HEADER LYASE 12-MAY-04 1WD7 TITLE CRYSTAL STRUCTURE OF UROPORPHYRINOGEN III SYNTHASE FROM AN EXTREMELY TITLE 2 THERMOPHILIC BACTERIUM THERMUS THERMOPHILUS HB8 (WILD TYPE, NATIVE, TITLE 3 FORM-2 CRYSTAL) COMPND MOL_ID: 1; COMPND 2 MOLECULE: UROPORPHYRINOGEN III SYNTHASE; COMPND 3 CHAIN: A, B; COMPND 4 EC: 4.2.1.75; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: THERMUS THERMOPHILUS; SOURCE 3 ORGANISM_TAXID: 274; 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: PET KEYWDS UROPORPHYRINOGEN, PORPHYRIN, HEME, CONGENITAL ERYTHROPOIETIC KEYWDS 2 PORPHYRIA, STRUCTURAL GENOMICS, RIKEN STRUCTURAL GENOMICS/PROTEOMICS KEYWDS 3 INITIATIVE, RSGI, LYASE EXPDTA X-RAY DIFFRACTION AUTHOR E.MIZOHATA,T.MATSUURA,H.SAKAI,K.MURAYAMA,T.TERADA,M.SHIROUZU, AUTHOR 2 S.KURAMITSU,S.YOKOYAMA,RIKEN STRUCTURAL GENOMICS/PROTEOMICS AUTHOR 3 INITIATIVE (RSGI) REVDAT 4 25-OCT-23 1WD7 1 REMARK REVDAT 3 24-FEB-09 1WD7 1 VERSN REVDAT 2 17-MAY-05 1WD7 1 AUTHOR KEYWDS REMARK REVDAT 1 12-NOV-04 1WD7 0 JRNL AUTH E.MIZOHATA,T.MATSUURA,H.SAKAI,K.MURAYAMA,T.TERADA, JRNL AUTH 2 M.SHIROUZU,S.KURAMITSU,S.YOKOYAMA JRNL TITL CRYSTAL STRUCTURE OF UROPORPHYRINOGEN III SYNTHASE FROM AN JRNL TITL 2 EXTREMELY THERMOPHILIC BACTERIUM THERMUS THERMOPHILUS HB8 JRNL TITL 3 (WILD TYPE, NATIVE, FORM-2 CRYSTAL) JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.60 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) : 1.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 37.89 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 994489.340 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 86.7 REMARK 3 NUMBER OF REFLECTIONS : 53494 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 SET) : 0.224 REMARK 3 FREE R VALUE : 0.255 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2710 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.005 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 6 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.60 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.70 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 85.50 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 8261 REMARK 3 BIN R VALUE (WORKING SET) : 0.3190 REMARK 3 BIN FREE R VALUE : 0.3480 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 5.30 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 466 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.016 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3894 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 463 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 22.80 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 29.60 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.59000 REMARK 3 B22 (A**2) : -3.81000 REMARK 3 B33 (A**2) : 4.40000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -4.90000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.22 REMARK 3 ESD FROM SIGMAA (A) : 0.23 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) : 0.26 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.28 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.015 REMARK 3 BOND ANGLES (DEGREES) : 1.800 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 24.10 REMARK 3 IMPROPER ANGLES (DEGREES) : 1.380 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : RESTRAINED 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 : FLAT MODEL REMARK 3 KSOL : 0.36 REMARK 3 BSOL : 50.50 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 : PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : CARBOHYDRATE.PARAM REMARK 3 PARAMETER FILE 3 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 4 : ION.PARAM REMARK 3 PARAMETER FILE 5 : RUB.PARAM REMARK 3 PARAMETER FILE 6 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : CARBOHYDRATE.TOP REMARK 3 TOPOLOGY FILE 3 : WATER.TOP REMARK 3 TOPOLOGY FILE 4 : ION.TOP REMARK 3 TOPOLOGY FILE 5 : RUB.TOP REMARK 3 TOPOLOGY FILE 6 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1WD7 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 14-MAY-04. REMARK 100 THE DEPOSITION ID IS D_1000023451. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 07-MAR-03 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SPRING-8 REMARK 200 BEAMLINE : BL44XU REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.90000 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : BRUKER DIP-6040 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : NULL REMARK 200 RESOLUTION RANGE HIGH (A) : NULL REMARK 200 RESOLUTION RANGE LOW (A) : NULL 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 <I/SIGMA(I)> 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 <I/SIGMA(I)> 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: PDB ENTRY 1WCW REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 41.16 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.09 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NULL REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 42.43750 REMARK 290 SMTRY3 2 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 300 REMARK: THE BIOLOGICAL ASSEMBLY IS BELIEVED TO BE A MONOMER. 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 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 ARG A 2 REMARK 465 ARG A 3 REMARK 465 LEU A 4 REMARK 465 GLU A 5 REMARK 465 GLU A 6 REMARK 465 ASP A 7 REMARK 465 MET B 1 REMARK 465 ARG B 2 REMARK 465 ARG B 3 REMARK 465 LEU B 4 REMARK 465 GLU B 5 REMARK 465 GLU 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 NE2 GLN B 129 NH1 ARG B 153 1.57 REMARK 500 NZ LYS A 121 O HOH A 494 1.75 REMARK 500 NH2 ARG B 244 OG SER B 247 1.79 REMARK 500 O ALA B 261 O HOH B 398 1.96 REMARK 500 NH1 ARG B 244 OG SER B 247 2.01 REMARK 500 NH2 ARG A 174 O HOH A 267 2.01 REMARK 500 O HOH A 365 O HOH A 367 2.03 REMARK 500 NH1 ARG A 153 O HOH A 439 2.03 REMARK 500 O ARG B 254 N GLN B 257 2.04 REMARK 500 CD2 LEU A 173 O HOH A 476 2.04 REMARK 500 O HOH B 463 O HOH B 479 2.07 REMARK 500 O HOH B 343 O HOH B 477 2.07 REMARK 500 NH2 ARG B 164 O HOH B 336 2.07 REMARK 500 O HOH A 320 O HOH A 395 2.10 REMARK 500 CZ ARG B 244 OG SER B 247 2.11 REMARK 500 O HOH A 452 O HOH A 485 2.14 REMARK 500 CD2 LEU B 25 O HOH B 475 2.15 REMARK 500 O GLN A 129 O HOH A 454 2.15 REMARK 500 NE2 GLN B 129 CZ ARG B 153 2.17 REMARK 500 OE2 GLU A 177 O HOH A 374 2.18 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 OE1 GLU A 20 CZ ARG B 254 2645 1.72 REMARK 500 NZ LYS B 106 O HOH A 282 1455 1.82 REMARK 500 NZ LYS A 258 O HOH A 464 1655 1.91 REMARK 500 CE LYS A 28 O HOH A 457 1655 1.95 REMARK 500 NZ LYS A 28 O HOH A 457 1655 1.96 REMARK 500 OE1 GLU A 20 NH1 ARG B 254 2645 1.98 REMARK 500 NH2 ARG A 254 O HOH A 475 1655 1.99 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 PHE B 252 CB PHE B 252 CG -0.149 REMARK 500 GLN B 257 CA GLN B 257 C 0.167 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 ARG A 103 NE - CZ - NH2 ANGL. DEV. = -3.1 DEGREES REMARK 500 ARG A 153 NE - CZ - NH2 ANGL. DEV. = -4.3 DEGREES REMARK 500 ARG A 164 NE - CZ - NH1 ANGL. DEV. = -7.5 DEGREES REMARK 500 ARG A 164 NE - CZ - NH2 ANGL. DEV. = 6.3 DEGREES REMARK 500 LYS A 235 CD - CE - NZ ANGL. DEV. = 28.4 DEGREES REMARK 500 LEU B 16 CA - CB - CG ANGL. DEV. = 20.7 DEGREES REMARK 500 ARG B 17 N - CA - C ANGL. DEV. = 17.6 DEGREES REMARK 500 LYS B 43 N - CA - CB ANGL. DEV. = -13.0 DEGREES REMARK 500 THR B 214 N - CA - CB ANGL. DEV. = -22.3 DEGREES REMARK 500 LEU B 256 N - CA - C ANGL. DEV. = -17.5 DEGREES REMARK 500 GLN B 257 C - N - CA ANGL. DEV. = -21.3 DEGREES REMARK 500 GLN B 257 CB - CA - C ANGL. DEV. = 18.6 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 ARG A 17 -83.21 -41.82 REMARK 500 ARG A 18 64.78 -108.02 REMARK 500 THR A 214 -65.81 -138.24 REMARK 500 THR B 214 -78.09 -140.93 REMARK 500 GLU B 243 32.36 72.73 REMARK 500 GLU B 259 66.26 -107.18 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 A 103 0.12 SIDE CHAIN REMARK 500 ARG A 153 0.15 SIDE CHAIN REMARK 500 ARG A 164 0.26 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1WCW RELATED DB: PDB REMARK 900 WILD-TYPE, NATIVE, FORM-1 CRYSTAL REMARK 900 RELATED ID: 1WCX RELATED DB: PDB REMARK 900 L75M/I193M/L248M, SEMET DERIVATIVE, FORM-1 CRYSTAL REMARK 900 RELATED ID: TTK003001434.1 RELATED DB: TARGETDB DBREF 1WD7 A 10 261 UNP Q5SKH2 Q5SKH2_THET8 2 253 DBREF 1WD7 B 10 261 UNP Q5SKH2 Q5SKH2_THET8 2 253 SEQRES 1 A 261 MET ARG ARG LEU GLU GLU ASP ALA VAL ARG VAL ALA TYR SEQRES 2 A 261 ALA GLY LEU ARG ARG LYS GLU ALA PHE LYS ALA LEU ALA SEQRES 3 A 261 GLU LYS LEU GLY PHE THR PRO LEU LEU PHE PRO VAL GLN SEQRES 4 A 261 ALA THR GLU LYS VAL PRO VAL PRO GLU TYR ARG ASP GLN SEQRES 5 A 261 VAL ARG ALA LEU ALA GLN GLY VAL ASP LEU PHE LEU ALA SEQRES 6 A 261 THR THR GLY VAL GLY VAL ARG ASP LEU LEU GLU ALA GLY SEQRES 7 A 261 LYS ALA LEU GLY LEU ASP LEU GLU GLY PRO LEU ALA LYS SEQRES 8 A 261 ALA PHE ARG LEU ALA ARG GLY ALA LYS ALA ALA ARG ALA SEQRES 9 A 261 LEU LYS GLU ALA GLY LEU PRO PRO HIS ALA VAL GLY ASP SEQRES 10 A 261 GLY THR SER LYS SER LEU LEU PRO LEU LEU PRO GLN GLY SEQRES 11 A 261 ARG GLY VAL ALA ALA LEU GLN LEU TYR GLY LYS PRO LEU SEQRES 12 A 261 PRO LEU LEU GLU ASN ALA LEU ALA GLU ARG GLY TYR ARG SEQRES 13 A 261 VAL LEU PRO LEU MET PRO TYR ARG HIS LEU PRO ASP PRO SEQRES 14 A 261 GLU GLY ILE LEU ARG LEU GLU GLU ALA LEU LEU ARG GLY SEQRES 15 A 261 GLU VAL ASP ALA LEU ALA PHE VAL ALA ALA ILE GLN VAL SEQRES 16 A 261 GLU PHE LEU PHE GLU GLY ALA LYS ASP PRO LYS ALA LEU SEQRES 17 A 261 ARG GLU ALA LEU ASN THR ARG VAL LYS ALA LEU ALA VAL SEQRES 18 A 261 GLY ARG VAL THR ALA ASP ALA LEU ARG GLU TRP GLY VAL SEQRES 19 A 261 LYS PRO PHE TYR VAL ASP GLU THR GLU ARG LEU GLY SER SEQRES 20 A 261 LEU LEU GLN GLY PHE LYS ARG ALA LEU GLN LYS GLU VAL SEQRES 21 A 261 ALA SEQRES 1 B 261 MET ARG ARG LEU GLU GLU ASP ALA VAL ARG VAL ALA TYR SEQRES 2 B 261 ALA GLY LEU ARG ARG LYS GLU ALA PHE LYS ALA LEU ALA SEQRES 3 B 261 GLU LYS LEU GLY PHE THR PRO LEU LEU PHE PRO VAL GLN SEQRES 4 B 261 ALA THR GLU LYS VAL PRO VAL PRO GLU TYR ARG ASP GLN SEQRES 5 B 261 VAL ARG ALA LEU ALA GLN GLY VAL ASP LEU PHE LEU ALA SEQRES 6 B 261 THR THR GLY VAL GLY VAL ARG ASP LEU LEU GLU ALA GLY SEQRES 7 B 261 LYS ALA LEU GLY LEU ASP LEU GLU GLY PRO LEU ALA LYS SEQRES 8 B 261 ALA PHE ARG LEU ALA ARG GLY ALA LYS ALA ALA ARG ALA SEQRES 9 B 261 LEU LYS GLU ALA GLY LEU PRO PRO HIS ALA VAL GLY ASP SEQRES 10 B 261 GLY THR SER LYS SER LEU LEU PRO LEU LEU PRO GLN GLY SEQRES 11 B 261 ARG GLY VAL ALA ALA LEU GLN LEU TYR GLY LYS PRO LEU SEQRES 12 B 261 PRO LEU LEU GLU ASN ALA LEU ALA GLU ARG GLY TYR ARG SEQRES 13 B 261 VAL LEU PRO LEU MET PRO TYR ARG HIS LEU PRO ASP PRO SEQRES 14 B 261 GLU GLY ILE LEU ARG LEU GLU GLU ALA LEU LEU ARG GLY SEQRES 15 B 261 GLU VAL ASP ALA LEU ALA PHE VAL ALA ALA ILE GLN VAL SEQRES 16 B 261 GLU PHE LEU PHE GLU GLY ALA LYS ASP PRO LYS ALA LEU SEQRES 17 B 261 ARG GLU ALA LEU ASN THR ARG VAL LYS ALA LEU ALA VAL SEQRES 18 B 261 GLY ARG VAL THR ALA ASP ALA LEU ARG GLU TRP GLY VAL SEQRES 19 B 261 LYS PRO PHE TYR VAL ASP GLU THR GLU ARG LEU GLY SER SEQRES 20 B 261 LEU LEU GLN GLY PHE LYS ARG ALA LEU GLN LYS GLU VAL SEQRES 21 B 261 ALA FORMUL 3 HOH *463(H2 O) HELIX 1 1 ARG A 18 LEU A 29 1 12 HELIX 2 2 GLU A 48 GLN A 58 1 11 HELIX 3 3 THR A 67 LEU A 81 1 15 HELIX 4 4 LEU A 85 LYS A 91 1 7 HELIX 5 5 GLY A 98 ALA A 108 1 11 HELIX 6 6 THR A 119 LEU A 127 5 9 HELIX 7 7 LEU A 143 ARG A 153 1 11 HELIX 8 8 ASP A 168 ARG A 181 1 14 HELIX 9 9 ALA A 191 ALA A 202 1 12 HELIX 10 10 ASP A 204 THR A 214 1 11 HELIX 11 11 GLY A 222 TRP A 232 1 11 HELIX 12 12 ARG A 244 ALA A 261 1 18 HELIX 13 13 ARG B 18 LEU B 29 1 12 HELIX 14 14 GLU B 48 GLN B 58 1 11 HELIX 15 15 THR B 67 LEU B 81 1 15 HELIX 16 16 LEU B 85 LYS B 91 1 7 HELIX 17 17 GLY B 98 ALA B 108 1 11 HELIX 18 18 THR B 119 LEU B 127 5 9 HELIX 19 19 LEU B 143 ARG B 153 1 11 HELIX 20 20 ASP B 168 ARG B 181 1 14 HELIX 21 21 ALA B 191 ALA B 202 1 12 HELIX 22 22 ASP B 204 LEU B 212 1 9 HELIX 23 23 GLY B 222 TRP B 232 1 11 HELIX 24 24 ARG B 244 GLU B 259 1 16 SHEET 1 A 5 THR A 32 LEU A 35 0 SHEET 2 A 5 ARG A 10 TYR A 13 1 N VAL A 11 O LEU A 34 SHEET 3 A 5 ALA A 186 PHE A 189 1 O ALA A 188 N ALA A 12 SHEET 4 A 5 LYS A 217 VAL A 221 1 O LEU A 219 N LEU A 187 SHEET 5 A 5 TYR A 238 ASP A 240 1 O ASP A 240 N ALA A 220 SHEET 1 B 2 VAL A 44 PRO A 45 0 SHEET 2 B 2 TYR A 163 ARG A 164 -1 O ARG A 164 N VAL A 44 SHEET 1 C 5 ALA A 114 VAL A 115 0 SHEET 2 C 5 PHE A 93 ALA A 96 1 N ALA A 96 O ALA A 114 SHEET 3 C 5 LEU A 62 ALA A 65 1 N PHE A 63 O LEU A 95 SHEET 4 C 5 GLY A 132 GLN A 137 1 O GLN A 137 N LEU A 64 SHEET 5 C 5 TYR A 155 LEU A 160 1 O LEU A 158 N ALA A 134 SHEET 1 D 5 THR B 32 LEU B 35 0 SHEET 2 D 5 ARG B 10 TYR B 13 1 N VAL B 11 O LEU B 34 SHEET 3 D 5 ALA B 186 PHE B 189 1 O ALA B 188 N ALA B 12 SHEET 4 D 5 LYS B 217 VAL B 221 1 O LEU B 219 N LEU B 187 SHEET 5 D 5 TYR B 238 ASP B 240 1 O ASP B 240 N ALA B 220 SHEET 1 E 2 VAL B 44 PRO B 45 0 SHEET 2 E 2 TYR B 163 ARG B 164 -1 O ARG B 164 N VAL B 44 SHEET 1 F 5 ALA B 114 VAL B 115 0 SHEET 2 F 5 PHE B 93 ALA B 96 1 N ALA B 96 O ALA B 114 SHEET 3 F 5 LEU B 62 ALA B 65 1 N PHE B 63 O PHE B 93 SHEET 4 F 5 GLY B 132 GLN B 137 1 O ALA B 135 N LEU B 64 SHEET 5 F 5 TYR B 155 LEU B 160 1 O LEU B 160 N LEU B 136 CRYST1 37.900 84.875 73.948 90.00 91.25 90.00 P 1 21 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 0.026385 0.000000 0.000578 0.00000 SCALE2 0.000000 0.011782 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013526 0.00000