PDB Short entry for 1N1E HEADER OXIDOREDUCTASE 17-OCT-02 1N1E TITLE CRYSTAL STRUCTURE OF LEISHMANIA MEXICANA GLYCEROL-3-PHOSPHATE TITLE 2 DEHYDROGENASE COMPLEXED WITH DHAP AND NAD COMPND MOL_ID: 1; COMPND 2 MOLECULE: GLYCEROL-3-PHOSPHATE DEHYDROGENASE; COMPND 3 CHAIN: A, B; COMPND 4 EC: 1.1.1.8; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: LEISHMANIA MEXICANA; SOURCE 3 ORGANISM_TAXID: 5665; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 5 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PET3A KEYWDS NAD BINDING DOMAIN, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR J.CHOE,W.G.J.HOL REVDAT 3 14-FEB-24 1N1E 1 REMARK REVDAT 2 24-FEB-09 1N1E 1 VERSN REVDAT 1 27-MAY-03 1N1E 0 JRNL AUTH J.CHOE,D.GUERRA,P.A.M.MICHELS,W.G.J.HOL JRNL TITL LEISHMANIA MEXICANA GLYCEROL-3-PHOSPHATE DEHYDROGENASE JRNL TITL 2 SHOWED CONFORMATIONAL CHANGES UPON BINDING A BI-SUBSTRATE JRNL TITL 3 ADDUCT JRNL REF J.MOL.BIOL. V. 320 335 2003 JRNL REFN ISSN 0022-2836 JRNL PMID 12758080 JRNL DOI 10.1016/S0022-2836(03)00421-2 REMARK 2 REMARK 2 RESOLUTION. 1.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.1.24 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 47.37 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 92.3 REMARK 3 NUMBER OF REFLECTIONS : 62860 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) : 0.174 REMARK 3 R VALUE (WORKING SET) : 0.173 REMARK 3 FREE R VALUE : 0.195 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 3373 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.90 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.95 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3006 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 61.50 REMARK 3 BIN R VALUE (WORKING SET) : 0.2470 REMARK 3 BIN FREE R VALUE SET COUNT : 171 REMARK 3 BIN FREE R VALUE : 0.2380 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5254 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 108 REMARK 3 SOLVENT ATOMS : 306 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 20.30 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 21.13 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.37000 REMARK 3 B22 (A**2) : 1.37000 REMARK 3 B33 (A**2) : -2.05000 REMARK 3 B12 (A**2) : 0.68000 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): 0.129 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.116 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.080 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.829 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.958 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.945 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5446 ; 0.009 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 5134 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7366 ; 1.341 ; 2.008 REMARK 3 BOND ANGLES OTHERS (DEGREES): 11926 ; 0.765 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 696 ; 5.501 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 884 ; 0.168 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5938 ; 0.004 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1028 ; 0.002 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1130 ; 0.216 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 5684 ; 0.234 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): 3155 ; 0.082 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 239 ; 0.163 ; 0.200 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): 16 ; 0.167 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 39 ; 0.245 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 15 ; 0.583 ; 0.200 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): 3450 ; 0.702 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 5524 ; 1.386 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1996 ; 2.036 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1842 ; 3.606 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; 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 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 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 1N1E COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 11-NOV-02. REMARK 100 THE DEPOSITION ID IS D_1000017397. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-FEB-02 REMARK 200 TEMPERATURE (KELVIN) : 150 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 19-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.979 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 : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 62860 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.900 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 (%) : 92.0 REMARK 200 DATA REDUNDANCY : 12.00 REMARK 200 R MERGE (I) : 0.06300 REMARK 200 R SYM (I) : 0.06300 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 19.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.97 REMARK 200 COMPLETENESS FOR SHELL (%) : 61.5 REMARK 200 DATA REDUNDANCY IN SHELL : 2.50 REMARK 200 R MERGE FOR SHELL (I) : 0.30600 REMARK 200 R SYM FOR SHELL (I) : 0.30600 REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.100 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 58.41 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.96 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 8000, AMMONIUM SULFATE, REMARK 280 CACODYLATE, PH 6.5, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE REMARK 280 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 65 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/6 REMARK 290 6555 X-Y,X,Z+5/6 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 177.75400 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 88.87700 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 133.31550 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 44.43850 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 222.19250 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 8240 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 25630 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -69.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 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 SER A 2 REMARK 465 THR A 3 REMARK 465 LYS A 4 REMARK 465 GLN A 5 REMARK 465 HIS A 6 REMARK 465 SER A 7 REMARK 465 ALA A 8 REMARK 465 ARG A 358 REMARK 465 SER A 359 REMARK 465 ALA A 360 REMARK 465 SER A 361 REMARK 465 THR A 362 REMARK 465 PRO A 363 REMARK 465 SER A 364 REMARK 465 LYS A 365 REMARK 465 LEU A 366 REMARK 465 MET B 1 REMARK 465 SER B 2 REMARK 465 THR B 3 REMARK 465 LYS B 4 REMARK 465 GLN B 5 REMARK 465 HIS B 6 REMARK 465 SER B 7 REMARK 465 ALA B 8 REMARK 465 ARG B 358 REMARK 465 SER B 359 REMARK 465 ALA B 360 REMARK 465 SER B 361 REMARK 465 THR B 362 REMARK 465 PRO B 363 REMARK 465 SER B 364 REMARK 465 LYS B 365 REMARK 465 LEU B 366 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 HOH B 450 O HOH B 503 1.16 REMARK 500 O HOH B 414 O HOH B 503 1.82 REMARK 500 O HOH B 450 O HOH B 465 1.97 REMARK 500 OE1 GLN A 265 O HOH A 410 2.04 REMARK 500 OE1 GLU B 80 O HOH B 556 2.12 REMARK 500 OE1 GLN B 265 O HOH B 422 2.14 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 522 O HOH B 554 6554 1.58 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 ASP A 174 CB - CG - OD2 ANGL. DEV. = 5.5 DEGREES REMARK 500 ASP A 189 CB - CG - OD2 ANGL. DEV. = 5.5 DEGREES REMARK 500 ASP A 251 CB - CG - OD2 ANGL. DEV. = 6.0 DEGREES REMARK 500 ASP B 10 CB - CG - OD2 ANGL. DEV. = 5.5 DEGREES REMARK 500 ASP B 174 CB - CG - OD2 ANGL. DEV. = 5.9 DEGREES REMARK 500 ASP B 251 CB - CG - OD2 ANGL. DEV. = 6.8 DEGREES REMARK 500 ASP B 263 CB - CG - OD2 ANGL. DEV. = 5.7 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 LYS A 332 18.81 59.88 REMARK 500 REMARK 500 REMARK: NULL REMARK 600 REMARK 600 HETEROGEN REMARK 600 THE LIGAND IS AN ADDUCT FORMED FROM REMARK 600 DHAP (DIHYDROXYACETONE PHOSPHATE) COVALENTLY REMARK 600 BOUND TO NAD. REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NDE A 400 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NDE B 401 DBREF 1N1E A 1 366 UNP P90551 P90551_LEIME 1 366 DBREF 1N1E B 1 366 UNP P90551 P90551_LEIME 1 366 SEQRES 1 A 366 MET SER THR LYS GLN HIS SER ALA LYS ASP GLU LEU LEU SEQRES 2 A 366 TYR LEU ASN LYS ALA VAL VAL PHE GLY SER GLY ALA PHE SEQRES 3 A 366 GLY THR ALA LEU ALA MET VAL LEU SER LYS LYS CYS ARG SEQRES 4 A 366 GLU VAL CYS VAL TRP HIS MET ASN GLU GLU GLU VAL ARG SEQRES 5 A 366 LEU VAL ASN GLU LYS ARG GLU ASN VAL LEU PHE LEU LYS SEQRES 6 A 366 GLY VAL GLN LEU ALA SER ASN ILE THR PHE THR SER ASP SEQRES 7 A 366 VAL GLU LYS ALA TYR ASN GLY ALA GLU ILE ILE LEU PHE SEQRES 8 A 366 VAL ILE PRO THR GLN PHE LEU ARG GLY PHE PHE GLU LYS SEQRES 9 A 366 SER GLY GLY ASN LEU ILE ALA TYR ALA LYS GLU LYS GLN SEQRES 10 A 366 VAL PRO VAL LEU VAL CYS THR LYS GLY ILE GLU ARG SER SEQRES 11 A 366 THR LEU LYS PHE PRO ALA GLU ILE ILE GLY GLU PHE LEU SEQRES 12 A 366 PRO SER PRO LEU LEU SER VAL LEU ALA GLY PRO SER PHE SEQRES 13 A 366 ALA ILE GLU VAL ALA THR GLY VAL PHE THR CYS VAL SER SEQRES 14 A 366 ILE ALA SER ALA ASP ILE ASN VAL ALA ARG ARG LEU GLN SEQRES 15 A 366 ARG ILE MET SER THR GLY ASP ARG SER PHE VAL CYS TRP SEQRES 16 A 366 ALA THR THR ASP THR VAL GLY CYS GLU VAL ALA SER ALA SEQRES 17 A 366 VAL LYS ASN VAL LEU ALA ILE GLY SER GLY VAL ALA ASN SEQRES 18 A 366 GLY LEU GLY MET GLY LEU ASN ALA ARG ALA ALA LEU ILE SEQRES 19 A 366 MET ARG GLY LEU LEU GLU ILE ARG ASP LEU THR ALA ALA SEQRES 20 A 366 LEU GLY GLY ASP GLY SER ALA VAL PHE GLY LEU ALA GLY SEQRES 21 A 366 LEU GLY ASP LEU GLN LEU THR CYS SER SER GLU LEU SER SEQRES 22 A 366 ARG ASN PHE THR VAL GLY LYS LYS LEU GLY LYS GLY LEU SEQRES 23 A 366 PRO ILE GLU GLU ILE GLN ARG THR SER LYS ALA VAL ALA SEQRES 24 A 366 GLU GLY VAL ALA THR ALA ASP PRO LEU MET ARG LEU ALA SEQRES 25 A 366 LYS GLN LEU LYS VAL LYS MET PRO LEU CYS HIS GLN ILE SEQRES 26 A 366 TYR GLU ILE VAL TYR LYS LYS LYS ASN PRO ARG ASP ALA SEQRES 27 A 366 LEU ALA ASP LEU LEU SER CYS GLY LEU GLN ASP GLU GLY SEQRES 28 A 366 LEU PRO PRO LEU PHE LYS ARG SER ALA SER THR PRO SER SEQRES 29 A 366 LYS LEU SEQRES 1 B 366 MET SER THR LYS GLN HIS SER ALA LYS ASP GLU LEU LEU SEQRES 2 B 366 TYR LEU ASN LYS ALA VAL VAL PHE GLY SER GLY ALA PHE SEQRES 3 B 366 GLY THR ALA LEU ALA MET VAL LEU SER LYS LYS CYS ARG SEQRES 4 B 366 GLU VAL CYS VAL TRP HIS MET ASN GLU GLU GLU VAL ARG SEQRES 5 B 366 LEU VAL ASN GLU LYS ARG GLU ASN VAL LEU PHE LEU LYS SEQRES 6 B 366 GLY VAL GLN LEU ALA SER ASN ILE THR PHE THR SER ASP SEQRES 7 B 366 VAL GLU LYS ALA TYR ASN GLY ALA GLU ILE ILE LEU PHE SEQRES 8 B 366 VAL ILE PRO THR GLN PHE LEU ARG GLY PHE PHE GLU LYS SEQRES 9 B 366 SER GLY GLY ASN LEU ILE ALA TYR ALA LYS GLU LYS GLN SEQRES 10 B 366 VAL PRO VAL LEU VAL CYS THR LYS GLY ILE GLU ARG SER SEQRES 11 B 366 THR LEU LYS PHE PRO ALA GLU ILE ILE GLY GLU PHE LEU SEQRES 12 B 366 PRO SER PRO LEU LEU SER VAL LEU ALA GLY PRO SER PHE SEQRES 13 B 366 ALA ILE GLU VAL ALA THR GLY VAL PHE THR CYS VAL SER SEQRES 14 B 366 ILE ALA SER ALA ASP ILE ASN VAL ALA ARG ARG LEU GLN SEQRES 15 B 366 ARG ILE MET SER THR GLY ASP ARG SER PHE VAL CYS TRP SEQRES 16 B 366 ALA THR THR ASP THR VAL GLY CYS GLU VAL ALA SER ALA SEQRES 17 B 366 VAL LYS ASN VAL LEU ALA ILE GLY SER GLY VAL ALA ASN SEQRES 18 B 366 GLY LEU GLY MET GLY LEU ASN ALA ARG ALA ALA LEU ILE SEQRES 19 B 366 MET ARG GLY LEU LEU GLU ILE ARG ASP LEU THR ALA ALA SEQRES 20 B 366 LEU GLY GLY ASP GLY SER ALA VAL PHE GLY LEU ALA GLY SEQRES 21 B 366 LEU GLY ASP LEU GLN LEU THR CYS SER SER GLU LEU SER SEQRES 22 B 366 ARG ASN PHE THR VAL GLY LYS LYS LEU GLY LYS GLY LEU SEQRES 23 B 366 PRO ILE GLU GLU ILE GLN ARG THR SER LYS ALA VAL ALA SEQRES 24 B 366 GLU GLY VAL ALA THR ALA ASP PRO LEU MET ARG LEU ALA SEQRES 25 B 366 LYS GLN LEU LYS VAL LYS MET PRO LEU CYS HIS GLN ILE SEQRES 26 B 366 TYR GLU ILE VAL TYR LYS LYS LYS ASN PRO ARG ASP ALA SEQRES 27 B 366 LEU ALA ASP LEU LEU SER CYS GLY LEU GLN ASP GLU GLY SEQRES 28 B 366 LEU PRO PRO LEU PHE LYS ARG SER ALA SER THR PRO SER SEQRES 29 B 366 LYS LEU HET NDE A 400 54 HET NDE B 401 54 HETNAM NDE ADENOSINE 5'-(TRIHYDROGEN DIPHOSPHATE) P'-5'-ESTER WITH HETNAM 2 NDE 3-(AMINOCARBONYL)-4-(1-HYDROXYL-2-OXO-3-PHOSPHONOOXY- HETNAM 3 NDE PROPYL)-1-BETA-D-RIBOFURANOSYLPYRIDINIUM INNER SALT HETSYN NDE NAD WITH (1-HYDROXYL-2-OXO-3-PHOSPHONOOXY-PROPANE) FORMUL 3 NDE 2(C24 H32 N7 O20 P3) FORMUL 5 HOH *306(H2 O) HELIX 1 1 GLY A 24 LYS A 36 1 13 HELIX 2 2 ASN A 47 ARG A 58 1 12 HELIX 3 3 ASP A 78 ASN A 84 1 7 HELIX 4 4 PRO A 94 GLN A 96 5 3 HELIX 5 5 PHE A 97 GLY A 106 1 10 HELIX 6 6 GLY A 106 GLN A 117 1 12 HELIX 7 7 PHE A 134 GLY A 140 1 7 HELIX 8 8 PRO A 144 PRO A 146 5 3 HELIX 9 9 PHE A 156 THR A 162 1 7 HELIX 10 10 ASP A 174 SER A 186 1 13 HELIX 11 11 ASP A 199 LEU A 223 1 25 HELIX 12 12 GLY A 226 LEU A 248 1 23 HELIX 13 13 GLY A 260 CYS A 268 1 9 HELIX 14 14 SER A 273 GLY A 285 1 13 HELIX 15 15 PRO A 287 THR A 294 1 8 HELIX 16 16 ALA A 299 LYS A 316 1 18 HELIX 17 17 MET A 319 LYS A 331 1 13 HELIX 18 18 ASN A 334 LEU A 343 1 10 HELIX 19 19 GLY B 24 LYS B 36 1 13 HELIX 20 20 ASN B 47 ARG B 58 1 12 HELIX 21 21 ASP B 78 ASN B 84 1 7 HELIX 22 22 PRO B 94 GLN B 96 5 3 HELIX 23 23 PHE B 97 GLY B 106 1 10 HELIX 24 24 GLY B 106 GLN B 117 1 12 HELIX 25 25 PHE B 134 GLU B 141 1 8 HELIX 26 26 PRO B 144 PRO B 146 5 3 HELIX 27 27 PHE B 156 THR B 162 1 7 HELIX 28 28 ASP B 174 SER B 186 1 13 HELIX 29 29 ASP B 199 LEU B 223 1 25 HELIX 30 30 GLY B 226 LEU B 248 1 23 HELIX 31 31 GLY B 260 CYS B 268 1 9 HELIX 32 32 SER B 273 LYS B 284 1 12 HELIX 33 33 PRO B 287 THR B 294 1 8 HELIX 34 34 ALA B 299 LYS B 316 1 18 HELIX 35 35 MET B 319 LYS B 332 1 14 HELIX 36 36 ASN B 334 LEU B 343 1 10 SHEET 1 A 9 ILE A 73 THR A 76 0 SHEET 2 A 9 CYS A 38 TRP A 44 1 N VAL A 41 O THR A 74 SHEET 3 A 9 LEU A 15 PHE A 21 1 N VAL A 20 O TRP A 44 SHEET 4 A 9 ILE A 89 PHE A 91 1 O LEU A 90 N PHE A 21 SHEET 5 A 9 VAL A 120 VAL A 122 1 O LEU A 121 N ILE A 89 SHEET 6 A 9 LEU A 148 ALA A 152 1 O SER A 149 N VAL A 122 SHEET 7 A 9 THR A 166 ALA A 171 -1 O ALA A 171 N VAL A 150 SHEET 8 A 9 PHE A 192 THR A 197 1 O VAL A 193 N THR A 166 SHEET 9 A 9 GLN B 348 ASP B 349 1 O GLN B 348 N ALA A 196 SHEET 1 B 8 ILE B 73 THR B 76 0 SHEET 2 B 8 CYS B 38 TRP B 44 1 N VAL B 41 O THR B 74 SHEET 3 B 8 LEU B 15 PHE B 21 1 N VAL B 20 O CYS B 42 SHEET 4 B 8 ILE B 89 PHE B 91 1 O LEU B 90 N PHE B 21 SHEET 5 B 8 VAL B 120 VAL B 122 1 O LEU B 121 N ILE B 89 SHEET 6 B 8 LEU B 148 ALA B 152 1 O SER B 149 N VAL B 122 SHEET 7 B 8 THR B 166 ALA B 171 -1 O ALA B 171 N VAL B 150 SHEET 8 B 8 PHE B 192 THR B 197 1 O VAL B 193 N THR B 166 SITE 1 AC1 35 SER A 23 GLY A 24 ALA A 25 PHE A 26 SITE 2 AC1 35 HIS A 45 MET A 46 PHE A 63 VAL A 92 SITE 3 AC1 35 PRO A 94 PHE A 97 THR A 124 LYS A 125 SITE 4 AC1 35 GLY A 153 SER A 155 PHE A 156 ALA A 157 SITE 5 AC1 35 LYS A 210 ASN A 211 THR A 267 SER A 273 SITE 6 AC1 35 ARG A 274 ASN A 275 ALA A 297 VAL A 298 SITE 7 AC1 35 GLU A 300 HOH A 428 HOH A 460 HOH A 463 SITE 8 AC1 35 HOH A 466 HOH A 467 HOH A 469 HOH A 471 SITE 9 AC1 35 HOH A 486 HOH A 525 HOH A 535 SITE 1 AC2 31 SER B 23 GLY B 24 ALA B 25 PHE B 26 SITE 2 AC2 31 HIS B 45 PHE B 63 VAL B 92 PRO B 94 SITE 3 AC2 31 PHE B 97 THR B 124 LYS B 125 GLY B 153 SITE 4 AC2 31 SER B 155 PHE B 156 ALA B 157 LYS B 210 SITE 5 AC2 31 ASN B 211 THR B 267 SER B 273 ARG B 274 SITE 6 AC2 31 ASN B 275 ALA B 297 VAL B 298 GLU B 300 SITE 7 AC2 31 HOH B 417 HOH B 468 HOH B 473 HOH B 475 SITE 8 AC2 31 HOH B 479 HOH B 525 HOH B 560 CRYST1 77.745 77.745 266.631 90.00 90.00 120.00 P 65 12 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 0.012863 0.007426 0.000000 0.00000 SCALE2 0.000000 0.014852 0.000000 0.00000 SCALE3 0.000000 0.000000 0.003751 0.00000