET 2 D 6 LYS B 2 ILE B 5 1 N ILE B 3 O ILE B 34 SHEET 3 D 6 VAL B 70 GLN B 75 1 O TRP B 72 N ALA B 4 SHEET 4 D 6 VAL B 95 HIS B 99 1 O VAL B 95 N VAL B 71 SHEET 5 D 6 THR B 118 ALA B 121 1 O THR B 118 N LEU B 96 SHEET 6 D 6 CYS B 367 THR B 369 -1 O VAL B 368 N ALA B 119 SHEET 1 E 2 MET B 163 THR B 165 0 SHEET 2 E 2 GLY B 168 VAL B 170 -1 O GLY B 168 N THR B 165 SHEET 1 F 7 LYS B 217 PHE B 218 0 SHEET 2 F 7 VAL B 197 THR B 201 1 N ALA B 200 O LYS B 217 SHEET 3 F 7 ARG B 174 PHE B 178 1 N VAL B 175 O MET B 199 SHEET 4 F 7 ILE B 260 THR B 263 1 O ILE B 262 N PHE B 178 SHEET 5 F 7 VAL B 289 ASP B 292 1 O ILE B 291 N ALA B 261 SHEET 6 F 7 VAL B 315 GLY B 319 1 O LYS B 316 N ILE B 290 SHEET 7 F 7 LYS B 308 LYS B 312 -1 N VAL B 310 O ILE B 317 SHEET 1 G 2 VAL B 347 ASP B 348 0 SHEET 2 G 2 THR B 353 LEU B 354 -1 O THR B 353 N ASP B 348 SHEET 1 H 4 VAL C 109 GLU C 111 0 SHEET 2 H 4 GLU C 79 ILE C 84 1 N ILE C 84 O PHE C 110 SHEET 3 H 4 LYS C 48 ILE C 51 1 N ILE C 51 O SER C 81 SHEET 4 H 4 VAL C 124 PHE C 126 1 O VAL C 124 N ILE C 50 SHEET 1 I 2 VAL C 160 LEU C 161 0 SHEET 2 I 2 THR C 184 MET C 185 1 O MET C 185 N VAL C 160 SITE 1 AC1 17 ARG A 127 ILE A 128 SER A 129 ASP A 135 SITE 2 AC1 17 SER A 138 VAL A 180 GLY A 181 VAL A 182 SITE 3 AC1 17 ASP A 202 VAL A 203 ARG A 204 GLY A 234 SITE 4 AC1 17 GLN A 247 THR A 264 ALA A 265 LEU A 266 SITE 5 AC1 17 HOH A 532 SITE 1 AC2 24 GLN B 132 TYR C 55 GLY C 56 ALA C 60 SITE 2 AC2 24 VAL C 87 ALA C 88 GLY C 89 ARG C 90 SITE 3 AC2 24 MET C 91 PRO C 92 GLY C 129 ALA C 130 SITE 4 AC2 24 ASN C 131 ASP C 132 VAL C 133 LYS C 164 SITE 5 AC2 24 ARG C 165 SER C 166 GLY C 170 TYR C 171 SITE 6 AC2 24 ASP C 190 ALA C 191 HOH C 309 HOH C 317 SITE 1 AC3 5 ARG B 204 THR B 264 ALA B 265 LEU B 266 SITE 2 AC3 5 HOH B 447 SITE 1 AC4 2 LYS A 316 ARG B 326 SITE 1 AC5 4 THR A 113 VAL A 368 HOH A 518 HOH A 531 CRYST1 72.089 74.698 205.014 90.00 90.00 90.00 P 21 21 21 8 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 0.013872 0.000000 0.000000 0.00000 SCALE2 0.000000 0.013387 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004878 0.00000