HEADER OXIDOREDUCTASE 04-MAR-14 3WS7 TITLE THE 1.18 A RESOLUTION STRUCTURE OF L-SERINE 3-DEHYDROGENASE COMPLEXED TITLE 2 WITH NADP+ AND SULFATE ION FROM THE HYPERTHERMOPHILIC ARCHAEON TITLE 3 PYROBACULUM CALIDIFONTIS COMPND MOL_ID: 1; COMPND 2 MOLECULE: 6-PHOSPHOGLUCONATE DEHYDROGENASE, NAD-BINDING PROTEIN; COMPND 3 CHAIN: A; COMPND 4 EC: 1.1.1.276; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PYROBACULUM CALIDIFONTIS; SOURCE 3 ORGANISM_TAXID: 410359; SOURCE 4 STRAIN: JCM 11548 / VA1; SOURCE 5 GENE: PCAL_0699; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET15B KEYWDS L-SERINE 3-DEHYDROGENASE, HYPERTHERMOPHILIC ARCHAEON, PYROBACULUM KEYWDS 2 CALIDIFONTIS, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR K.YONEDA,H.SAKURABA,T.OHSHIMA REVDAT 3 08-NOV-23 3WS7 1 REMARK SEQADV REVDAT 2 15-MAY-19 3WS7 1 JRNL REVDAT 1 04-MAR-15 3WS7 0 JRNL AUTH K.YONEDA,H.SAKURABA,T.ARAKI,T.OHSHIMA JRNL TITL CRYSTAL STRUCTURE OF THE NADP+AND TARTRATE-BOUND COMPLEX OF JRNL TITL 2 L-SERINE 3-DEHYDROGENASE FROM THE HYPERTHERMOPHILIC ARCHAEON JRNL TITL 3 PYROBACULUM CALIDIFONTIS. JRNL REF EXTREMOPHILES V. 22 395 2018 JRNL REFN ESSN 1433-4909 JRNL PMID 29353380 JRNL DOI 10.1007/S00792-018-1004-0 REMARK 2 REMARK 2 RESOLUTION. 1.18 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.1 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.18 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.37 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL 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 : 110672 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) : 0.175 REMARK 3 FREE R VALUE : 0.186 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 : 2209 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 57 REMARK 3 SOLVENT ATOMS : 317 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 11.00 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) : NULL REMARK 3 BOND ANGLES (DEGREES) : NULL 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 3WS7 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 04-MAR-14. REMARK 100 THE DEPOSITION ID IS D_1000096725. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 06-DEC-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PHOTON FACTORY REMARK 200 BEAMLINE : BL-5A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 119221 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.180 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 (%) : NULL 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: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: 3W6U REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 56.11 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.80 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2.0 M AMMONIUM SULFATE 0.1M ACETATE REMARK 280 BUFFER, PH 4.5, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 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 60.12100 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 28.55200 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 60.12100 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 28.55200 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 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 REMARK 350 TOTAL BURIED SURFACE AREA: 4430 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 23510 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -37.0 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 15.96127 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 -53.60935 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 561 LIES ON A SPECIAL POSITION. REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 MET A -19 REMARK 465 GLY A -18 REMARK 465 SER A -17 REMARK 465 SER A -16 REMARK 465 HIS A -15 REMARK 465 HIS A -14 REMARK 465 HIS A -13 REMARK 465 ARG A 207 REMARK 465 GLY A 208 REMARK 465 ALA A 209 REMARK 465 LYS A 284 REMARK 465 SER A 285 REMARK 465 SER A 286 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 638 O HOH A 687 4555 2.01 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 GLU A 34 CG GLU A 34 CD 0.100 REMARK 500 LYS A 37 CB LYS A 37 CG -0.234 REMARK 500 VAL A 73 CB VAL A 73 CG2 -0.155 REMARK 500 GLU A 114 CD GLU A 114 OE1 0.076 REMARK 500 GLU A 141 CD GLU A 141 OE1 -0.084 REMARK 500 TYR A 165 CZ TYR A 165 CE2 -0.108 REMARK 500 GLU A 203 CD GLU A 203 OE2 0.067 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 LYS A 37 CB - CG - CD ANGL. DEV. = -15.6 DEGREES REMARK 500 ARG A 102 NE - CZ - NH1 ANGL. DEV. = 7.4 DEGREES REMARK 500 ARG A 102 NE - CZ - NH2 ANGL. DEV. = -5.5 DEGREES REMARK 500 ARG A 155 NE - CZ - NH1 ANGL. DEV. = 3.3 DEGREES REMARK 500 TYR A 218 CB - CG - CD2 ANGL. DEV. = -4.9 DEGREES REMARK 500 LYS A 238 CA - CB - CG ANGL. DEV. = 15.1 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 ASN A 96 -105.28 -151.26 REMARK 500 PRO A 162 176.44 -59.86 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 NAP A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACY A 303 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3W6U RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF NADP BOUND L-SERINE 3-DEHYDROGENASE FROM REMARK 900 HYPERTHERMOPHILIC ARCHAEON PYROBACULUM CALIDIFONTIS(WILD-TYPE, SE- REMARK 900 MET) REMARK 900 RELATED ID: 3W6Z RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF NADP BOUND L-SERINE 3-DEHYDROGENASE (K170M) REMARK 900 FROM HYPERTHERMOPHILIC ARCHAEON PYROBACULUM CALIDIFONTIS DBREF 3WS7 A 1 286 UNP A3MU08 A3MU08_PYRCJ 1 286 SEQADV 3WS7 MET A -19 UNP A3MU08 EXPRESSION TAG SEQADV 3WS7 GLY A -18 UNP A3MU08 EXPRESSION TAG SEQADV 3WS7 SER A -17 UNP A3MU08 EXPRESSION TAG SEQADV 3WS7 SER A -16 UNP A3MU08 EXPRESSION TAG SEQADV 3WS7 HIS A -15 UNP A3MU08 EXPRESSION TAG SEQADV 3WS7 HIS A -14 UNP A3MU08 EXPRESSION TAG SEQADV 3WS7 HIS A -13 UNP A3MU08 EXPRESSION TAG SEQADV 3WS7 HIS A -12 UNP A3MU08 EXPRESSION TAG SEQADV 3WS7 HIS A -11 UNP A3MU08 EXPRESSION TAG SEQADV 3WS7 HIS A -10 UNP A3MU08 EXPRESSION TAG SEQADV 3WS7 SER A -9 UNP A3MU08 EXPRESSION TAG SEQADV 3WS7 SER A -8 UNP A3MU08 EXPRESSION TAG SEQADV 3WS7 GLY A -7 UNP A3MU08 EXPRESSION TAG SEQADV 3WS7 LEU A -6 UNP A3MU08 EXPRESSION TAG SEQADV 3WS7 VAL A -5 UNP A3MU08 EXPRESSION TAG SEQADV 3WS7 PRO A -4 UNP A3MU08 EXPRESSION TAG SEQADV 3WS7 ARG A -3 UNP A3MU08 EXPRESSION TAG SEQADV 3WS7 GLY A -2 UNP A3MU08 EXPRESSION TAG SEQADV 3WS7 SER A -1 UNP A3MU08 EXPRESSION TAG SEQADV 3WS7 HIS A 0 UNP A3MU08 EXPRESSION TAG SEQRES 1 A 306 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 306 LEU VAL PRO ARG GLY SER HIS MET ARG VAL GLY PHE ILE SEQRES 3 A 306 GLY LEU GLY ILE MET GLY GLY PRO MET ALA THR HIS LEU SEQRES 4 A 306 LEU LYS ALA GLY PHE LEU ALA ALA VAL TYR ASN ARG THR SEQRES 5 A 306 ARG GLU LYS THR LYS PRO PHE ALA GLU ALA GLY VAL TYR SEQRES 6 A 306 VAL ALA GLU SER PRO ALA ASP LEU ALA LYS ARG VAL ASP SEQRES 7 A 306 VAL VAL ILE VAL MET VAL SER ASP ALA PRO ASP VAL GLU SEQRES 8 A 306 GLN VAL LEU PHE GLY PRO SER GLY VAL VAL GLU GLY ALA SEQRES 9 A 306 ARG PRO GLY LEU ILE VAL VAL ASP MET SER THR ASN SER SEQRES 10 A 306 PRO ASP TRP ALA ARG LYS PHE ALA GLU ARG LEU ALA GLN SEQRES 11 A 306 TYR GLY ILE GLU PHE LEU ASP ALA PRO VAL THR GLY GLY SEQRES 12 A 306 GLN LYS GLY ALA ILE GLU GLY THR LEU THR ILE MET VAL SEQRES 13 A 306 GLY GLY LYS GLU GLU LEU PHE HIS ARG LEU LEU PRO ILE SEQRES 14 A 306 PHE LYS ALA MET GLY ARG ASP ILE VAL TYR MET GLY PRO SEQRES 15 A 306 VAL GLY TYR GLY GLN ALA MET LYS LEU VAL ASN GLN VAL SEQRES 16 A 306 VAL VAL ALA LEU ASN THR VAL ALA MET VAL GLU GLY LEU SEQRES 17 A 306 LYS LEU ALA LYS ALA LEU GLY LEU ASP MET ASP LYS VAL SEQRES 18 A 306 ALA GLU VAL LEU THR ARG GLY ALA ALA ARG SER GLY ALA SEQRES 19 A 306 ILE GLU LEU TYR LEU PRO LYS LEU LEU LYS GLY ASP LEU SEQRES 20 A 306 SER PRO GLY PHE LYS ALA GLU HIS LEU LYS LYS ASP LEU SEQRES 21 A 306 GLY TYR VAL LEU GLU GLU ALA ARG LYS ARG GLY VAL LYS SEQRES 22 A 306 LEU PRO GLY ALA GLU LEU ALA TYR GLU LEU TYR ARG LYS SEQRES 23 A 306 MET VAL GLU ASP GLY ALA GLY SER LEU GLY ILE HIS ALA SEQRES 24 A 306 LEU GLY PHE TYR LYS SER SER HET NAP A 301 48 HET SO4 A 302 5 HET ACY A 303 4 HETNAM NAP NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE HETNAM SO4 SULFATE ION HETNAM ACY ACETIC ACID HETSYN NAP 2'-MONOPHOSPHOADENOSINE 5'-DIPHOSPHORIBOSE FORMUL 2 NAP C21 H28 N7 O17 P3 FORMUL 3 SO4 O4 S 2- FORMUL 4 ACY C2 H4 O2 FORMUL 5 HOH *317(H2 O) HELIX 1 1 PRO A -4 HIS A 0 5 5 HELIX 2 2 MET A 11 ALA A 22 1 12 HELIX 3 3 THR A 32 LYS A 35 5 4 HELIX 4 4 THR A 36 GLU A 41 1 6 HELIX 5 5 SER A 49 LYS A 55 1 7 HELIX 6 6 ASP A 66 GLY A 76 1 11 HELIX 7 7 GLY A 79 ALA A 84 1 6 HELIX 8 8 SER A 97 GLN A 110 1 14 HELIX 9 9 GLY A 122 GLY A 130 1 9 HELIX 10 10 LYS A 139 MET A 153 1 15 HELIX 11 11 GLY A 164 GLY A 195 1 32 HELIX 12 12 ASP A 197 THR A 206 1 10 HELIX 13 13 SER A 212 LYS A 224 1 13 HELIX 14 14 LYS A 232 GLY A 251 1 20 HELIX 15 15 LEU A 254 ASP A 270 1 17 HELIX 16 16 GLY A 276 LEU A 280 5 5 SHEET 1 A 6 TYR A 45 VAL A 46 0 SHEET 2 A 6 LEU A 25 TYR A 29 1 N VAL A 28 O TYR A 45 SHEET 3 A 6 VAL A 3 ILE A 6 1 N VAL A 3 O ALA A 26 SHEET 4 A 6 VAL A 59 VAL A 62 1 O ILE A 61 N ILE A 6 SHEET 5 A 6 ILE A 89 ASP A 92 1 O VAL A 91 N VAL A 60 SHEET 6 A 6 GLU A 114 ASP A 117 1 O GLU A 114 N VAL A 90 SHEET 1 B 3 VAL A 120 THR A 121 0 SHEET 2 B 3 LEU A 132 GLY A 137 -1 O THR A 133 N THR A 121 SHEET 3 B 3 GLY A 154 GLY A 161 1 O VAL A 158 N ILE A 134 CISPEP 1 PRO A 229 GLY A 230 0 -1.26 SITE 1 AC1 39 LEU A -6 GLY A 7 LEU A 8 GLY A 9 SITE 2 AC1 39 ILE A 10 MET A 11 ASN A 30 ARG A 31 SITE 3 AC1 39 THR A 32 LYS A 35 MET A 63 VAL A 64 SITE 4 AC1 39 SER A 65 ASP A 69 GLN A 72 VAL A 73 SITE 5 AC1 39 SER A 94 THR A 95 VAL A 120 GLY A 123 SITE 6 AC1 39 GLY A 230 PHE A 231 LYS A 232 HIS A 235 SITE 7 AC1 39 LYS A 238 SO4 A 302 HOH A 402 HOH A 404 SITE 8 AC1 39 HOH A 406 HOH A 411 HOH A 423 HOH A 427 SITE 9 AC1 39 HOH A 466 HOH A 474 HOH A 485 HOH A 494 SITE 10 AC1 39 HOH A 511 HOH A 599 HOH A 611 SITE 1 AC2 11 THR A 121 GLY A 122 GLY A 123 LYS A 170 SITE 2 AC2 11 ASN A 173 GLN A 174 VAL A 177 NAP A 301 SITE 3 AC2 11 HOH A 577 HOH A 611 HOH A 683 SITE 1 AC3 4 GLU A 186 LYS A 189 LYS A 253 PRO A 255 CRYST1 120.242 57.104 55.935 90.00 106.58 90.00 C 1 2 1 4 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 0.008317 0.000000 0.002476 0.00000 SCALE2 0.000000 0.017512 0.000000 0.00000 SCALE3 0.000000 0.000000 0.018653 0.00000