HEADER OXIDOREDUCTASE 28-FEB-19 6QUQ TITLE CRYSTAL STRUCTURE OF GLUTATHIONYLATED GLYCOLYTIC GLYCERALDEHYDE-3- TITLE 2 PHOSPHATE DEHYDROGENASE FROM ARABIDOPSIS THALIANA (ATGAPC1) CAVEAT 6QUQ GSH O 404 HAS WRONG CHIRALITY AT ATOM CA1 GSH R 404 HAS CAVEAT 2 6QUQ WRONG CHIRALITY AT ATOM CA1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: GLYCERALDEHYDE-3-PHOSPHATE DEHYDROGENASE GAPC1, CYTOSOLIC; COMPND 3 CHAIN: O, R; COMPND 4 SYNONYM: NAD-DEPENDENT GLYCERALDEHYDEPHOSPHATE DEHYDROGENASE C COMPND 5 SUBUNIT 1; COMPND 6 EC: 1.2.1.12; COMPND 7 ENGINEERED: YES; COMPND 8 OTHER_DETAILS: GLUTATHYNILATED ENZYME SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ARABIDOPSIS THALIANA; SOURCE 3 ORGANISM_COMMON: MOUSE-EAR CRESS; SOURCE 4 ORGANISM_TAXID: 3702; SOURCE 5 ORGAN: CYTOPLASM; SOURCE 6 GENE: GAPC1, GAPC, GAPDH, AT3G04120, T6K12.26; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 9 EXPRESSION_SYSTEM_CELL_LINE: BL21DE3; SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: PET28A(+) KEYWDS ROSSMAN FOLD, OXIDOREDUCTASE ACTIVITY, NAD, CYTOSOLIC, GLUTATHIONE, KEYWDS 2 OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR S.FERMANI,M.ZAFFAGNINI,G.FALINI,P.TROST REVDAT 3 24-JAN-24 6QUQ 1 REMARK REVDAT 2 25-DEC-19 6QUQ 1 JRNL REVDAT 1 04-DEC-19 6QUQ 0 JRNL AUTH M.ZAFFAGNINI,C.H.MARCHAND,M.MALFERRARI,S.MURAIL,S.BONACCHI, JRNL AUTH 2 D.GENOVESE,M.MONTALTI,G.VENTUROLI,G.FALINI,M.BAADEN, JRNL AUTH 3 S.D.LEMAIRE,S.FERMANI,P.TROST JRNL TITL GLUTATHIONYLATION PRIMES SOLUBLE GLYCERALDEHYDE-3-PHOSPHATE JRNL TITL 2 DEHYDROGENASE FOR LATE COLLAPSE INTO INSOLUBLE AGGREGATES. JRNL REF PROC.NATL.ACAD.SCI.USA V. 116 26057 2019 JRNL REFN ESSN 1091-6490 JRNL PMID 31772010 JRNL DOI 10.1073/PNAS.1914484116 REMARK 2 REMARK 2 RESOLUTION. 2.99 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.14_3260: ???) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.99 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 47.66 REMARK 3 MIN(FOBS/SIGMA_FOBS) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 15571 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.251 REMARK 3 R VALUE (WORKING SET) : 0.249 REMARK 3 FREE R VALUE : 0.303 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 779 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 47.6633 - 5.4367 1.00 2710 143 0.2238 0.2858 REMARK 3 2 5.4367 - 4.3161 1.00 2495 116 0.2165 0.2419 REMARK 3 3 4.3161 - 3.7708 1.00 2465 130 0.2414 0.3053 REMARK 3 4 3.7708 - 3.4262 1.00 2414 135 0.2730 0.3127 REMARK 3 5 3.4262 - 3.1806 1.00 2379 137 0.3080 0.3982 REMARK 3 6 3.1806 - 2.9931 0.98 2329 118 0.3403 0.4033 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.370 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 27.980 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 69.00 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 73.10 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.010 5388 REMARK 3 ANGLE : 1.402 7307 REMARK 3 CHIRALITY : 0.071 835 REMARK 3 PLANARITY : 0.008 913 REMARK 3 DIHEDRAL : 8.294 3197 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 1 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: ALL REMARK 3 ORIGIN FOR THE GROUP (A): 38.0316 36.7570 236.0123 REMARK 3 T TENSOR REMARK 3 T11: 0.1211 T22: 0.3113 REMARK 3 T33: 0.2096 T12: -0.0787 REMARK 3 T13: -0.0542 T23: -0.0475 REMARK 3 L TENSOR REMARK 3 L11: 0.0583 L22: 0.0357 REMARK 3 L33: 0.0983 L12: 0.0065 REMARK 3 L13: -0.0378 L23: 0.0300 REMARK 3 S TENSOR REMARK 3 S11: 0.0308 S12: 0.0453 S13: -0.0313 REMARK 3 S21: -0.0328 S22: -0.0606 S23: 0.0296 REMARK 3 S31: -0.1510 S32: -0.0821 S33: 0.0177 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 6QUQ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 28-FEB-19. REMARK 100 THE DEPOSITION ID IS D_1292100614. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-MAY-12 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ELETTRA REMARK 200 BEAMLINE : 5.2R REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.26 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL SI111 REMARK 200 OPTICS : CILINDRICAL MIRROR WITH 50 NM PT REMARK 200 -COATING, TORIDAL MIRROS WITH 50 REMARK 200 NM PT-COATING REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 2M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 15692 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.990 REMARK 200 RESOLUTION RANGE LOW (A) : 47.660 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 200 DATA REDUNDANCY : 18.70 REMARK 200 R MERGE (I) : 0.08800 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 25.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.99 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.16 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.0 REMARK 200 DATA REDUNDANCY IN SHELL : 19.40 REMARK 200 R MERGE FOR SHELL (I) : 0.30300 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 9.100 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: 4Z0H REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 48.97 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.41 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 3.0 M (NH4)2SO4, 0.1 M HEPES-NAOH, 0.1 REMARK 280 MM H2O2 AND 1 MM GSH, PH 7.5, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 61 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+5/6 REMARK 290 6555 X-Y,X,Z+1/6 REMARK 290 7555 Y,X,-Z+1/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+2/3 REMARK 290 10555 -Y,-X,-Z+5/6 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-Z+1/6 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 135.60467 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 271.20933 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 203.40700 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 339.01167 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 67.80233 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 135.60467 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 271.20933 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 339.01167 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 203.40700 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 67.80233 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 25400 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 44310 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -380.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: O, R 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 350 BIOMT1 2 0.500000 0.866025 0.000000 0.00000 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 474.61633 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 S SO4 O 405 LIES ON A SPECIAL POSITION. REMARK 375 HOH O 516 LIES ON A SPECIAL POSITION. 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 LYS O 0 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 NH1 ARG R 2 N ASP R 90 1.05 REMARK 500 OG1 THR R 208 O3 SO4 R 403 1.76 REMARK 500 OG1 THR R 208 O4 SO4 R 403 1.82 REMARK 500 NH1 ARG R 2 CA ASP R 90 1.83 REMARK 500 NH1 ARG R 2 C ALA R 89 1.88 REMARK 500 O SER R 119 OH TYR R 317 1.92 REMARK 500 NH2 ARG R 2 OD1 ASP R 90 1.96 REMARK 500 OG1 THR R 208 S SO4 R 403 2.06 REMARK 500 OE2 GLU R 55 CE1 PHE R 66 2.10 REMARK 500 O THR O 100 OG SER O 122 2.11 REMARK 500 CB THR R 208 N1 GSH R 404 2.13 REMARK 500 NE1 TRP R 51 O HIS R 53 2.16 REMARK 500 NH2 ARG R 22 OD2 ASP R 24 2.18 REMARK 500 NZ LYS R 115 OH TYR R 137 2.19 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 O 266 CG - CD - CE ANGL. DEV. = -18.2 DEGREES REMARK 500 LYS O 266 CD - CE - NZ ANGL. DEV. = 18.4 DEGREES REMARK 500 ARG R 164 CB - CG - CD ANGL. DEV. = 16.3 DEGREES REMARK 500 ARG R 164 NE - CZ - NH1 ANGL. DEV. = 4.5 DEGREES REMARK 500 ARG R 164 NE - CZ - NH2 ANGL. DEV. = -3.4 DEGREES REMARK 500 LYS R 212 CA - CB - CG ANGL. DEV. = 13.8 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 HIS O 53 -139.61 -135.78 REMARK 500 ASP O 60 -53.19 -27.69 REMARK 500 PRO O 70 -87.19 -33.86 REMARK 500 VAL O 71 96.28 60.09 REMARK 500 PHE O 99 76.95 -105.83 REMARK 500 SER O 119 32.67 -66.23 REMARK 500 ASN O 133 15.62 -154.88 REMARK 500 ALA O 147 -160.46 68.73 REMARK 500 VAL O 237 132.67 87.22 REMARK 500 LYS O 330 35.51 -69.86 REMARK 500 GLN R 21 30.64 -95.37 REMARK 500 ASN R 54 -146.97 61.92 REMARK 500 GLU R 55 114.64 82.64 REMARK 500 LEU R 56 145.15 177.54 REMARK 500 ILE R 58 -87.43 -115.43 REMARK 500 LYS R 59 153.46 -39.39 REMARK 500 GLU R 61 66.67 -160.48 REMARK 500 LYS R 62 -33.75 -155.88 REMARK 500 PHE R 99 74.77 -102.11 REMARK 500 ASP R 124 -34.36 -136.69 REMARK 500 ASN R 133 15.16 -155.01 REMARK 500 ALA R 147 -160.50 67.56 REMARK 500 ALA R 210 -33.87 -27.35 REMARK 500 VAL R 214 18.83 -59.15 REMARK 500 VAL R 237 134.41 79.59 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 NAD O 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 O 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 O 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GSH O 404 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 O 405 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NAD R 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 R 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 R 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 R 405 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 R 406 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for Di-peptide GSH R 404 and CYS R REMARK 800 149 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4Z0H RELATED DB: PDB DBREF 6QUQ O 0 331 UNP P25858 G3PC1_ARATH 5 338 DBREF 6QUQ R 0 331 UNP P25858 G3PC1_ARATH 5 338 SEQRES 1 O 334 LYS ILE ARG ILE GLY ILE ASN GLY PHE GLY ARG ILE GLY SEQRES 2 O 334 ARG LEU VAL ALA ARG VAL VAL LEU GLN ARG ASP ASP VAL SEQRES 3 O 334 GLU LEU VAL ALA VAL ASN ASP PRO PHE ILE THR THR GLU SEQRES 4 O 334 TYR MET THR TYR MET PHE LYS TYR ASP SER VAL HIS GLY SEQRES 5 O 334 GLN TRP LYS HIS ASN GLU LEU LYS ILE LYS ASP GLU LYS SEQRES 6 O 334 THR LEU LEU PHE GLY GLU LYS PRO VAL THR VAL PHE GLY SEQRES 7 O 334 ILE ARG ASN PRO GLU ASP ILE PRO TRP ALA GLU ALA GLY SEQRES 8 O 334 ALA ASP TYR VAL VAL GLU SER THR GLY VAL PHE THR ASP SEQRES 9 O 334 LYS ASP LYS ALA ALA ALA HIS LEU LYS GLY GLY ALA LYS SEQRES 10 O 334 LYS VAL VAL ILE SER ALA PRO SER LYS ASP ALA PRO MET SEQRES 11 O 334 PHE VAL VAL GLY VAL ASN GLU HIS GLU TYR LYS SER ASP SEQRES 12 O 334 LEU ASP ILE VAL SER ASN ALA SER CYS THR THR ASN CYS SEQRES 13 O 334 LEU ALA PRO LEU ALA LYS VAL ILE ASN ASP ARG PHE GLY SEQRES 14 O 334 ILE VAL GLU GLY LEU MET THR THR VAL HIS SER ILE THR SEQRES 15 O 334 ALA THR GLN LYS THR VAL ASP GLY PRO SER MET LYS ASP SEQRES 16 O 334 TRP ARG GLY GLY ARG ALA ALA SER PHE ASN ILE ILE PRO SEQRES 17 O 334 SER SER THR GLY ALA ALA LYS ALA VAL GLY LYS VAL LEU SEQRES 18 O 334 PRO ALA LEU ASN GLY LYS LEU THR GLY MET SER PHE ARG SEQRES 19 O 334 VAL PRO THR VAL ASP VAL SER VAL VAL ASP LEU THR VAL SEQRES 20 O 334 ARG LEU GLU LYS ALA ALA THR TYR ASP GLU ILE LYS LYS SEQRES 21 O 334 ALA ILE LYS GLU GLU SER GLU GLY LYS LEU LYS GLY ILE SEQRES 22 O 334 LEU GLY TYR THR GLU ASP ASP VAL VAL SER THR ASP PHE SEQRES 23 O 334 VAL GLY ASP ASN ARG SER SER ILE PHE ASP ALA LYS ALA SEQRES 24 O 334 GLY ILE ALA LEU SER ASP LYS PHE VAL LYS LEU VAL SER SEQRES 25 O 334 TRP TYR ASP ASN GLU TRP GLY TYR SER SER ARG VAL VAL SEQRES 26 O 334 ASP LEU ILE VAL HIS MET SER LYS ALA SEQRES 1 R 334 LYS ILE ARG ILE GLY ILE ASN GLY PHE GLY ARG ILE GLY SEQRES 2 R 334 ARG LEU VAL ALA ARG VAL VAL LEU GLN ARG ASP ASP VAL SEQRES 3 R 334 GLU LEU VAL ALA VAL ASN ASP PRO PHE ILE THR THR GLU SEQRES 4 R 334 TYR MET THR TYR MET PHE LYS TYR ASP SER VAL HIS GLY SEQRES 5 R 334 GLN TRP LYS HIS ASN GLU LEU LYS ILE LYS ASP GLU LYS SEQRES 6 R 334 THR LEU LEU PHE GLY GLU LYS PRO VAL THR VAL PHE GLY SEQRES 7 R 334 ILE ARG ASN PRO GLU ASP ILE PRO TRP ALA GLU ALA GLY SEQRES 8 R 334 ALA ASP TYR VAL VAL GLU SER THR GLY VAL PHE THR ASP SEQRES 9 R 334 LYS ASP LYS ALA ALA ALA HIS LEU LYS GLY GLY ALA LYS SEQRES 10 R 334 LYS VAL VAL ILE SER ALA PRO SER LYS ASP ALA PRO MET SEQRES 11 R 334 PHE VAL VAL GLY VAL ASN GLU HIS GLU TYR LYS SER ASP SEQRES 12 R 334 LEU ASP ILE VAL SER ASN ALA SER CYS THR THR ASN CYS SEQRES 13 R 334 LEU ALA PRO LEU ALA LYS VAL ILE ASN ASP ARG PHE GLY SEQRES 14 R 334 ILE VAL GLU GLY LEU MET THR THR VAL HIS SER ILE THR SEQRES 15 R 334 ALA THR GLN LYS THR VAL ASP GLY PRO SER MET LYS ASP SEQRES 16 R 334 TRP ARG GLY GLY ARG ALA ALA SER PHE ASN ILE ILE PRO SEQRES 17 R 334 SER SER THR GLY ALA ALA LYS ALA VAL GLY LYS VAL LEU SEQRES 18 R 334 PRO ALA LEU ASN GLY LYS LEU THR GLY MET SER PHE ARG SEQRES 19 R 334 VAL PRO THR VAL ASP VAL SER VAL VAL ASP LEU THR VAL SEQRES 20 R 334 ARG LEU GLU LYS ALA ALA THR TYR ASP GLU ILE LYS LYS SEQRES 21 R 334 ALA ILE LYS GLU GLU SER GLU GLY LYS LEU LYS GLY ILE SEQRES 22 R 334 LEU GLY TYR THR GLU ASP ASP VAL VAL SER THR ASP PHE SEQRES 23 R 334 VAL GLY ASP ASN ARG SER SER ILE PHE ASP ALA LYS ALA SEQRES 24 R 334 GLY ILE ALA LEU SER ASP LYS PHE VAL LYS LEU VAL SER SEQRES 25 R 334 TRP TYR ASP ASN GLU TRP GLY TYR SER SER ARG VAL VAL SEQRES 26 R 334 ASP LEU ILE VAL HIS MET SER LYS ALA HET NAD O 401 44 HET SO4 O 402 5 HET SO4 O 403 5 HET GSH O 404 20 HET SO4 O 405 5 HET NAD R 401 44 HET SO4 R 402 5 HET SO4 R 403 5 HET GSH R 404 20 HET SO4 R 405 5 HET SO4 R 406 5 HETNAM NAD NICOTINAMIDE-ADENINE-DINUCLEOTIDE HETNAM SO4 SULFATE ION HETNAM GSH GLUTATHIONE FORMUL 3 NAD 2(C21 H27 N7 O14 P2) FORMUL 4 SO4 7(O4 S 2-) FORMUL 6 GSH 2(C10 H17 N3 O6 S) FORMUL 14 HOH *35(H2 O) HELIX 1 AA1 GLY O 9 ARG O 22 1 14 HELIX 2 AA2 THR O 36 TYR O 46 1 11 HELIX 3 AA3 ASN O 78 ILE O 82 5 5 HELIX 4 AA4 ASP O 101 ALA O 106 1 6 HELIX 5 AA5 ALA O 106 GLY O 111 1 6 HELIX 6 AA6 ASN O 133 TYR O 137 5 5 HELIX 7 AA7 SER O 148 GLY O 166 1 19 HELIX 8 AA8 ASP O 192 ARG O 197 5 6 HELIX 9 AA9 ALA O 198 ASN O 202 5 5 HELIX 10 AB1 GLY O 209 LEU O 218 1 10 HELIX 11 AB2 PRO O 219 ASN O 222 5 4 HELIX 12 AB3 THR O 251 GLY O 265 1 15 HELIX 13 AB4 VAL O 279 VAL O 284 5 6 HELIX 14 AB5 GLU O 314 LYS O 330 1 17 HELIX 15 AB6 GLY R 9 GLN R 21 1 13 HELIX 16 AB7 THR R 36 TYR R 46 1 11 HELIX 17 AB8 ASN R 78 ILE R 82 5 5 HELIX 18 AB9 ASP R 101 ALA R 106 1 6 HELIX 19 AC1 ALA R 107 GLY R 112 5 6 HELIX 20 AC2 ASN R 133 TYR R 137 5 5 HELIX 21 AC3 SER R 148 GLY R 166 1 19 HELIX 22 AC4 ASP R 192 ARG R 197 5 6 HELIX 23 AC5 ALA R 198 ASN R 202 5 5 HELIX 24 AC6 GLY R 209 VAL R 217 1 9 HELIX 25 AC7 LEU R 218 ASN R 222 5 5 HELIX 26 AC8 THR R 251 GLU R 264 1 14 HELIX 27 AC9 VAL R 279 VAL R 284 5 6 HELIX 28 AD1 GLU R 314 ALA R 331 1 18 SHEET 1 AA1 6 THR O 72 PHE O 74 0 SHEET 2 AA1 6 GLU O 26 ASN O 31 1 N VAL O 30 O PHE O 74 SHEET 3 AA1 6 ARG O 2 ASN O 6 1 N ILE O 3 O VAL O 28 SHEET 4 AA1 6 TYR O 91 GLU O 94 1 O VAL O 93 N GLY O 4 SHEET 5 AA1 6 LYS O 115 ILE O 118 1 O VAL O 117 N GLU O 94 SHEET 6 AA1 6 ILE O 143 SER O 145 1 O VAL O 144 N ILE O 118 SHEET 1 AA2 2 GLU O 55 LYS O 59 0 SHEET 2 AA2 2 THR O 63 PHE O 66 -1 O LEU O 65 N LEU O 56 SHEET 1 AA3 7 ILE O 204 SER O 206 0 SHEET 2 AA3 7 LEU O 225 VAL O 232 -1 O ARG O 231 N ILE O 204 SHEET 3 AA3 7 ILE O 167 SER O 177 1 N HIS O 176 O PHE O 230 SHEET 4 AA3 7 SER O 238 LEU O 246 -1 O ASP O 241 N THR O 173 SHEET 5 AA3 7 PHE O 304 TYR O 311 -1 O SER O 309 N VAL O 240 SHEET 6 AA3 7 SER O 290 SER O 301 -1 N ILE O 298 O LYS O 306 SHEET 7 AA3 7 LEU O 271 THR O 274 1 N GLY O 272 O SER O 290 SHEET 1 AA4 7 THR R 63 PHE R 66 0 SHEET 2 AA4 7 LYS R 69 PHE R 74 -1 O LYS R 69 N PHE R 66 SHEET 3 AA4 7 ALA R 29 ASN R 31 1 N VAL R 30 O THR R 72 SHEET 4 AA4 7 ILE R 3 ASN R 6 1 N ILE R 5 O ASN R 31 SHEET 5 AA4 7 TYR R 91 GLU R 94 1 O VAL R 93 N ASN R 6 SHEET 6 AA4 7 LYS R 115 ILE R 118 1 O VAL R 117 N GLU R 94 SHEET 7 AA4 7 ILE R 143 SER R 145 1 O VAL R 144 N VAL R 116 SHEET 1 AA5 7 ILE R 204 SER R 206 0 SHEET 2 AA5 7 LEU R 225 VAL R 232 -1 O ARG R 231 N ILE R 204 SHEET 3 AA5 7 ILE R 167 SER R 177 1 N HIS R 176 O PHE R 230 SHEET 4 AA5 7 SER R 238 LEU R 246 -1 O ASP R 241 N THR R 173 SHEET 5 AA5 7 PHE R 304 TYR R 311 -1 O LEU R 307 N LEU R 242 SHEET 6 AA5 7 SER R 290 ALA R 299 -1 N ILE R 298 O LYS R 306 SHEET 7 AA5 7 LEU R 271 THR R 274 1 N GLY R 272 O SER R 290 LINK SG CYS O 149 SG2 GSH O 404 1555 1555 2.01 LINK SG CYS R 149 SG2 GSH R 404 1555 1555 2.01 SITE 1 AC1 22 ASN O 6 GLY O 7 PHE O 8 GLY O 9 SITE 2 AC1 22 ARG O 10 ILE O 11 ASN O 31 ASP O 32 SITE 3 AC1 22 PRO O 33 PHE O 34 ARG O 77 SER O 95 SITE 4 AC1 22 THR O 96 GLY O 97 PHE O 99 SER O 119 SITE 5 AC1 22 ALA O 120 ALA O 180 ASN O 313 TYR O 317 SITE 6 AC1 22 SO4 O 402 GSH O 404 SITE 1 AC2 5 THR O 179 THR O 181 ARG O 231 NAD O 401 SITE 2 AC2 5 GSH O 404 SITE 1 AC3 6 SER O 148 THR O 150 THR O 208 GLY O 209 SITE 2 AC3 6 ALA O 210 GSH O 404 SITE 1 AC4 15 ALA O 120 PRO O 121 SER O 148 CYS O 149 SITE 2 AC4 15 THR O 150 THR O 174 HIS O 176 SER O 206 SITE 3 AC4 15 SER O 207 THR O 208 SER O 229 ARG O 231 SITE 4 AC4 15 NAD O 401 SO4 O 402 SO4 O 403 SITE 1 AC5 4 SER O 200 PRO O 233 SER R 200 PHE R 201 SITE 1 AC6 24 ASN R 6 GLY R 7 PHE R 8 GLY R 9 SITE 2 AC6 24 ARG R 10 ILE R 11 ASN R 31 ASP R 32 SITE 3 AC6 24 PRO R 33 PHE R 34 ILE R 35 ARG R 77 SITE 4 AC6 24 SER R 95 THR R 96 GLY R 97 SER R 119 SITE 5 AC6 24 ALA R 120 ALA R 180 ASN R 313 GLU R 314 SITE 6 AC6 24 TYR R 317 SO4 R 402 GSH R 404 HOH R 505 SITE 1 AC7 5 THR R 179 THR R 181 ARG R 231 NAD R 401 SITE 2 AC7 5 GSH R 404 SITE 1 AC8 7 PRO R 121 SER R 148 THR R 150 THR R 208 SITE 2 AC8 7 GLY R 209 ALA R 210 GSH R 404 SITE 1 AC9 2 ASN R 287 TRP R 315 SITE 1 AD1 2 LYS R 268 ARG R 288 SITE 1 AD2 17 PRO R 121 SER R 148 THR R 150 THR R 151 SITE 2 AD2 17 ASN R 152 CYS R 153 HIS R 176 SER R 206 SITE 3 AD2 17 SER R 207 THR R 208 SER R 229 ARG R 231 SITE 4 AD2 17 TYR R 311 TYR R 317 NAD R 401 SO4 R 402 SITE 5 AD2 17 SO4 R 403 CRYST1 77.365 77.365 406.814 90.00 90.00 120.00 P 61 2 2 24 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 0.012926 0.007463 0.000000 0.00000 SCALE2 0.000000 0.014925 0.000000 0.00000 SCALE3 0.000000 0.000000 0.002458 0.00000