HEADER OXIDOREDUCTASE 31-MAR-05 1X0X TITLE CO-STRUCTURE OF HOMO SAPIENS GLYCEROL-3-PHOSPHATE DEHYDROGENASE 1 TITLE 2 COMPLEX WITH NAD COMPND MOL_ID: 1; COMPND 2 MOLECULE: GLYCEROL-3-PHOSPHATE DEHYDROGENASE [NAD+], CYTOPLASMIC; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: GPD-C, GPDH-C; COMPND 5 EC: 1.1.1.8; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: DE3(BL21); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PGEX-6P-1 KEYWDS NAD, CO-ENZYME, GPD1, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR Z.RAO,X.OU REVDAT 6 13-MAR-24 1X0X 1 REMARK SEQADV REVDAT 5 11-OCT-17 1X0X 1 REMARK REVDAT 4 13-JUL-11 1X0X 1 VERSN REVDAT 3 24-FEB-09 1X0X 1 VERSN REVDAT 2 20-JUN-06 1X0X 1 TITLE REVDAT 1 11-APR-06 1X0X 0 JRNL AUTH X.OU,C.JI,X.HAN,X.ZHAO,X.LI,Y.MAO,L.L.WONG,M.BARTLAM,Z.RAO JRNL TITL CRYSTAL STRUCTURES OF HUMAN GLYCEROL 3-PHOSPHATE JRNL TITL 2 DEHYDROGENASE 1 (GPD1) JRNL REF J.MOL.BIOL. V. 357 858 2006 JRNL REFN ISSN 0022-2836 JRNL PMID 16460752 JRNL DOI 10.1016/J.JMB.2005.12.074 REMARK 2 REMARK 2 RESOLUTION. 2.75 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) : 2.75 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 NUMBER OF REFLECTIONS : 13788 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING SET) : 0.178 REMARK 3 FREE R VALUE : 0.239 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : 656 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) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE : NULL 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 : 2638 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 69 REMARK 3 SOLVENT ATOMS : 210 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL 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 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) : 0.120 REMARK 3 BOND ANGLES (DEGREES) : 1.590 REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL 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 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1X0X COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 01-APR-05. REMARK 100 THE DEPOSITION ID IS D_1000024240. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-APR-04 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU RU200 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MAR REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 26614 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.750 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.75 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.85 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL 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: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 63.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.40 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M TRI-SODIUM CITRATE DIHYDRATE, REMARK 280 0.5M AMMONIUM SULFATE, 1.0M LITHIUM SULFATE MONOHYDRATE, PH 5.6, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 41 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 3555 -Y,X+1/2,Z+1/4 REMARK 290 4555 Y+1/2,-X,Z+3/4 REMARK 290 5555 -X+1/2,Y,-Z+3/4 REMARK 290 6555 X,-Y+1/2,-Z+1/4 REMARK 290 7555 Y+1/2,X+1/2,-Z+1/2 REMARK 290 8555 -Y,-X,-Z REMARK 290 9555 X+1/2,Y+1/2,Z+1/2 REMARK 290 10555 -X,-Y,Z REMARK 290 11555 -Y+1/2,X,Z+3/4 REMARK 290 12555 Y,-X+1/2,Z+1/4 REMARK 290 13555 -X,Y+1/2,-Z+1/4 REMARK 290 14555 X+1/2,-Y,-Z+3/4 REMARK 290 15555 Y,X,-Z REMARK 290 16555 -Y+1/2,-X+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 58.29950 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 58.29950 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 76.87100 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 58.29950 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 38.43550 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 58.29950 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 115.30650 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 58.29950 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 115.30650 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 58.29950 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 38.43550 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 58.29950 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 58.29950 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 76.87100 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 1.000000 0.000000 0.000000 58.29950 REMARK 290 SMTRY2 9 0.000000 1.000000 0.000000 58.29950 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 76.87100 REMARK 290 SMTRY1 10 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 10 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 11 0.000000 -1.000000 0.000000 58.29950 REMARK 290 SMTRY2 11 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 1.000000 115.30650 REMARK 290 SMTRY1 12 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 12 -1.000000 0.000000 0.000000 58.29950 REMARK 290 SMTRY3 12 0.000000 0.000000 1.000000 38.43550 REMARK 290 SMTRY1 13 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 58.29950 REMARK 290 SMTRY3 13 0.000000 0.000000 -1.000000 38.43550 REMARK 290 SMTRY1 14 1.000000 0.000000 0.000000 58.29950 REMARK 290 SMTRY2 14 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 14 0.000000 0.000000 -1.000000 115.30650 REMARK 290 SMTRY1 15 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 15 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 15 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 16 0.000000 -1.000000 0.000000 58.29950 REMARK 290 SMTRY2 16 -1.000000 0.000000 0.000000 58.29950 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 76.87100 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: 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA,PQS REMARK 350 TOTAL BURIED SURFACE AREA: 7860 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 25320 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -161.0 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 58.29950 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 -269.04850 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 GLY A -4 REMARK 465 PRO A -3 REMARK 465 LEU A -2 REMARK 465 GLY A -1 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 PRO A 320 C - N - CA ANGL. DEV. = 12.2 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 MET A 1 149.59 50.69 REMARK 500 SER A 11 20.52 -158.26 REMARK 500 ASN A 60 67.06 -107.09 REMARK 500 LYS A 106 120.40 -39.97 REMARK 500 PRO A 126 -19.90 -45.90 REMARK 500 ASN A 127 78.10 -150.72 REMARK 500 ASN A 293 47.30 33.17 REMARK 500 HIS A 312 3.52 -67.59 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 SO4 A 1001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 1002 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 1003 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 1004 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 1005 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NAD A 2001 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1WPQ RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF HOMO SAPIENS GLYCEROL-3-PHOSPHATE REMARK 900 DEHYDROGENASE 1 COMPLEXED WITH NAD AND HIHYDROXYACTONE REMARK 900 RELATED ID: 1X0V RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF HOMO SAPIENS GLYCEROL-3-PHOSPHATE REMARK 900 DEHYDROGENASE 1 DBREF 1X0X A 1 349 UNP P21695 GPDA_HUMAN 1 349 SEQADV 1X0X GLY A -4 UNP P21695 CLONING ARTIFACT SEQADV 1X0X PRO A -3 UNP P21695 CLONING ARTIFACT SEQADV 1X0X LEU A -2 UNP P21695 CLONING ARTIFACT SEQADV 1X0X GLY A -1 UNP P21695 CLONING ARTIFACT SEQADV 1X0X SER A 0 UNP P21695 CLONING ARTIFACT SEQRES 1 A 354 GLY PRO LEU GLY SER MET ALA SER LYS LYS VAL CYS ILE SEQRES 2 A 354 VAL GLY SER GLY ASN TRP GLY SER ALA ILE ALA LYS ILE SEQRES 3 A 354 VAL GLY GLY ASN ALA ALA GLN LEU ALA GLN PHE ASP PRO SEQRES 4 A 354 ARG VAL THR MET TRP VAL PHE GLU GLU ASP ILE GLY GLY SEQRES 5 A 354 LYS LYS LEU THR GLU ILE ILE ASN THR GLN HIS GLU ASN SEQRES 6 A 354 VAL LYS TYR LEU PRO GLY HIS LYS LEU PRO PRO ASN VAL SEQRES 7 A 354 VAL ALA VAL PRO ASP VAL VAL GLN ALA ALA GLU ASP ALA SEQRES 8 A 354 ASP ILE LEU ILE PHE VAL VAL PRO HIS GLN PHE ILE GLY SEQRES 9 A 354 LYS ILE CYS ASP GLN LEU LYS GLY HIS LEU LYS ALA ASN SEQRES 10 A 354 ALA THR GLY ILE SER LEU ILE LYS GLY VAL ASP GLU GLY SEQRES 11 A 354 PRO ASN GLY LEU LYS LEU ILE SER GLU VAL ILE GLY GLU SEQRES 12 A 354 ARG LEU GLY ILE PRO MET SER VAL LEU MET GLY ALA ASN SEQRES 13 A 354 ILE ALA SER GLU VAL ALA ASP GLU LYS PHE CYS GLU THR SEQRES 14 A 354 THR ILE GLY CYS LYS ASP PRO ALA GLN GLY GLN LEU LEU SEQRES 15 A 354 LYS GLU LEU MET GLN THR PRO ASN PHE ARG ILE THR VAL SEQRES 16 A 354 VAL GLN GLU VAL ASP THR VAL GLU ILE CYS GLY ALA LEU SEQRES 17 A 354 LYS ASN VAL VAL ALA VAL GLY ALA GLY PHE CYS ASP GLY SEQRES 18 A 354 LEU GLY PHE GLY ASP ASN THR LYS ALA ALA VAL ILE ARG SEQRES 19 A 354 LEU GLY LEU MET GLU MET ILE ALA PHE ALA LYS LEU PHE SEQRES 20 A 354 CYS SER GLY PRO VAL SER SER ALA THR PHE LEU GLU SER SEQRES 21 A 354 CYS GLY VAL ALA ASP LEU ILE THR THR CYS TYR GLY GLY SEQRES 22 A 354 ARG ASN ARG LYS VAL ALA GLU ALA PHE ALA ARG THR GLY SEQRES 23 A 354 LYS SER ILE GLU GLN LEU GLU LYS GLU LEU LEU ASN GLY SEQRES 24 A 354 GLN LYS LEU GLN GLY PRO GLU THR ALA ARG GLU LEU TYR SEQRES 25 A 354 SER ILE LEU GLN HIS LYS GLY LEU VAL ASP LYS PHE PRO SEQRES 26 A 354 LEU PHE MET ALA VAL TYR LYS VAL CYS TYR GLU GLY GLN SEQRES 27 A 354 PRO VAL GLY GLU PHE ILE HIS CYS LEU GLN ASN HIS PRO SEQRES 28 A 354 GLU HIS MET HET SO4 A1001 5 HET SO4 A1002 5 HET SO4 A1003 5 HET SO4 A1004 5 HET SO4 A1005 5 HET NAD A2001 44 HETNAM SO4 SULFATE ION HETNAM NAD NICOTINAMIDE-ADENINE-DINUCLEOTIDE FORMUL 2 SO4 5(O4 S 2-) FORMUL 7 NAD C21 H27 N7 O14 P2 FORMUL 8 HOH *210(H2 O) HELIX 1 1 GLY A 12 LEU A 29 1 18 HELIX 2 2 LEU A 50 HIS A 58 1 9 HELIX 3 3 ASP A 78 GLU A 84 1 7 HELIX 4 4 PRO A 94 GLN A 96 5 3 HELIX 5 5 PHE A 97 LYS A 106 1 10 HELIX 6 6 LEU A 131 GLY A 141 1 11 HELIX 7 7 ILE A 152 ASP A 158 1 7 HELIX 8 8 ASP A 170 GLN A 182 1 13 HELIX 9 9 GLU A 193 LEU A 217 1 25 HELIX 10 10 GLY A 220 CYS A 243 1 24 HELIX 11 11 SER A 248 GLU A 254 5 7 HELIX 12 12 GLY A 257 GLY A 268 1 12 HELIX 13 13 GLY A 268 GLY A 281 1 14 HELIX 14 14 SER A 283 LEU A 292 1 10 HELIX 15 15 GLN A 298 HIS A 312 1 15 HELIX 16 16 LYS A 313 GLY A 314 5 2 HELIX 17 17 LEU A 315 LYS A 318 5 4 HELIX 18 18 PHE A 319 TYR A 330 1 12 HELIX 19 19 PRO A 334 GLY A 336 5 3 HELIX 20 20 GLU A 337 ASN A 344 1 8 SHEET 1 A 8 VAL A 73 VAL A 76 0 SHEET 2 A 8 VAL A 36 TRP A 39 1 N MET A 38 O VAL A 74 SHEET 3 A 8 VAL A 6 VAL A 9 1 N ILE A 8 O THR A 37 SHEET 4 A 8 ILE A 88 PHE A 91 1 O ILE A 90 N VAL A 9 SHEET 5 A 8 THR A 114 SER A 117 1 O ILE A 116 N PHE A 91 SHEET 6 A 8 MET A 144 MET A 148 1 O SER A 145 N SER A 117 SHEET 7 A 8 CYS A 162 GLY A 167 -1 O THR A 165 N MET A 148 SHEET 8 A 8 PHE A 186 VAL A 191 1 O VAL A 191 N ILE A 166 SHEET 1 B 2 ASP A 44 ILE A 45 0 SHEET 2 B 2 LYS A 48 LYS A 49 -1 O LYS A 48 N ILE A 45 SHEET 1 C 2 ASP A 123 GLY A 125 0 SHEET 2 C 2 GLY A 128 LYS A 130 -1 O GLY A 128 N GLY A 125 SITE 1 AC1 3 LYS A 20 HIS A 67 LYS A 68 SITE 1 AC2 12 LYS A 204 ASN A 205 THR A 264 GLY A 268 SITE 2 AC2 12 ARG A 269 ASN A 270 HOH A2010 HOH A2022 SITE 3 AC2 12 HOH A2039 HOH A2049 HOH A2076 HOH A2134 SITE 1 AC3 6 LYS A 240 VAL A 247 SER A 248 SER A 249 SITE 2 AC3 6 HOH A2175 HOH A2179 SITE 1 AC4 3 ARG A 271 LYS A 272 HOH A2017 SITE 1 AC5 5 ASN A 13 GLN A 295 HOH A2065 HOH A2096 SITE 2 AC5 5 HOH A2211 SITE 1 AC6 29 SER A 11 GLY A 12 ASN A 13 TRP A 14 SITE 2 AC6 29 GLY A 15 PHE A 41 TYR A 63 VAL A 93 SITE 3 AC6 29 PRO A 94 PHE A 97 ILE A 119 LYS A 120 SITE 4 AC6 29 ASN A 151 ALA A 153 ARG A 269 GLY A 294 SITE 5 AC6 29 GLN A 295 LYS A 296 GLN A 298 HOH A2007 SITE 6 AC6 29 HOH A2011 HOH A2012 HOH A2022 HOH A2023 SITE 7 AC6 29 HOH A2039 HOH A2044 HOH A2087 HOH A2134 SITE 8 AC6 29 HOH A2135 CRYST1 116.599 116.599 153.742 90.00 90.00 90.00 I 41 2 2 16 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 0.008576 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008576 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006504 0.00000