HEADER OXIDOREDUCTASE 31-JUL-18 6ADE TITLE CRYSTAL STRUCTURE OF PHOSPHORYLATED MUTANT OF GLYCERALDEHYDE 3- TITLE 2 PHOSPHATE DEHYDROGENASE FROM HUMAN PLACENTA AT 3.15A RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: GLYCERALDEHYDE-3-PHOSPHATE DEHYDROGENASE; COMPND 3 CHAIN: A, B, C; COMPND 4 SYNONYM: GAPDH,PEPTIDYL-CYSTEINE S-NITROSYLASE GAPDH; COMPND 5 EC: 1.2.1.12,2.6.99.-; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: GAPDH, GAPD, CDABP0047, OK/SW-CL.12; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR R.DILAWARI,P.K.SINGH,M.RAJE,S.SHARMA,T.P.SINGH REVDAT 2 22-NOV-23 6ADE 1 REMARK REVDAT 1 22-AUG-18 6ADE 0 JRNL AUTH R.DILAWARI,P.K.SINGH,M.RAJE,S.SHARMA,T.P.SINGH JRNL TITL CRYSTAL STRUCTURE OF PHOSPHORYLATED MUTANT OF GLYCERALDEHYDE JRNL TITL 2 3-PHOSPHATE DEHYDROGENASE FROM HUMAN PLACENTA AT 3.15A JRNL TITL 3 RESOLUTION JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 3.15 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0230 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.15 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 45.39 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 22126 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 + TEST SET) : 0.196 REMARK 3 R VALUE (WORKING SET) : 0.194 REMARK 3 FREE R VALUE : 0.239 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1161 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) : 3.15 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 3.23 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1576 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.88 REMARK 3 BIN R VALUE (WORKING SET) : 0.3490 REMARK 3 BIN FREE R VALUE SET COUNT : 97 REMARK 3 BIN FREE R VALUE : 0.3490 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 7590 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 44 REMARK 3 SOLVENT ATOMS : 45 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 70.00 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 4.16000 REMARK 3 B22 (A**2) : -5.61000 REMARK 3 B33 (A**2) : 1.46000 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 OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.452 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.413 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 26.733 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.929 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.904 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 7788 ; 0.008 ; 0.014 REMARK 3 BOND LENGTHS OTHERS (A): 7129 ; 0.001 ; 0.017 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 10564 ; 1.399 ; 1.664 REMARK 3 BOND ANGLES OTHERS (DEGREES): 16645 ; 0.840 ; 1.652 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 996 ; 7.171 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 345 ;38.660 ;23.391 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1293 ;18.581 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 30 ;20.524 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 1040 ; 0.056 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 8745 ; 0.004 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1436 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 3993 ; 5.392 ; 7.262 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 3992 ; 5.392 ; 7.261 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4986 ; 8.541 ;10.895 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 4987 ; 8.540 ;10.897 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 3795 ; 5.903 ; 7.699 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 3796 ; 5.902 ; 7.699 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 5579 ; 9.510 ;11.344 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 31758 ;15.552 ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 31759 ;15.552 ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NCS TYPE: LOCAL REMARK 3 NUMBER OF DIFFERENT NCS PAIRS : 3 REMARK 3 GROUP CHAIN1 RANGE CHAIN2 RANGE COUNT RMS WEIGHT REMARK 3 1 A 3 335 B 3 335 10328 0.07 0.05 REMARK 3 2 A 3 335 C 3 335 10343 0.08 0.05 REMARK 3 3 B 3 335 C 3 335 10311 0.07 0.05 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 6ADE COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 09-AUG-18. REMARK 100 THE DEPOSITION ID IS D_1300008581. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 14-MAY-18 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5-8 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID29 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.953 REMARK 200 MONOCHROMATOR : GRAPHITE REMARK 200 OPTICS : MIRROR REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 S 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 23302 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.150 REMARK 200 RESOLUTION RANGE LOW (A) : 45.390 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 5.300 REMARK 200 R MERGE (I) : 0.20000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 5.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.15 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.23 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 5.00 REMARK 200 R MERGE FOR SHELL (I) : 0.15000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.400 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: 1U8F REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 58.04 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.93 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 4M SODIUM FORMATE, PH 7.7, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 2 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X,Y,-Z REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z+1/2 REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 X+1/2,-Y+1/2,-Z+1/2 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 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 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 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 45.39000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 65.84000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 110.32000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 45.39000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 65.84000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 110.32000 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 45.39000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 65.84000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 110.32000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 45.39000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 65.84000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 110.32000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5520 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 25790 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -48.0 KCAL/MOL 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 350 BIOMT1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 220.64000 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2930 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 26940 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -23.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B 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 APPLY THE FOLLOWING TO CHAINS: C REMARK 350 BIOMT1 2 -1.000000 0.000000 0.000000 -45.39000 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 65.84000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 110.32000 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 MET A 1 REMARK 465 GLY A 2 REMARK 465 MET B 1 REMARK 465 GLY B 2 REMARK 465 MET C 1 REMARK 465 GLY C 2 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 OD2 ASP B 189 O HOH B 401 1.92 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 PHE A 11 51.94 -105.51 REMARK 500 ALA A 123 156.28 177.67 REMARK 500 VAL A 135 -57.98 -120.60 REMARK 500 ASN A 136 24.76 -141.67 REMARK 500 ALA A 150 -175.19 72.15 REMARK 500 ALA A 180 170.67 -55.45 REMARK 500 VAL A 188 -76.42 -152.41 REMARK 500 ASP A 189 -117.20 8.90 REMARK 500 SER A 192 85.22 -154.70 REMARK 500 THR A 211 105.19 -164.59 REMARK 500 VAL A 240 121.45 84.26 REMARK 500 SER A 293 126.76 -170.75 REMARK 500 PHE B 11 51.86 -105.14 REMARK 500 ALA B 123 155.98 177.74 REMARK 500 ASN B 136 24.49 -142.18 REMARK 500 ALA B 150 -175.62 71.99 REMARK 500 ALA B 180 172.46 -57.60 REMARK 500 VAL B 188 -78.34 -153.81 REMARK 500 THR B 211 107.32 -165.55 REMARK 500 ALA B 213 -44.46 1.41 REMARK 500 VAL B 240 121.21 84.34 REMARK 500 SER B 293 127.32 -171.42 REMARK 500 PHE C 11 52.26 -105.34 REMARK 500 SER C 122 55.00 -90.44 REMARK 500 ALA C 123 157.42 177.96 REMARK 500 VAL C 135 -57.77 -120.76 REMARK 500 ASN C 136 24.21 -141.78 REMARK 500 ALA C 150 -175.25 71.09 REMARK 500 ALA C 183 -158.43 70.80 REMARK 500 THR C 184 -34.88 17.88 REMARK 500 VAL C 188 -82.48 -150.89 REMARK 500 SER C 192 -90.54 -78.01 REMARK 500 TRP C 196 -108.95 -83.95 REMARK 500 ARG C 197 -57.33 54.09 REMARK 500 THR C 211 105.12 -162.98 REMARK 500 VAL C 240 120.62 84.49 REMARK 500 SER C 293 127.57 -171.22 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 THR B 182 ALA B 183 -147.11 REMARK 500 LEU C 195 TRP C 196 -148.02 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 13 0.16 SIDE CHAIN REMARK 500 ARG A 234 0.09 SIDE CHAIN REMARK 500 ARG B 13 0.22 SIDE CHAIN REMARK 500 ARG C 13 0.16 SIDE CHAIN REMARK 500 ARG C 80 0.11 SIDE CHAIN 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 A 401 DBREF 6ADE A 1 335 UNP P04406 G3P_HUMAN 1 335 DBREF 6ADE B 1 335 UNP P04406 G3P_HUMAN 1 335 DBREF 6ADE C 1 335 UNP P04406 G3P_HUMAN 1 335 SEQADV 6ADE LEU A 271 UNP P04406 LYS 271 ENGINEERED MUTATION SEQADV 6ADE LEU B 271 UNP P04406 LYS 271 ENGINEERED MUTATION SEQADV 6ADE LEU C 271 UNP P04406 LYS 271 ENGINEERED MUTATION SEQRES 1 A 335 MET GLY LYS VAL LYS VAL GLY VAL ASN GLY PHE GLY ARG SEQRES 2 A 335 ILE GLY ARG LEU VAL THR ARG ALA ALA PHE ASN SER GLY SEQRES 3 A 335 LYS VAL ASP ILE VAL ALA ILE ASN ASP PRO PHE ILE ASP SEQRES 4 A 335 LEU ASN TYR MET VAL TYR MET PHE GLN TYR ASP SEP THR SEQRES 5 A 335 HIS GLY LYS PHE HIS GLY THR VAL LYS ALA GLU ASN GLY SEQRES 6 A 335 LYS LEU VAL ILE ASN GLY ASN PRO ILE THR ILE PHE GLN SEQRES 7 A 335 GLU ARG ASP PRO SER LYS ILE LYS TRP GLY ASP ALA GLY SEQRES 8 A 335 ALA GLU TYR VAL VAL GLU SER THR GLY VAL PHE THR THR SEQRES 9 A 335 MET GLU LYS ALA GLY ALA HIS LEU GLN GLY GLY ALA LYS SEQRES 10 A 335 ARG VAL ILE ILE SER ALA PRO SER ALA ASP ALA PRO MET SEQRES 11 A 335 PHE VAL MET GLY VAL ASN HIS GLU LYS TYR ASP ASN SER SEQRES 12 A 335 LEU LYS ILE ILE SER ASN ALA SEP CYS THR THR ASN CYS SEQRES 13 A 335 LEU ALA PRO LEU ALA LYS VAL ILE HIS ASP ASN PHE GLY SEQRES 14 A 335 ILE VAL GLU GLY LEU MET THR THR VAL HIS ALA ILE THR SEQRES 15 A 335 ALA THR GLN LYS THR VAL ASP GLY PRO SER GLY LYS LEU SEQRES 16 A 335 TRP ARG ASP GLY ARG GLY ALA LEU GLN ASN ILE ILE PRO SEQRES 17 A 335 ALA SER THR GLY ALA ALA LYS ALA VAL GLY LYS VAL ILE SEQRES 18 A 335 PRO GLU LEU ASN GLY LYS LEU THR GLY MET ALA PHE ARG SEQRES 19 A 335 VAL PRO THR ALA ASN VAL SER VAL VAL ASP LEU THR CYS SEQRES 20 A 335 ARG LEU GLU LYS PRO ALA LYS TYR ASP ASP ILE LYS LYS SEQRES 21 A 335 VAL VAL LYS GLN ALA SER GLU GLY PRO LEU LEU GLY ILE SEQRES 22 A 335 LEU GLY TYR THR GLU HIS GLN VAL VAL SER SER ASP PHE SEQRES 23 A 335 ASN SER ASP THR HIS SER SER THR PHE ASP ALA GLY ALA SEQRES 24 A 335 GLY ILE ALA LEU ASN ASP HIS PHE VAL LYS LEU ILE SER SEQRES 25 A 335 TRP TYR ASP ASN GLU PHE GLY TYR SER ASN ARG VAL VAL SEQRES 26 A 335 ASP LEU MET ALA HIS MET ALA SER LYS GLU SEQRES 1 B 335 MET GLY LYS VAL LYS VAL GLY VAL ASN GLY PHE GLY ARG SEQRES 2 B 335 ILE GLY ARG LEU VAL THR ARG ALA ALA PHE ASN SER GLY SEQRES 3 B 335 LYS VAL ASP ILE VAL ALA ILE ASN ASP PRO PHE ILE ASP SEQRES 4 B 335 LEU ASN TYR MET VAL TYR MET PHE GLN TYR ASP SEP THR SEQRES 5 B 335 HIS GLY LYS PHE HIS GLY THR VAL LYS ALA GLU ASN GLY SEQRES 6 B 335 LYS LEU VAL ILE ASN GLY ASN PRO ILE THR ILE PHE GLN SEQRES 7 B 335 GLU ARG ASP PRO SER LYS ILE LYS TRP GLY ASP ALA GLY SEQRES 8 B 335 ALA GLU TYR VAL VAL GLU SER THR GLY VAL PHE THR THR SEQRES 9 B 335 MET GLU LYS ALA GLY ALA HIS LEU GLN GLY GLY ALA LYS SEQRES 10 B 335 ARG VAL ILE ILE SER ALA PRO SER ALA ASP ALA PRO MET SEQRES 11 B 335 PHE VAL MET GLY VAL ASN HIS GLU LYS TYR ASP ASN SER SEQRES 12 B 335 LEU LYS ILE ILE SER ASN ALA SEP CYS THR THR ASN CYS SEQRES 13 B 335 LEU ALA PRO LEU ALA LYS VAL ILE HIS ASP ASN PHE GLY SEQRES 14 B 335 ILE VAL GLU GLY LEU MET THR THR VAL HIS ALA ILE THR SEQRES 15 B 335 ALA THR GLN LYS THR VAL ASP GLY PRO SER GLY LYS LEU SEQRES 16 B 335 TRP ARG ASP GLY ARG GLY ALA LEU GLN ASN ILE ILE PRO SEQRES 17 B 335 ALA SER THR GLY ALA ALA LYS ALA VAL GLY LYS VAL ILE SEQRES 18 B 335 PRO GLU LEU ASN GLY LYS LEU THR GLY MET ALA PHE ARG SEQRES 19 B 335 VAL PRO THR ALA ASN VAL SER VAL VAL ASP LEU THR CYS SEQRES 20 B 335 ARG LEU GLU LYS PRO ALA LYS TYR ASP ASP ILE LYS LYS SEQRES 21 B 335 VAL VAL LYS GLN ALA SER GLU GLY PRO LEU LEU GLY ILE SEQRES 22 B 335 LEU GLY TYR THR GLU HIS GLN VAL VAL SER SER ASP PHE SEQRES 23 B 335 ASN SER ASP THR HIS SER SER THR PHE ASP ALA GLY ALA SEQRES 24 B 335 GLY ILE ALA LEU ASN ASP HIS PHE VAL LYS LEU ILE SER SEQRES 25 B 335 TRP TYR ASP ASN GLU PHE GLY TYR SER ASN ARG VAL VAL SEQRES 26 B 335 ASP LEU MET ALA HIS MET ALA SER LYS GLU SEQRES 1 C 335 MET GLY LYS VAL LYS VAL GLY VAL ASN GLY PHE GLY ARG SEQRES 2 C 335 ILE GLY ARG LEU VAL THR ARG ALA ALA PHE ASN SER GLY SEQRES 3 C 335 LYS VAL ASP ILE VAL ALA ILE ASN ASP PRO PHE ILE ASP SEQRES 4 C 335 LEU ASN TYR MET VAL TYR MET PHE GLN TYR ASP SEP THR SEQRES 5 C 335 HIS GLY LYS PHE HIS GLY THR VAL LYS ALA GLU ASN GLY SEQRES 6 C 335 LYS LEU VAL ILE ASN GLY ASN PRO ILE THR ILE PHE GLN SEQRES 7 C 335 GLU ARG ASP PRO SER LYS ILE LYS TRP GLY ASP ALA GLY SEQRES 8 C 335 ALA GLU TYR VAL VAL GLU SER THR GLY VAL PHE THR THR SEQRES 9 C 335 MET GLU LYS ALA GLY ALA HIS LEU GLN GLY GLY ALA LYS SEQRES 10 C 335 ARG VAL ILE ILE SER ALA PRO SER ALA ASP ALA PRO MET SEQRES 11 C 335 PHE VAL MET GLY VAL ASN HIS GLU LYS TYR ASP ASN SER SEQRES 12 C 335 LEU LYS ILE ILE SER ASN ALA SEP CYS THR THR ASN CYS SEQRES 13 C 335 LEU ALA PRO LEU ALA LYS VAL ILE HIS ASP ASN PHE GLY SEQRES 14 C 335 ILE VAL GLU GLY LEU MET THR THR VAL HIS ALA ILE THR SEQRES 15 C 335 ALA THR GLN LYS THR VAL ASP GLY PRO SER GLY LYS LEU SEQRES 16 C 335 TRP ARG ASP GLY ARG GLY ALA LEU GLN ASN ILE ILE PRO SEQRES 17 C 335 ALA SER THR GLY ALA ALA LYS ALA VAL GLY LYS VAL ILE SEQRES 18 C 335 PRO GLU LEU ASN GLY LYS LEU THR GLY MET ALA PHE ARG SEQRES 19 C 335 VAL PRO THR ALA ASN VAL SER VAL VAL ASP LEU THR CYS SEQRES 20 C 335 ARG LEU GLU LYS PRO ALA LYS TYR ASP ASP ILE LYS LYS SEQRES 21 C 335 VAL VAL LYS GLN ALA SER GLU GLY PRO LEU LEU GLY ILE SEQRES 22 C 335 LEU GLY TYR THR GLU HIS GLN VAL VAL SER SER ASP PHE SEQRES 23 C 335 ASN SER ASP THR HIS SER SER THR PHE ASP ALA GLY ALA SEQRES 24 C 335 GLY ILE ALA LEU ASN ASP HIS PHE VAL LYS LEU ILE SER SEQRES 25 C 335 TRP TYR ASP ASN GLU PHE GLY TYR SER ASN ARG VAL VAL SEQRES 26 C 335 ASP LEU MET ALA HIS MET ALA SER LYS GLU MODRES 6ADE SEP A 51 SER MODIFIED RESIDUE MODRES 6ADE SEP A 151 SER MODIFIED RESIDUE MODRES 6ADE SEP B 51 SER MODIFIED RESIDUE MODRES 6ADE SEP B 151 SER MODIFIED RESIDUE MODRES 6ADE SEP C 51 SER MODIFIED RESIDUE MODRES 6ADE SEP C 151 SER MODIFIED RESIDUE HET SEP A 51 10 HET SEP A 151 10 HET SEP B 51 10 HET SEP B 151 10 HET SEP C 51 10 HET SEP C 151 10 HET NAD A 401 44 HETNAM SEP PHOSPHOSERINE HETNAM NAD NICOTINAMIDE-ADENINE-DINUCLEOTIDE HETSYN SEP PHOSPHONOSERINE FORMUL 1 SEP 6(C3 H8 N O6 P) FORMUL 4 NAD C21 H27 N7 O14 P2 FORMUL 5 HOH *45(H2 O) HELIX 1 AA1 GLY A 12 GLY A 26 1 15 HELIX 2 AA2 ASP A 39 TYR A 49 1 11 HELIX 3 AA3 ASP A 81 ILE A 85 5 5 HELIX 4 AA4 LYS A 86 GLY A 91 1 6 HELIX 5 AA5 THR A 104 GLY A 109 1 6 HELIX 6 AA6 GLY A 109 GLY A 114 1 6 HELIX 7 AA7 ASN A 136 TYR A 140 5 5 HELIX 8 AA8 SEP A 151 PHE A 168 1 18 HELIX 9 AA9 TRP A 196 ARG A 200 5 5 HELIX 10 AB1 GLY A 212 ILE A 221 1 10 HELIX 11 AB2 PRO A 222 ASN A 225 5 4 HELIX 12 AB3 LYS A 254 GLY A 268 1 15 HELIX 13 AB4 VAL A 282 ASN A 287 5 6 HELIX 14 AB5 GLU A 317 LYS A 334 1 18 HELIX 15 AB6 GLY B 12 GLY B 26 1 15 HELIX 16 AB7 ASP B 39 TYR B 49 1 11 HELIX 17 AB8 ASP B 81 ILE B 85 5 5 HELIX 18 AB9 LYS B 86 GLY B 91 1 6 HELIX 19 AC1 THR B 104 GLY B 109 1 6 HELIX 20 AC2 GLY B 109 GLY B 114 1 6 HELIX 21 AC3 ASN B 136 TYR B 140 5 5 HELIX 22 AC4 SEP B 151 PHE B 168 1 18 HELIX 23 AC5 TRP B 196 ARG B 200 5 5 HELIX 24 AC6 ALA B 213 ILE B 221 1 9 HELIX 25 AC7 PRO B 222 ASN B 225 5 4 HELIX 26 AC8 LYS B 254 GLY B 268 1 15 HELIX 27 AC9 VAL B 282 ASN B 287 5 6 HELIX 28 AD1 GLU B 317 LYS B 334 1 18 HELIX 29 AD2 GLY C 12 GLY C 26 1 15 HELIX 30 AD3 ASP C 39 TYR C 49 1 11 HELIX 31 AD4 ASP C 81 ILE C 85 5 5 HELIX 32 AD5 LYS C 86 GLY C 91 1 6 HELIX 33 AD6 THR C 104 GLY C 109 1 6 HELIX 34 AD7 GLY C 109 GLY C 114 1 6 HELIX 35 AD8 ASN C 136 TYR C 140 5 5 HELIX 36 AD9 SEP C 151 PHE C 168 1 18 HELIX 37 AE1 GLY C 212 ILE C 221 1 10 HELIX 38 AE2 PRO C 222 ASN C 225 5 4 HELIX 39 AE3 LYS C 254 GLY C 268 1 15 HELIX 40 AE4 VAL C 282 ASN C 287 5 6 HELIX 41 AE5 GLU C 317 LYS C 334 1 18 SHEET 1 AA1 8 VAL A 60 GLU A 63 0 SHEET 2 AA1 8 LYS A 66 ILE A 69 -1 O VAL A 68 N LYS A 61 SHEET 3 AA1 8 ASN A 72 PHE A 77 -1 O ILE A 74 N LEU A 67 SHEET 4 AA1 8 ASP A 29 ASN A 34 1 N ILE A 33 O THR A 75 SHEET 5 AA1 8 LYS A 5 ASN A 9 1 N VAL A 6 O ASP A 29 SHEET 6 AA1 8 TYR A 94 GLU A 97 1 O VAL A 96 N GLY A 7 SHEET 7 AA1 8 ARG A 118 ILE A 121 1 O ILE A 120 N VAL A 95 SHEET 8 AA1 8 ILE A 146 SER A 148 1 O ILE A 147 N ILE A 121 SHEET 1 AA2 7 ILE A 207 ALA A 209 0 SHEET 2 AA2 7 LEU A 228 ARG A 234 -1 O ARG A 234 N ILE A 207 SHEET 3 AA2 7 ILE A 170 HIS A 179 1 N HIS A 179 O PHE A 233 SHEET 4 AA2 7 SER A 241 LEU A 249 -1 O THR A 246 N LEU A 174 SHEET 5 AA2 7 PHE A 307 TYR A 314 -1 O LEU A 310 N LEU A 245 SHEET 6 AA2 7 SER A 293 ASN A 304 -1 N ILE A 301 O LYS A 309 SHEET 7 AA2 7 LEU A 274 THR A 277 1 N GLY A 275 O SER A 293 SHEET 1 AA3 8 VAL B 60 GLU B 63 0 SHEET 2 AA3 8 LYS B 66 ILE B 69 -1 O VAL B 68 N LYS B 61 SHEET 3 AA3 8 ASN B 72 PHE B 77 -1 O ILE B 74 N LEU B 67 SHEET 4 AA3 8 ASP B 29 ASN B 34 1 N ILE B 33 O THR B 75 SHEET 5 AA3 8 LYS B 5 ASN B 9 1 N VAL B 6 O ASP B 29 SHEET 6 AA3 8 TYR B 94 GLU B 97 1 O VAL B 96 N GLY B 7 SHEET 7 AA3 8 ARG B 118 ILE B 121 1 O ILE B 120 N VAL B 95 SHEET 8 AA3 8 ILE B 146 SER B 148 1 O ILE B 147 N ILE B 121 SHEET 1 AA4 7 ILE B 207 ALA B 209 0 SHEET 2 AA4 7 LEU B 228 ARG B 234 -1 O ARG B 234 N ILE B 207 SHEET 3 AA4 7 ILE B 170 HIS B 179 1 N HIS B 179 O PHE B 233 SHEET 4 AA4 7 SER B 241 LEU B 249 -1 O THR B 246 N LEU B 174 SHEET 5 AA4 7 PHE B 307 TYR B 314 -1 O LEU B 310 N LEU B 245 SHEET 6 AA4 7 SER B 293 ASN B 304 -1 N ILE B 301 O LYS B 309 SHEET 7 AA4 7 LEU B 274 THR B 277 1 N GLY B 275 O SER B 293 SHEET 1 AA5 8 VAL C 60 GLU C 63 0 SHEET 2 AA5 8 LYS C 66 ILE C 69 -1 O VAL C 68 N LYS C 61 SHEET 3 AA5 8 ASN C 72 PHE C 77 -1 O ILE C 74 N LEU C 67 SHEET 4 AA5 8 ASP C 29 ASN C 34 1 N ILE C 33 O THR C 75 SHEET 5 AA5 8 LYS C 5 ASN C 9 1 N VAL C 6 O ASP C 29 SHEET 6 AA5 8 TYR C 94 GLU C 97 1 O VAL C 96 N GLY C 7 SHEET 7 AA5 8 ARG C 118 ILE C 121 1 O ILE C 120 N VAL C 95 SHEET 8 AA5 8 ILE C 146 SER C 148 1 O ILE C 147 N ILE C 121 SHEET 1 AA6 7 ILE C 207 ALA C 209 0 SHEET 2 AA6 7 LEU C 228 ARG C 234 -1 O ARG C 234 N ILE C 207 SHEET 3 AA6 7 ILE C 170 HIS C 179 1 N HIS C 179 O PHE C 233 SHEET 4 AA6 7 SER C 241 LEU C 249 -1 O THR C 246 N LEU C 174 SHEET 5 AA6 7 PHE C 307 TYR C 314 -1 O LEU C 310 N LEU C 245 SHEET 6 AA6 7 SER C 293 ASN C 304 -1 N ILE C 301 O LYS C 309 SHEET 7 AA6 7 LEU C 274 THR C 277 1 N GLY C 275 O SER C 293 LINK C ASP A 50 N SEP A 51 1555 1555 1.34 LINK C SEP A 51 N THR A 52 1555 1555 1.34 LINK C ALA A 150 N SEP A 151 1555 1555 1.35 LINK C SEP A 151 N CYS A 152 1555 1555 1.35 LINK C ASP B 50 N SEP B 51 1555 1555 1.34 LINK C SEP B 51 N THR B 52 1555 1555 1.34 LINK C ALA B 150 N SEP B 151 1555 1555 1.35 LINK C SEP B 151 N CYS B 152 1555 1555 1.34 LINK C ASP C 50 N SEP C 51 1555 1555 1.34 LINK C SEP C 51 N THR C 52 1555 1555 1.35 LINK C ALA C 150 N SEP C 151 1555 1555 1.36 LINK C SEP C 151 N CYS C 152 1555 1555 1.34 SITE 1 AC1 23 ASN A 9 GLY A 10 PHE A 11 GLY A 12 SITE 2 AC1 23 ARG A 13 ILE A 14 ASN A 34 ASP A 35 SITE 3 AC1 23 PRO A 36 PHE A 37 ILE A 38 ARG A 80 SITE 4 AC1 23 SER A 98 THR A 99 GLY A 100 PHE A 102 SITE 5 AC1 23 SER A 122 CYS A 152 THR A 182 ASP A 189 SITE 6 AC1 23 PRO A 191 ASN A 316 TYR A 320 CRYST1 90.780 131.680 220.640 90.00 90.00 90.00 I 2 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 0.011016 0.000000 0.000000 0.00000 SCALE2 0.000000 0.007594 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004532 0.00000