HEADER LYASE 29-SEP-04 1XKV TITLE CRYSTAL STRUCTURE OF ATP-DEPENDENT PHOSPHOENOLPYRUVATE CARBOXYKINASE TITLE 2 FROM THERMUS THERMOPHILUS HB8 COMPND MOL_ID: 1; COMPND 2 MOLECULE: ATP-DEPENDENT PHOSPHOENOLPYRUVATE CARBOXYKINASE; COMPND 3 CHAIN: A, B; COMPND 4 EC: 4.1.1.49; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: THERMUS THERMOPHILUS; SOURCE 3 ORGANISM_TAXID: 300852; SOURCE 4 STRAIN: HB8; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PET11A KEYWDS PHOSPHOENOLPYRUVATE CARBOXYKINASE, ADENOSINE TRIPHOSPHATE, THERMUS KEYWDS 2 THERMOPHILUS, RIKEN STRUCTURAL GENOMICS/PROTEOMICS INITIATIVE, RSGI, KEYWDS 3 STRUCTURAL GENOMICS, LYASE EXPDTA X-RAY DIFFRACTION AUTHOR M.SUGAHARA,N.KUNISHIMA,RIKEN STRUCTURAL GENOMICS/PROTEOMICS AUTHOR 2 INITIATIVE (RSGI) REVDAT 4 25-OCT-23 1XKV 1 REMARK LINK REVDAT 3 13-JUL-11 1XKV 1 VERSN REVDAT 2 24-FEB-09 1XKV 1 VERSN REVDAT 1 11-OCT-05 1XKV 0 SPRSDE 11-OCT-05 1XKV 1WG9 JRNL AUTH M.SUGAHARA,N.OHSHIMA,Y.UKITA,M.SUGAHARA,N.KUNISHIMA JRNL TITL STRUCTURE OF ATP-DEPENDENT PHOSPHOENOLPYRUVATE CARBOXYKINASE JRNL TITL 2 FROM THERMUS THERMOPHILUS HB8 SHOWING THE STRUCTURAL BASIS JRNL TITL 3 OF INDUCED FIT AND THERMOSTABILITY. JRNL REF ACTA CRYSTALLOGR.,SECT.D V. 61 1500 2005 JRNL REFN ISSN 0907-4449 JRNL PMID 16239727 JRNL DOI 10.1107/S090744490502651X REMARK 2 REMARK 2 RESOLUTION. 2.20 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) : 2.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 38.93 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) (%) : 99.5 REMARK 3 NUMBER OF REFLECTIONS : 75748 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) : 0.186 REMARK 3 FREE R VALUE : 0.219 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : 3688 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) : 2.20 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.28 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 94.70 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.2380 REMARK 3 BIN FREE R VALUE : 0.2720 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : 353 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.014 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 8225 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 75 REMARK 3 SOLVENT ATOMS : 738 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 33.50 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 33.80 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 6.32000 REMARK 3 B22 (A**2) : -4.91000 REMARK 3 B33 (A**2) : -1.42000 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 COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.23 REMARK 3 ESD FROM SIGMAA (A) : 0.21 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.27 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.25 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.007 REMARK 3 BOND ANGLES (DEGREES) : 1.500 REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : ANISOTROPIC 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 1XKV COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 01-OCT-04. REMARK 100 THE DEPOSITION ID IS D_1000030470. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 04-FEB-03 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.8 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SPRING-8 REMARK 200 BEAMLINE : BL26B1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.000 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS V REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 75829 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.200 REMARK 200 RESOLUTION RANGE LOW (A) : 40.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 6.800 REMARK 200 R MERGE (I) : 0.08300 REMARK 200 R SYM (I) : 0.07700 REMARK 200 FOR THE DATA SET : 9.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.20 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.28 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 6.70 REMARK 200 R MERGE FOR SHELL (I) : 0.54200 REMARK 200 R SYM FOR SHELL (I) : 0.49700 REMARK 200 FOR SHELL : 4.100 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: 1J3B REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 60.48 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.11 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: POTASSIUM PHOSPHATE, SODIUM PHOSPHATE, REMARK 280 ATP, PH 6.8, MICROBATCH, TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 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 32.53350 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 87.09750 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 65.27400 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 87.09750 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 32.53350 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 65.27400 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: THE BIOLOGICAL ASSEMBLY IS A DIMER. 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 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 ASN A 141 REMARK 465 ASP A 142 REMARK 465 ASP A 143 REMARK 465 GLU A 144 REMARK 465 VAL A 145 REMARK 465 GLU A 146 REMARK 465 ALA A 377 REMARK 465 GLY A 378 REMARK 465 THR A 379 REMARK 465 GLU A 380 REMARK 465 ARG A 381 REMARK 465 GLY A 382 REMARK 465 VAL A 383 REMARK 465 ALA B 377 REMARK 465 GLY B 378 REMARK 465 THR B 379 REMARK 465 GLU B 380 REMARK 465 ARG B 381 REMARK 465 GLY B 382 REMARK 465 VAL B 383 REMARK 465 THR B 384 REMARK 465 GLU B 385 REMARK 465 GLU B 529 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 B 12 CB - CG - CD ANGL. DEV. = 17.1 DEGREES REMARK 500 LYS B 12 CD - CE - NZ ANGL. DEV. = -16.8 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 13 -142.08 -112.20 REMARK 500 HIS A 39 2.21 80.91 REMARK 500 PHE A 133 -161.10 -102.13 REMARK 500 ASP A 253 -32.65 -149.07 REMARK 500 ASN A 289 53.98 -111.12 REMARK 500 GLU A 292 -29.02 99.70 REMARK 500 THR A 315 157.49 177.07 REMARK 500 ASN A 317 41.36 -89.88 REMARK 500 ALA A 418 52.46 38.65 REMARK 500 SER A 515 1.37 -67.23 REMARK 500 LYS B 13 -143.95 -121.87 REMARK 500 SER B 53 79.59 -119.83 REMARK 500 PHE B 133 -165.55 -102.78 REMARK 500 ASP B 142 -75.25 -41.68 REMARK 500 ASP B 253 -40.50 -142.51 REMARK 500 ASN B 289 51.97 -108.31 REMARK 500 GLU B 292 -24.97 93.76 REMARK 500 ASN B 317 45.38 -87.48 REMARK 500 CYS B 393 18.59 57.84 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 B 408 0.09 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A2001 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ARG A 130 O REMARK 620 2 ASN A 131 O 77.8 REMARK 620 3 PHE A 133 O 87.8 89.5 REMARK 620 4 GLY A 267 O 146.8 69.0 90.4 REMARK 620 5 HOH A3067 O 114.2 163.5 80.0 98.1 REMARK 620 6 HOH A3311 O 76.8 115.6 146.2 118.8 79.4 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B2002 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ARG B 130 O REMARK 620 2 ASN B 131 O 75.3 REMARK 620 3 PHE B 133 O 84.1 86.3 REMARK 620 4 GLY B 267 O 142.5 67.7 87.2 REMARK 620 5 HOH B4040 O 115.8 162.8 82.2 98.9 REMARK 620 6 HOH B4144 O 76.2 116.5 144.0 126.3 79.9 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 2001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA B 2002 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 A 3001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 A 3002 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 B 3003 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 B 3004 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 B 3005 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 B 3006 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ATP A 1001 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 4001 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 4002 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1J3B RELATED DB: PDB REMARK 900 SAME PROTEIN REMARK 900 RELATED ID: TTK003000460.2 RELATED DB: TARGETDB DBREF 1XKV A 1 529 UNP Q5SLL5 Q5SLL5_THET8 1 529 DBREF 1XKV B 1 529 UNP Q5SLL5 Q5SLL5_THET8 1 529 SEQRES 1 A 529 MET GLN ARG LEU GLU ALA LEU GLY ILE HIS PRO LYS LYS SEQRES 2 A 529 ARG VAL PHE TRP ASN THR VAL SER PRO VAL LEU VAL GLU SEQRES 3 A 529 HIS THR LEU LEU ARG GLY GLU GLY LEU LEU ALA HIS HIS SEQRES 4 A 529 GLY PRO LEU VAL VAL ASP THR THR PRO TYR THR GLY ARG SEQRES 5 A 529 SER PRO LYS ASP LYS PHE VAL VAL ARG GLU PRO GLU VAL SEQRES 6 A 529 GLU GLY GLU ILE TRP TRP GLY GLU VAL ASN GLN PRO PHE SEQRES 7 A 529 ALA PRO GLU ALA PHE GLU ALA LEU TYR GLN ARG VAL VAL SEQRES 8 A 529 GLN TYR LEU SER GLU ARG ASP LEU TYR VAL GLN ASP LEU SEQRES 9 A 529 TYR ALA GLY ALA ASP ARG ARG TYR ARG LEU ALA VAL ARG SEQRES 10 A 529 VAL VAL THR GLU SER PRO TRP HIS ALA LEU PHE ALA ARG SEQRES 11 A 529 ASN MET PHE ILE LEU PRO ARG ARG PHE GLY ASN ASP ASP SEQRES 12 A 529 GLU VAL GLU ALA PHE VAL PRO GLY PHE THR VAL VAL HIS SEQRES 13 A 529 ALA PRO TYR PHE GLN ALA VAL PRO GLU ARG ASP GLY THR SEQRES 14 A 529 ARG SER GLU VAL PHE VAL GLY ILE SER PHE GLN ARG ARG SEQRES 15 A 529 LEU VAL LEU ILE VAL GLY THR LYS TYR ALA GLY GLU ILE SEQRES 16 A 529 LYS LYS SER ILE PHE THR VAL MET ASN TYR LEU MET PRO SEQRES 17 A 529 LYS ARG GLY VAL PHE PRO MET HIS ALA SER ALA ASN VAL SEQRES 18 A 529 GLY LYS GLU GLY ASP VAL ALA VAL PHE PHE GLY LEU SER SEQRES 19 A 529 GLY THR GLY LYS THR THR LEU SER THR ASP PRO GLU ARG SEQRES 20 A 529 PRO LEU ILE GLY ASP ASP GLU HIS GLY TRP SER GLU ASP SEQRES 21 A 529 GLY VAL PHE ASN PHE GLU GLY GLY CYS TYR ALA LYS VAL SEQRES 22 A 529 ILE ARG LEU SER PRO GLU HIS GLU PRO LEU ILE TYR LYS SEQRES 23 A 529 ALA SER ASN GLN PHE GLU ALA ILE LEU GLU ASN VAL VAL SEQRES 24 A 529 VAL ASN PRO GLU SER ARG ARG VAL GLN TRP ASP ASP ASP SEQRES 25 A 529 SER LYS THR GLU ASN THR ARG SER SER TYR PRO ILE ALA SEQRES 26 A 529 HIS LEU GLU ASN VAL VAL GLU SER GLY VAL ALA GLY HIS SEQRES 27 A 529 PRO ARG ALA ILE PHE PHE LEU SER ALA ASP ALA TYR GLY SEQRES 28 A 529 VAL LEU PRO PRO ILE ALA ARG LEU SER PRO GLU GLU ALA SEQRES 29 A 529 MET TYR TYR PHE LEU SER GLY TYR THR ALA ARG VAL ALA SEQRES 30 A 529 GLY THR GLU ARG GLY VAL THR GLU PRO ARG ALA THR PHE SEQRES 31 A 529 SER ALA CYS PHE GLY ALA PRO PHE LEU PRO MET HIS PRO SEQRES 32 A 529 GLY VAL TYR ALA ARG MET LEU GLY GLU LYS ILE ARG LYS SEQRES 33 A 529 HIS ALA PRO ARG VAL TYR LEU VAL ASN THR GLY TRP THR SEQRES 34 A 529 GLY GLY PRO TYR GLY VAL GLY TYR ARG PHE PRO LEU PRO SEQRES 35 A 529 VAL THR ARG ALA LEU LEU LYS ALA ALA LEU SER GLY ALA SEQRES 36 A 529 LEU GLU ASN VAL PRO TYR ARG ARG ASP PRO VAL PHE GLY SEQRES 37 A 529 PHE GLU VAL PRO LEU GLU ALA PRO GLY VAL PRO GLN GLU SEQRES 38 A 529 LEU LEU ASN PRO ARG GLU THR TRP ALA ASP LYS GLU ALA SEQRES 39 A 529 TYR ASP GLN GLN ALA ARG LYS LEU ALA ARG LEU PHE GLN SEQRES 40 A 529 GLU ASN PHE GLN LYS TYR ALA SER GLY VAL ALA LYS GLU SEQRES 41 A 529 VAL ALA GLU ALA GLY PRO ARG THR GLU SEQRES 1 B 529 MET GLN ARG LEU GLU ALA LEU GLY ILE HIS PRO LYS LYS SEQRES 2 B 529 ARG VAL PHE TRP ASN THR VAL SER PRO VAL LEU VAL GLU SEQRES 3 B 529 HIS THR LEU LEU ARG GLY GLU GLY LEU LEU ALA HIS HIS SEQRES 4 B 529 GLY PRO LEU VAL VAL ASP THR THR PRO TYR THR GLY ARG SEQRES 5 B 529 SER PRO LYS ASP LYS PHE VAL VAL ARG GLU PRO GLU VAL SEQRES 6 B 529 GLU GLY GLU ILE TRP TRP GLY GLU VAL ASN GLN PRO PHE SEQRES 7 B 529 ALA PRO GLU ALA PHE GLU ALA LEU TYR GLN ARG VAL VAL SEQRES 8 B 529 GLN TYR LEU SER GLU ARG ASP LEU TYR VAL GLN ASP LEU SEQRES 9 B 529 TYR ALA GLY ALA ASP ARG ARG TYR ARG LEU ALA VAL ARG SEQRES 10 B 529 VAL VAL THR GLU SER PRO TRP HIS ALA LEU PHE ALA ARG SEQRES 11 B 529 ASN MET PHE ILE LEU PRO ARG ARG PHE GLY ASN ASP ASP SEQRES 12 B 529 GLU VAL GLU ALA PHE VAL PRO GLY PHE THR VAL VAL HIS SEQRES 13 B 529 ALA PRO TYR PHE GLN ALA VAL PRO GLU ARG ASP GLY THR SEQRES 14 B 529 ARG SER GLU VAL PHE VAL GLY ILE SER PHE GLN ARG ARG SEQRES 15 B 529 LEU VAL LEU ILE VAL GLY THR LYS TYR ALA GLY GLU ILE SEQRES 16 B 529 LYS LYS SER ILE PHE THR VAL MET ASN TYR LEU MET PRO SEQRES 17 B 529 LYS ARG GLY VAL PHE PRO MET HIS ALA SER ALA ASN VAL SEQRES 18 B 529 GLY LYS GLU GLY ASP VAL ALA VAL PHE PHE GLY LEU SER SEQRES 19 B 529 GLY THR GLY LYS THR THR LEU SER THR ASP PRO GLU ARG SEQRES 20 B 529 PRO LEU ILE GLY ASP ASP GLU HIS GLY TRP SER GLU ASP SEQRES 21 B 529 GLY VAL PHE ASN PHE GLU GLY GLY CYS TYR ALA LYS VAL SEQRES 22 B 529 ILE ARG LEU SER PRO GLU HIS GLU PRO LEU ILE TYR LYS SEQRES 23 B 529 ALA SER ASN GLN PHE GLU ALA ILE LEU GLU ASN VAL VAL SEQRES 24 B 529 VAL ASN PRO GLU SER ARG ARG VAL GLN TRP ASP ASP ASP SEQRES 25 B 529 SER LYS THR GLU ASN THR ARG SER SER TYR PRO ILE ALA SEQRES 26 B 529 HIS LEU GLU ASN VAL VAL GLU SER GLY VAL ALA GLY HIS SEQRES 27 B 529 PRO ARG ALA ILE PHE PHE LEU SER ALA ASP ALA TYR GLY SEQRES 28 B 529 VAL LEU PRO PRO ILE ALA ARG LEU SER PRO GLU GLU ALA SEQRES 29 B 529 MET TYR TYR PHE LEU SER GLY TYR THR ALA ARG VAL ALA SEQRES 30 B 529 GLY THR GLU ARG GLY VAL THR GLU PRO ARG ALA THR PHE SEQRES 31 B 529 SER ALA CYS PHE GLY ALA PRO PHE LEU PRO MET HIS PRO SEQRES 32 B 529 GLY VAL TYR ALA ARG MET LEU GLY GLU LYS ILE ARG LYS SEQRES 33 B 529 HIS ALA PRO ARG VAL TYR LEU VAL ASN THR GLY TRP THR SEQRES 34 B 529 GLY GLY PRO TYR GLY VAL GLY TYR ARG PHE PRO LEU PRO SEQRES 35 B 529 VAL THR ARG ALA LEU LEU LYS ALA ALA LEU SER GLY ALA SEQRES 36 B 529 LEU GLU ASN VAL PRO TYR ARG ARG ASP PRO VAL PHE GLY SEQRES 37 B 529 PHE GLU VAL PRO LEU GLU ALA PRO GLY VAL PRO GLN GLU SEQRES 38 B 529 LEU LEU ASN PRO ARG GLU THR TRP ALA ASP LYS GLU ALA SEQRES 39 B 529 TYR ASP GLN GLN ALA ARG LYS LEU ALA ARG LEU PHE GLN SEQRES 40 B 529 GLU ASN PHE GLN LYS TYR ALA SER GLY VAL ALA LYS GLU SEQRES 41 B 529 VAL ALA GLU ALA GLY PRO ARG THR GLU HET CA A2001 1 HET PO4 A3001 5 HET PO4 A3002 5 HET ATP A1001 31 HET CA B2002 1 HET PO4 B3003 5 HET PO4 B3004 5 HET PO4 B3005 5 HET PO4 B3006 5 HET GOL B4001 6 HET GOL B4002 6 HETNAM CA CALCIUM ION HETNAM PO4 PHOSPHATE ION HETNAM ATP ADENOSINE-5'-TRIPHOSPHATE HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 CA 2(CA 2+) FORMUL 4 PO4 6(O4 P 3-) FORMUL 6 ATP C10 H16 N5 O13 P3 FORMUL 12 GOL 2(C3 H8 O3) FORMUL 14 HOH *738(H2 O) HELIX 1 1 LEU A 4 GLY A 8 5 5 HELIX 2 2 VAL A 20 ARG A 31 1 12 HELIX 3 3 SER A 53 LYS A 55 5 3 HELIX 4 4 ALA A 79 GLU A 96 1 18 HELIX 5 5 SER A 122 PHE A 133 1 12 HELIX 6 6 LEU A 135 GLY A 140 5 6 HELIX 7 7 VAL A 163 GLY A 168 1 6 HELIX 8 8 ALA A 192 ARG A 210 1 19 HELIX 9 9 GLY A 237 SER A 242 1 6 HELIX 10 10 GLU A 281 ASN A 289 1 9 HELIX 11 11 ALA A 325 LEU A 327 5 3 HELIX 12 12 SER A 360 GLY A 371 1 12 HELIX 13 13 ALA A 392 LEU A 399 5 8 HELIX 14 14 HIS A 402 ALA A 418 1 17 HELIX 15 15 PRO A 440 SER A 453 1 14 HELIX 16 16 GLY A 454 VAL A 459 5 6 HELIX 17 17 PRO A 479 TRP A 489 5 11 HELIX 18 18 ASP A 491 SER A 515 1 25 HELIX 19 19 ALA A 518 ALA A 524 1 7 HELIX 20 20 LEU B 4 GLY B 8 5 5 HELIX 21 21 VAL B 20 ARG B 31 1 12 HELIX 22 22 SER B 53 LYS B 55 5 3 HELIX 23 23 ALA B 79 GLU B 96 1 18 HELIX 24 24 SER B 122 PHE B 133 1 12 HELIX 25 25 LEU B 135 PHE B 139 5 5 HELIX 26 26 VAL B 163 GLY B 168 1 6 HELIX 27 27 ALA B 192 ARG B 210 1 19 HELIX 28 28 GLY B 237 THR B 243 1 7 HELIX 29 29 GLU B 281 ASN B 289 1 9 HELIX 30 30 ALA B 325 LEU B 327 5 3 HELIX 31 31 SER B 360 GLY B 371 1 12 HELIX 32 32 ALA B 392 LEU B 399 5 8 HELIX 33 33 HIS B 402 ALA B 418 1 17 HELIX 34 34 PRO B 440 GLY B 454 1 15 HELIX 35 35 ALA B 455 ASN B 458 5 4 HELIX 36 36 PRO B 479 LEU B 483 5 5 HELIX 37 37 ASN B 484 TRP B 489 5 6 HELIX 38 38 ASP B 491 SER B 515 1 25 HELIX 39 39 ALA B 518 GLU B 523 1 6 SHEET 1 A 8 VAL A 15 TRP A 17 0 SHEET 2 A 8 LEU A 99 ALA A 106 1 O LEU A 99 N PHE A 16 SHEET 3 A 8 LEU A 114 THR A 120 -1 O VAL A 116 N LEU A 104 SHEET 4 A 8 PHE A 152 ALA A 157 1 O HIS A 156 N VAL A 119 SHEET 5 A 8 LEU A 183 VAL A 187 1 O ILE A 186 N ALA A 157 SHEET 6 A 8 PHE A 174 SER A 178 -1 N SER A 178 O LEU A 183 SHEET 7 A 8 LYS A 57 VAL A 60 1 N PHE A 58 O VAL A 175 SHEET 8 A 8 GLN A 76 PHE A 78 1 O GLN A 76 N VAL A 59 SHEET 1 B 5 LEU A 35 LEU A 36 0 SHEET 2 B 5 LEU A 42 VAL A 44 -1 O VAL A 43 N LEU A 35 SHEET 3 B 5 ILE A 294 GLU A 296 1 O LEU A 295 N LEU A 42 SHEET 4 B 5 ARG A 319 PRO A 323 -1 O SER A 321 N ILE A 294 SHEET 5 B 5 GLY A 268 LYS A 272 -1 N ALA A 271 O SER A 320 SHEET 1 C 4 PHE A 213 HIS A 216 0 SHEET 2 C 4 GLU A 254 TRP A 257 -1 O HIS A 255 N MET A 215 SHEET 3 C 4 VAL A 262 ASN A 264 -1 O PHE A 263 N GLY A 256 SHEET 4 C 4 VAL A 335 ALA A 336 -1 O ALA A 336 N VAL A 262 SHEET 1 D 6 LEU A 249 GLY A 251 0 SHEET 2 D 6 SER A 218 VAL A 221 -1 N ALA A 219 O ILE A 250 SHEET 3 D 6 VAL A 227 GLY A 232 -1 O PHE A 230 N SER A 218 SHEET 4 D 6 PRO A 339 SER A 346 1 O LEU A 345 N PHE A 231 SHEET 5 D 6 ARG A 420 ASN A 425 1 O VAL A 424 N PHE A 344 SHEET 6 D 6 ILE A 356 LEU A 359 -1 N LEU A 359 O VAL A 421 SHEET 1 E 2 VAL A 299 VAL A 300 0 SHEET 2 E 2 VAL A 307 GLN A 308 -1 O GLN A 308 N VAL A 299 SHEET 1 F 2 TYR A 372 ARG A 375 0 SHEET 2 F 2 ARG A 387 PHE A 390 -1 O ARG A 387 N ARG A 375 SHEET 1 G 2 TRP A 428 THR A 429 0 SHEET 2 G 2 TYR A 437 ARG A 438 -1 O TYR A 437 N THR A 429 SHEET 1 H 2 TYR A 461 ARG A 463 0 SHEET 2 H 2 GLU A 470 PRO A 472 -1 O VAL A 471 N ARG A 462 SHEET 1 I 8 VAL B 15 TRP B 17 0 SHEET 2 I 8 LEU B 99 ALA B 106 1 O LEU B 99 N PHE B 16 SHEET 3 I 8 LEU B 114 THR B 120 -1 O VAL B 116 N LEU B 104 SHEET 4 I 8 PHE B 152 ALA B 157 1 O HIS B 156 N VAL B 119 SHEET 5 I 8 LEU B 183 VAL B 187 1 O ILE B 186 N ALA B 157 SHEET 6 I 8 PHE B 174 SER B 178 -1 N GLY B 176 O LEU B 185 SHEET 7 I 8 LYS B 57 VAL B 60 1 N PHE B 58 O VAL B 175 SHEET 8 I 8 GLN B 76 PHE B 78 1 O GLN B 76 N VAL B 59 SHEET 1 J 5 LEU B 35 LEU B 36 0 SHEET 2 J 5 LEU B 42 VAL B 44 -1 O VAL B 43 N LEU B 35 SHEET 3 J 5 ILE B 294 GLU B 296 1 O LEU B 295 N LEU B 42 SHEET 4 J 5 ARG B 319 PRO B 323 -1 O ARG B 319 N GLU B 296 SHEET 5 J 5 GLY B 268 LYS B 272 -1 N CYS B 269 O TYR B 322 SHEET 1 K 4 PHE B 213 HIS B 216 0 SHEET 2 K 4 GLU B 254 TRP B 257 -1 O HIS B 255 N MET B 215 SHEET 3 K 4 VAL B 262 ASN B 264 -1 O PHE B 263 N GLY B 256 SHEET 4 K 4 VAL B 335 ALA B 336 -1 O ALA B 336 N VAL B 262 SHEET 1 L 6 LEU B 249 GLY B 251 0 SHEET 2 L 6 SER B 218 VAL B 221 -1 N ALA B 219 O ILE B 250 SHEET 3 L 6 VAL B 227 PHE B 231 -1 O PHE B 230 N SER B 218 SHEET 4 L 6 PRO B 339 SER B 346 1 O PHE B 343 N VAL B 229 SHEET 5 L 6 ARG B 420 ASN B 425 1 O TYR B 422 N PHE B 344 SHEET 6 L 6 ILE B 356 ARG B 358 -1 N ALA B 357 O LEU B 423 SHEET 1 M 2 VAL B 299 VAL B 300 0 SHEET 2 M 2 VAL B 307 GLN B 308 -1 O GLN B 308 N VAL B 299 SHEET 1 N 2 TYR B 372 ARG B 375 0 SHEET 2 N 2 ARG B 387 PHE B 390 -1 O ARG B 387 N ARG B 375 SHEET 1 O 2 TRP B 428 THR B 429 0 SHEET 2 O 2 TYR B 437 ARG B 438 -1 O TYR B 437 N THR B 429 SHEET 1 P 2 TYR B 461 ARG B 463 0 SHEET 2 P 2 GLU B 470 PRO B 472 -1 O VAL B 471 N ARG B 462 LINK O ARG A 130 CA CA A2001 1555 1555 2.77 LINK O ASN A 131 CA CA A2001 1555 1555 2.70 LINK O PHE A 133 CA CA A2001 1555 1555 2.56 LINK O GLY A 267 CA CA A2001 1555 1555 3.08 LINK CA CA A2001 O HOH A3067 1555 1555 3.06 LINK CA CA A2001 O HOH A3311 1555 1555 2.99 LINK O ARG B 130 CA CA B2002 1555 1555 2.84 LINK O ASN B 131 CA CA B2002 1555 1555 2.86 LINK O PHE B 133 CA CA B2002 1555 1555 2.56 LINK O GLY B 267 CA CA B2002 1555 1555 2.97 LINK CA CA B2002 O HOH B4040 1555 1555 2.99 LINK CA CA B2002 O HOH B4144 1555 1555 2.87 CISPEP 1 THR A 47 PRO A 48 0 0.38 CISPEP 2 THR B 47 PRO B 48 0 0.36 SITE 1 AC1 6 ARG A 130 ASN A 131 PHE A 133 GLY A 267 SITE 2 AC1 6 HOH A3067 HOH A3311 SITE 1 AC2 6 ARG B 130 ASN B 131 PHE B 133 GLY B 267 SITE 2 AC2 6 HOH B4040 HOH B4144 SITE 1 AC3 9 VAL A 20 SER A 21 ARG A 130 ARG A 137 SITE 2 AC3 9 HOH A3008 HOH A3015 HOH A3046 HOH A3220 SITE 3 AC3 9 HIS B 38 SITE 1 AC4 5 GLU A 259 LYS A 413 LYS A 416 HIS A 417 SITE 2 AC4 5 HOH A3108 SITE 1 AC5 8 HIS A 38 HOH A3037 HOH A3047 HOH A3221 SITE 2 AC5 8 SER B 21 PRO B 22 ARG B 130 ARG B 137 SITE 1 AC6 4 LYS B 413 LYS B 416 HIS B 417 HOH B4353 SITE 1 AC7 12 LEU B 233 SER B 234 GLY B 235 THR B 236 SITE 2 AC7 12 GLY B 237 LYS B 238 THR B 239 HOH B4163 SITE 3 AC7 12 HOH B4193 HOH B4227 HOH B4236 HOH B4347 SITE 1 AC8 3 GLU B 5 HIS B 10 LYS B 12 SITE 1 AC9 14 LEU A 233 SER A 234 GLY A 235 THR A 236 SITE 2 AC9 14 GLY A 237 LYS A 238 THR A 239 THR A 240 SITE 3 AC9 14 LYS A 272 THR A 426 ARG A 438 PHE A 439 SITE 4 AC9 14 THR A 444 HOH A3339 SITE 1 BC1 6 PHE B 160 GLN B 161 ARG B 166 HOH B4130 SITE 2 BC1 6 HOH B4166 HOH B4258 SITE 1 BC2 9 GLU A 66 GLY A 67 TRP A 71 HOH A3044 SITE 2 BC2 9 THR B 50 GLY B 51 THR B 315 HOH B4058 SITE 3 BC2 9 HOH B4064 CRYST1 65.067 130.548 174.195 90.00 90.00 90.00 P 21 21 21 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 0.015369 0.000000 0.000000 0.00000 SCALE2 0.000000 0.007660 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005741 0.00000