HEADER OXIDOREDUCTASE (NAD(A)) 02-MAY-95 1PSD TITLE THE ALLOSTERIC LIGAND SITE IN THE VMAX-TYPE COOPERATIVE ENZYME TITLE 2 PHOSPHOGLYCERATE DEHYDROGENASE COMPND MOL_ID: 1; COMPND 2 MOLECULE: D-3-PHOSPHOGLYCERATE DEHYDROGENASE (PHOSPHOGLYCERATE COMPND 3 DEHYDROGENASE); COMPND 4 CHAIN: A, B; COMPND 5 EC: 1.1.1.95; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 83333; SOURCE 4 STRAIN: K12; SOURCE 5 EXPRESSION_SYSTEM_STRAIN: K12; SOURCE 6 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID KEYWDS OXIDOREDUCTASE (NAD(A)) EXPDTA X-RAY DIFFRACTION AUTHOR D.J.SCHULLER,G.A.GRANT,L.J.BANASZAK REVDAT 5 14-FEB-24 1PSD 1 REMARK REVDAT 4 29-NOV-17 1PSD 1 HELIX REVDAT 3 13-JUL-11 1PSD 1 VERSN REVDAT 2 24-FEB-09 1PSD 1 VERSN REVDAT 1 31-JUL-95 1PSD 0 JRNL AUTH D.J.SCHULLER,G.A.GRANT,L.J.BANASZAK JRNL TITL THE ALLOSTERIC LIGAND SITE IN THE VMAX-TYPE COOPERATIVE JRNL TITL 2 ENZYME PHOSPHOGLYCERATE DEHYDROGENASE. JRNL REF NAT.STRUCT.BIOL. V. 2 69 1995 JRNL REFN ISSN 1072-8368 JRNL PMID 7719856 JRNL DOI 10.1038/NSB0195-69 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH D.J.SCHULLER,C.H.FETTER,L.J.BANASZAK,G.A.GRANT REMARK 1 TITL ENHANCED EXPRESSION OF THE ESCHERICHIA COLI SERA GENE IN A REMARK 1 TITL 2 PLASMID VECTOR: PURIFICATION, CRYSTALLIZATION, AND REMARK 1 TITL 3 PRELIMINARY X-RAY DAT OF D-3-PHOSPHOGLYCERATE DEHYDROGENASE REMARK 1 REF J.BIOL.CHEM. V. 264 2645 1989 REMARK 1 REFN ISSN 0021-9258 REMARK 1 REFERENCE 2 REMARK 1 AUTH K.L.TOBEY,G.A.GRANT REMARK 1 TITL THE NUCLEOTIDE SEQUENCE OF THE SERA GENE OF ESCHERICHIA COLI REMARK 1 TITL 2 AND THE AMINO ACID SEQUENCE OF THE ENCODED PROTEIN, REMARK 1 TITL 3 D-3-PHOSPHOGLYCERATE DEHYDROGENASE REMARK 1 REF J.BIOL.CHEM. V. 261 12179 1986 REMARK 1 REFN ISSN 0021-9258 REMARK 2 REMARK 2 RESOLUTION. 2.75 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.75 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 9.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 2.000 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 : 21295 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING SET) : 0.177 REMARK 3 FREE R VALUE : NULL REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 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 : 6126 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 102 REMARK 3 SOLVENT ATOMS : 76 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) : 0.008 REMARK 3 BOND ANGLES (DEGREES) : 1.580 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 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: REMARK 3 RESIDUES A 114 AND B 114 WERE MISTAKENLY REFINED AS ASP; REMARK 3 BUT SHOULD BE GLU. GLU HAS BEEN SUBSTITUTED BUT NOT REMARK 3 REFINED. REMARK 4 REMARK 4 1PSD COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY BNL. REMARK 100 THE DEPOSITION ID IS D_1000175821. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : NULL REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : NULL REMARK 200 RADIATION SOURCE : NULL REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : NULL REMARK 200 WAVELENGTH OR RANGE (A) : NULL REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : NULL REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 26417 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.720 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 84.0 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) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL 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: NULL REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: X-PLOR REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 59.10 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.01 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NULL REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 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+1/2,Y+1/2,-Z REMARK 290 4555 X+1/2,-Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 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 68.05000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 73.15000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 68.05000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 73.15000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 300 REMARK: MTRIX REMARK 300 THE TRANSFORMATIONS PRESENTED ON MTRIX RECORDS BELOW REMARK 300 DESCRIBE NON-CRYSTALLOGRAPHIC RELATIONSHIPS AMONG THE REMARK 300 VARIOUS DOMAINS IN THIS ENTRY. APPLYING THE APPROPRIATE REMARK 300 MTRIX TRANSFORMATION TO THE RESIDUES LISTED FIRST WILL REMARK 300 YIELD APPROXIMATE COORDINATES FOR THE RESIDUES LISTED REMARK 300 SECOND. REMARK 300 REMARK 300 APPLIED TO TRANSFORMED TO REMARK 300 MTRIX RESIDUES RESIDUES RMSD REMARK 300 M1 A 108 .. 294 B 109 .. 294 0.383 REMARK 300 M2 A 7 .. 107 B 7 .. 107 0.680 REMARK 300 M2 A 295 .. 336 B 295 .. 336 0.692 REMARK 300 M2 A 337 .. 410 B 337 .. 410 0.622 REMARK 300 REMARK 300 SUBUNITS A AND B IN THIS ENTRY FORM A TETRAMER WITH REMARK 300 SUBUNITS A' AND B' WHICH CAN BE GENERATED BY APPLYING THE REMARK 300 FOLLOWING CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATION TO THE REMARK 300 COORDINATES IN THIS ENTRY: REMARK 300 REMARK 300 -1.0 0.0 0.0 136.1 REMARK 300 0.0 -1.0 0.0 0.0 REMARK 300 0.0 0.0 1.0 0.0 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: 18920 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 62380 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -83.0 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 350 BIOMT1 2 -1.000000 0.000000 0.000000 136.10000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 400 REMARK 400 COMPOUND REMARK 400 RESIDUES A 258, A 260, A 263 AND B 258, B 260, B 263 ARE REMARK 400 THE GLYCINES OF GXGXXG NUCLEOTIDE BINDING CONSENSUS. REMARK 400 REMARK 400 A 269, B 269 GLUTAMIC ACID PAIRED WITH 292 IN 'PROTON REMARK 400 SHUTTLE'. REMARK 400 REMARK 400 A 292, B 292 PRESUMED CATALYTIC HISTIDINE. 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 ALA A 2 REMARK 465 LYS A 3 REMARK 465 VAL A 4 REMARK 465 SER A 5 REMARK 465 LEU A 6 REMARK 465 ALA B 2 REMARK 465 LYS B 3 REMARK 465 VAL B 4 REMARK 465 SER B 5 REMARK 465 LEU B 6 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 A 110 OE2 GLU A 114 1.78 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 ASN A 34 88.65 -61.13 REMARK 500 ARG A 52 -71.31 -49.94 REMARK 500 ARG A 60 -162.11 -127.13 REMARK 500 GLU A 67 -39.45 -39.00 REMARK 500 ASN A 108 41.57 -147.88 REMARK 500 LYS A 141 21.96 -77.01 REMARK 500 LEU A 142 82.29 -64.11 REMARK 500 HIS A 210 49.36 -148.98 REMARK 500 ASN A 214 158.69 177.91 REMARK 500 PRO A 215 -14.07 -48.21 REMARK 500 SER A 239 -95.91 -110.10 REMARK 500 ILE A 293 -168.04 -106.96 REMARK 500 ASN A 318 45.91 -159.01 REMARK 500 ARG A 338 103.03 61.47 REMARK 500 PRO A 401 109.96 -53.78 REMARK 500 LYS B 8 106.50 55.20 REMARK 500 GLU B 17 36.52 75.57 REMARK 500 TYR B 32 97.78 -69.32 REMARK 500 ASP B 44 -44.84 -29.84 REMARK 500 ARG B 60 -93.99 -116.06 REMARK 500 SER B 61 -2.35 -147.60 REMARK 500 CYS B 83 175.66 173.53 REMARK 500 THR B 86 24.42 -140.06 REMARK 500 PRO B 105 -80.83 -58.32 REMARK 500 PHE B 106 44.51 -80.62 REMARK 500 ALA B 144 -60.93 -12.52 REMARK 500 SER B 239 -89.10 -105.04 REMARK 500 LYS B 256 17.61 57.95 REMARK 500 ASN B 286 35.07 -76.23 REMARK 500 PRO B 291 52.37 -69.75 REMARK 500 ILE B 293 -162.36 -110.02 REMARK 500 SER B 323 -4.86 74.45 REMARK 500 PRO B 333 108.33 -55.92 REMARK 500 HIS B 335 104.02 -177.62 REMARK 500 ARG B 338 94.02 77.06 REMARK 500 PRO B 348 151.75 -48.77 REMARK 500 SER B 373 -159.06 -104.51 REMARK 500 REMARK 500 REMARK: NULL REMARK 600 REMARK 600 HETEROGEN REMARK 600 REMARK 600 C 451, D 451 ALLOSTERIC LIGAND SERINE; NOT PART OF REMARK 600 POLYPEPTIDE. REMARK 700 REMARK 700 SHEET REMARK 700 BETA SHEET RA FROM SUBUNIT A ALIGNS WITH BETA SHEET RB REMARK 700 OF SUBUNIT B TO FORM AN 8 STRAND SHEET. REMARK 700 STRAND R-4 OF ONE SUBUNIT CONTACTS STRAND R-4 OF THE OTHER. REMARK 700 REGISTER: ASN 368 O - LEU 370 N, ASN 368 N - LEU 370 O. REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: SEA REMARK 800 EVIDENCE_CODE: AUTHOR REMARK 800 SITE_DESCRIPTION: ALLOSTERIC LIGAND (SERINE) SITES REMARK 800 REMARK 800 SITE_IDENTIFIER: SEB REMARK 800 EVIDENCE_CODE: AUTHOR REMARK 800 SITE_DESCRIPTION: ALLOSTERIC LIGAND (SERINE) SITES REMARK 800 REMARK 800 SITE_IDENTIFIER: NAA REMARK 800 EVIDENCE_CODE: AUTHOR REMARK 800 SITE_DESCRIPTION: NUCLEOTIDE COFACTOR (NAD) BINDING SITE REMARK 800 REMARK 800 SITE_IDENTIFIER: NAB REMARK 800 EVIDENCE_CODE: AUTHOR REMARK 800 SITE_DESCRIPTION: NUCLEOTIDE COFACTOR (NAD) BINDING SITE REMARK 800 REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NAD A 450 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SER A 451 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NAD B 450 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SER B 451 DBREF 1PSD A 2 410 UNP P0A9T0 SERA_ECOLI 1 409 DBREF 1PSD B 2 410 UNP P0A9T0 SERA_ECOLI 1 409 SEQRES 1 A 409 ALA LYS VAL SER LEU GLU LYS ASP LYS ILE LYS PHE LEU SEQRES 2 A 409 LEU VAL GLU GLY VAL HIS GLN LYS ALA LEU GLU SER LEU SEQRES 3 A 409 ARG ALA ALA GLY TYR THR ASN ILE GLU PHE HIS LYS GLY SEQRES 4 A 409 ALA LEU ASP ASP GLU GLN LEU LYS GLU SER ILE ARG ASP SEQRES 5 A 409 ALA HIS PHE ILE GLY LEU ARG SER ARG THR HIS LEU THR SEQRES 6 A 409 GLU ASP VAL ILE ASN ALA ALA GLU LYS LEU VAL ALA ILE SEQRES 7 A 409 GLY CYS PHE CYS ILE GLY THR ASN GLN VAL ASP LEU ASP SEQRES 8 A 409 ALA ALA ALA LYS ARG GLY ILE PRO VAL PHE ASN ALA PRO SEQRES 9 A 409 PHE SER ASN THR ARG SER VAL ALA GLU LEU VAL ILE GLY SEQRES 10 A 409 GLU LEU LEU LEU LEU LEU ARG GLY VAL PRO GLU ALA ASN SEQRES 11 A 409 ALA LYS ALA HIS ARG GLY VAL TRP ASN LYS LEU ALA ALA SEQRES 12 A 409 GLY SER PHE GLU ALA ARG GLY LYS LYS LEU GLY ILE ILE SEQRES 13 A 409 GLY TYR GLY HIS ILE GLY THR GLN LEU GLY ILE LEU ALA SEQRES 14 A 409 GLU SER LEU GLY MET TYR VAL TYR PHE TYR ASP ILE GLU SEQRES 15 A 409 ASN LYS LEU PRO LEU GLY ASN ALA THR GLN VAL GLN HIS SEQRES 16 A 409 LEU SER ASP LEU LEU ASN MET SER ASP VAL VAL SER LEU SEQRES 17 A 409 HIS VAL PRO GLU ASN PRO SER THR LYS ASN MET MET GLY SEQRES 18 A 409 ALA LYS GLU ILE SER LEU MET LYS PRO GLY SER LEU LEU SEQRES 19 A 409 ILE ASN ALA SER ARG GLY THR VAL VAL ASP ILE PRO ALA SEQRES 20 A 409 LEU CYS ASP ALA LEU ALA SER LYS HIS LEU ALA GLY ALA SEQRES 21 A 409 ALA ILE ASP VAL PHE PRO THR GLU PRO ALA THR ASN SER SEQRES 22 A 409 ASP PRO PHE THR SER PRO LEU CYS GLU PHE ASP ASN VAL SEQRES 23 A 409 LEU LEU THR PRO HIS ILE GLY GLY SER THR GLN GLU ALA SEQRES 24 A 409 GLN GLU ASN ILE GLY LEU GLU VAL ALA GLY LYS LEU ILE SEQRES 25 A 409 LYS TYR SER ASP ASN GLY SER THR LEU SER ALA VAL ASN SEQRES 26 A 409 PHE PRO GLU VAL SER LEU PRO LEU HIS GLY GLY ARG ARG SEQRES 27 A 409 LEU MET HIS ILE HIS GLU ASN ARG PRO GLY VAL LEU THR SEQRES 28 A 409 ALA LEU ASN LYS ILE PHE ALA GLU GLN GLY VAL ASN ILE SEQRES 29 A 409 ALA ALA GLN TYR LEU GLN THR SER ALA GLN MET GLY TYR SEQRES 30 A 409 VAL VAL ILE ASP ILE GLU ALA ASP GLU ASP VAL ALA GLU SEQRES 31 A 409 LYS ALA LEU GLN ALA MET LYS ALA ILE PRO GLY THR ILE SEQRES 32 A 409 ARG ALA ARG LEU LEU TYR SEQRES 1 B 409 ALA LYS VAL SER LEU GLU LYS ASP LYS ILE LYS PHE LEU SEQRES 2 B 409 LEU VAL GLU GLY VAL HIS GLN LYS ALA LEU GLU SER LEU SEQRES 3 B 409 ARG ALA ALA GLY TYR THR ASN ILE GLU PHE HIS LYS GLY SEQRES 4 B 409 ALA LEU ASP ASP GLU GLN LEU LYS GLU SER ILE ARG ASP SEQRES 5 B 409 ALA HIS PHE ILE GLY LEU ARG SER ARG THR HIS LEU THR SEQRES 6 B 409 GLU ASP VAL ILE ASN ALA ALA GLU LYS LEU VAL ALA ILE SEQRES 7 B 409 GLY CYS PHE CYS ILE GLY THR ASN GLN VAL ASP LEU ASP SEQRES 8 B 409 ALA ALA ALA LYS ARG GLY ILE PRO VAL PHE ASN ALA PRO SEQRES 9 B 409 PHE SER ASN THR ARG SER VAL ALA GLU LEU VAL ILE GLY SEQRES 10 B 409 GLU LEU LEU LEU LEU LEU ARG GLY VAL PRO GLU ALA ASN SEQRES 11 B 409 ALA LYS ALA HIS ARG GLY VAL TRP ASN LYS LEU ALA ALA SEQRES 12 B 409 GLY SER PHE GLU ALA ARG GLY LYS LYS LEU GLY ILE ILE SEQRES 13 B 409 GLY TYR GLY HIS ILE GLY THR GLN LEU GLY ILE LEU ALA SEQRES 14 B 409 GLU SER LEU GLY MET TYR VAL TYR PHE TYR ASP ILE GLU SEQRES 15 B 409 ASN LYS LEU PRO LEU GLY ASN ALA THR GLN VAL GLN HIS SEQRES 16 B 409 LEU SER ASP LEU LEU ASN MET SER ASP VAL VAL SER LEU SEQRES 17 B 409 HIS VAL PRO GLU ASN PRO SER THR LYS ASN MET MET GLY SEQRES 18 B 409 ALA LYS GLU ILE SER LEU MET LYS PRO GLY SER LEU LEU SEQRES 19 B 409 ILE ASN ALA SER ARG GLY THR VAL VAL ASP ILE PRO ALA SEQRES 20 B 409 LEU CYS ASP ALA LEU ALA SER LYS HIS LEU ALA GLY ALA SEQRES 21 B 409 ALA ILE ASP VAL PHE PRO THR GLU PRO ALA THR ASN SER SEQRES 22 B 409 ASP PRO PHE THR SER PRO LEU CYS GLU PHE ASP ASN VAL SEQRES 23 B 409 LEU LEU THR PRO HIS ILE GLY GLY SER THR GLN GLU ALA SEQRES 24 B 409 GLN GLU ASN ILE GLY LEU GLU VAL ALA GLY LYS LEU ILE SEQRES 25 B 409 LYS TYR SER ASP ASN GLY SER THR LEU SER ALA VAL ASN SEQRES 26 B 409 PHE PRO GLU VAL SER LEU PRO LEU HIS GLY GLY ARG ARG SEQRES 27 B 409 LEU MET HIS ILE HIS GLU ASN ARG PRO GLY VAL LEU THR SEQRES 28 B 409 ALA LEU ASN LYS ILE PHE ALA GLU GLN GLY VAL ASN ILE SEQRES 29 B 409 ALA ALA GLN TYR LEU GLN THR SER ALA GLN MET GLY TYR SEQRES 30 B 409 VAL VAL ILE ASP ILE GLU ALA ASP GLU ASP VAL ALA GLU SEQRES 31 B 409 LYS ALA LEU GLN ALA MET LYS ALA ILE PRO GLY THR ILE SEQRES 32 B 409 ARG ALA ARG LEU LEU TYR HET NAD A 450 44 HET SER A 451 7 HET NAD B 450 44 HET SER B 451 7 HETNAM NAD NICOTINAMIDE-ADENINE-DINUCLEOTIDE HETNAM SER SERINE FORMUL 3 NAD 2(C21 H27 N7 O14 P2) FORMUL 4 SER 2(C3 H7 N O3) FORMUL 7 HOH *76(H2 O) HELIX 1 S1A GLN A 21 ALA A 29 1SUBSTRATE BINDING DOMAIN 9 HELIX 2 S2A ASP A 44 ILE A 51 1SUBSTRATE BINDING DOMAIN 8 HELIX 3 S3A GLU A 67 ALA A 72 1SUBSTRATE BINDING DOMAIN 6 HELIX 4 S4A LEU A 91 ALA A 95 1SUBSTRATE BINDING DOMAIN 5 HELIX 5 N1A THR A 109 LEU A 124 1NUCLEOTIDE BINDING DOMAIN 16 HELIX 6 N2A VAL A 127 ALA A 134 1NUCLEOTIDE BINDING DOMAIN 8 HELIX 7 N3A HIS A 161 SER A 172 1NUCLEOTIDE BINDING DOMAIN 12 HELIX 8 N4A LEU A 197 MET A 203 1NUCLEOTIDE BINDING DOMAIN 7 HELIX 9 N5A ALA A 223 LEU A 228 1NUCLEOTIDE BINDING DOMAIN 6 HELIX 10 N6A ILE A 246 ALA A 254 1NUCLEOTIDE BINDING DOMAIN 9 HELIX 11 N7A PRO A 280 GLU A 283 1NUCLEOTIDE BINDING DOMAIN 4 HELIX 12 S5A GLN A 298 ASN A 318 1SUBSTRATE BINDING DOMAIN 21 HELIX 13 R1A LEU A 351 GLN A 361 1REGULATORY DOMAIN 11 HELIX 14 R2A GLU A 387 LYS A 398 1REGULATORY DOMAIN 12 HELIX 15 S1B GLN B 21 ALA B 29 1SUBSTRATE BINDING DOMAIN 9 HELIX 16 S2B ASP B 44 ILE B 51 1SUBSTRATE BINDING DOMAIN 8 HELIX 17 S3B GLU B 67 ALA B 72 1SUBSTRATE BINDING DOMAIN 6 HELIX 18 S4B LEU B 91 ALA B 95 1SUBSTRATE BINDING DOMAIN 5 HELIX 19 N1B THR B 109 LEU B 124 1NUCLEOTIDE BINDING DOMAIN 16 HELIX 20 N2B VAL B 127 ALA B 134 1NUCLEOTIDE BINDING DOMAIN 8 HELIX 21 N3B HIS B 161 SER B 172 1NUCLEOTIDE BINDING DOMAIN 12 HELIX 22 N4B LEU B 197 MET B 203 1NUCLEOTIDE BINDING DOMAIN 7 HELIX 23 N5B ALA B 223 LEU B 228 1NUCLEOTIDE BINDING DOMAIN 6 HELIX 24 N6B ILE B 246 ALA B 254 1NUCLEOTIDE BINDING DOMAIN 9 HELIX 25 N7B PRO B 280 GLU B 283 1NUCLEOTIDE BINDING DOMAIN 4 HELIX 26 S5B GLN B 298 ASN B 318 1SUBSTRATE BINDING DOMAIN 21 HELIX 27 R1B LEU B 351 GLN B 361 1REGULATORY DOMAIN 11 HELIX 28 R2B GLU B 387 LYS B 398 1REGULATORY DOMAIN 12 SHEET 1 S1A 5 ASN A 34 HIS A 38 0 SHEET 2 S1A 5 LYS A 12 VAL A 16 1 O PHE A 13 N GLU A 36 SHEET 3 S1A 5 HIS A 55 LEU A 59 1 N GLY A 58 O LEU A 14 SHEET 4 S1A 5 ALA A 78 PHE A 82 1 N GLY A 80 O ILE A 57 SHEET 5 S1A 5 PRO A 100 PHE A 102 1 O PRO A 100 N ILE A 79 SHEET 1 NA 7 THR A 192 VAL A 194 0 SHEET 2 NA 7 TYR A 176 TYR A 180 1 O VAL A 177 N THR A 192 SHEET 3 NA 7 LYS A 152 GLY A 158 1 O LEU A 154 N TYR A 178 SHEET 4 NA 7 ASP A 205 HIS A 210 1 O VAL A 206 N GLY A 155 SHEET 5 NA 7 SER A 233 ALA A 238 1 O LEU A 234 N VAL A 207 SHEET 6 NA 7 GLY A 260 VAL A 265 1 O GLY A 260 N LEU A 235 SHEET 7 NA 7 ASP A 285 THR A 290 1 O ASN A 286 N ALA A 261 SHEET 1 RA 4 ASN A 364 SER A 373 0 SHEET 2 RA 4 MET A 376 GLU A 384 -1 O VAL A 380 N TYR A 369 SHEET 3 RA 4 ARG A 338 GLU A 345 -1 O HIS A 342 N VAL A 379 SHEET 4 RA 4 THR A 403 LEU A 408 -1 O ARG A 407 N MET A 341 SHEET 1 S1B 5 ASN B 34 HIS B 38 0 SHEET 2 S1B 5 LYS B 12 VAL B 16 1 O PHE B 13 N GLU B 36 SHEET 3 S1B 5 HIS B 55 LEU B 59 1 N GLY B 58 O LEU B 14 SHEET 4 S1B 5 ALA B 78 PHE B 82 1 N GLY B 80 O ILE B 57 SHEET 5 S1B 5 PRO B 100 PHE B 102 1 O PRO B 100 N ILE B 79 SHEET 1 NB 7 THR B 192 VAL B 194 0 SHEET 2 NB 7 TYR B 176 TYR B 180 1 O VAL B 177 N THR B 192 SHEET 3 NB 7 LYS B 152 GLY B 158 1 O LEU B 154 N TYR B 178 SHEET 4 NB 7 ASP B 205 HIS B 210 1 O VAL B 206 N GLY B 155 SHEET 5 NB 7 SER B 233 ALA B 238 1 O LEU B 234 N VAL B 207 SHEET 6 NB 7 GLY B 260 VAL B 265 1 O GLY B 260 N LEU B 235 SHEET 7 NB 7 ASP B 285 THR B 290 1 O ASN B 286 N ALA B 261 SHEET 1 RB 4 ASN B 364 SER B 373 0 SHEET 2 RB 4 MET B 376 GLU B 384 -1 O VAL B 380 N TYR B 369 SHEET 3 RB 4 ARG B 338 GLU B 345 -1 O HIS B 342 N VAL B 379 SHEET 4 RB 4 THR B 403 LEU B 408 -1 O ARG B 407 N MET B 341 SITE 1 SEA 6 HIS A 344 ASN A 346 ARG A 347 LEU A 370 SITE 2 SEA 6 ASN B 364 ILE B 365 SITE 1 SEB 6 HIS B 344 ASN B 346 ARG B 347 LEU B 370 SITE 2 SEB 6 ASN A 364 ILE A 365 SITE 1 NAA 17 ASN A 108 TYR A 159 GLY A 160 HIS A 161 SITE 2 NAA 17 ILE A 162 ASP A 181 ILE A 182 LYS A 185 SITE 3 NAA 17 HIS A 210 VAL A 211 PRO A 212 ALA A 238 SITE 4 NAA 17 SER A 239 ARG A 240 ASP A 264 HIS A 292 SITE 5 NAA 17 ILE A 293 SITE 1 NAB 17 ILE A 293 ASN B 108 TYR B 159 GLY B 160 SITE 2 NAB 17 HIS B 161 ILE B 162 ASP B 181 ILE B 182 SITE 3 NAB 17 LYS B 185 HIS B 210 VAL B 211 PRO B 212 SITE 4 NAB 17 ALA B 238 SER B 239 ARG B 240 ASP B 264 SITE 5 NAB 17 ILE B 293 SITE 1 AC1 20 PHE A 106 ASN A 108 GLY A 160 HIS A 161 SITE 2 AC1 20 ILE A 162 ASP A 181 ILE A 182 LYS A 185 SITE 3 AC1 20 HIS A 210 VAL A 211 PRO A 212 THR A 217 SITE 4 AC1 20 ALA A 238 SER A 239 ARG A 240 ASP A 264 SITE 5 AC1 20 VAL A 265 HIS A 292 ILE A 293 HOH A 566 SITE 1 AC2 8 HIS A 344 GLU A 345 ASN A 346 ARG A 347 SITE 2 AC2 8 VAL A 350 HOH A 500 ASN B 364 ILE B 365 SITE 1 AC3 24 ASN B 108 VAL B 112 GLY B 158 TYR B 159 SITE 2 AC3 24 GLY B 160 HIS B 161 ILE B 162 TYR B 180 SITE 3 AC3 24 ASP B 181 ILE B 182 LYS B 185 HIS B 210 SITE 4 AC3 24 VAL B 211 PRO B 212 THR B 217 ALA B 238 SITE 5 AC3 24 SER B 239 ARG B 240 ASP B 264 HIS B 292 SITE 6 AC3 24 ILE B 293 GLY B 295 HOH B 544 HOH B 548 SITE 1 AC4 9 ASN A 364 ILE A 365 HOH A 502 HIS B 344 SITE 2 AC4 9 GLU B 345 ASN B 346 ARG B 347 LEU B 351 SITE 3 AC4 9 LEU B 370 CRYST1 136.100 146.300 53.300 90.00 90.00 90.00 P 21 21 2 8 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.007348 0.000000 0.000000 0.00000 SCALE2 0.000000 0.006835 0.000000 0.00000 SCALE3 0.000000 0.000000 0.018762 0.00000 MTRIX1 1 -0.713900 -0.696400 0.073570 115.37360 1 MTRIX2 1 -0.694900 0.691290 -0.196500 54.98566 1 MTRIX3 1 0.086120 -0.191300 -0.977400 67.00005 1 MTRIX1 2 -0.758300 -0.651890 0.000340 118.25562 1 MTRIX2 2 -0.651840 0.758200 -0.013160 47.10080 1 MTRIX3 2 0.008840 -0.009800 -0.999900 68.99728 1