10 20 30 40 50 60 70 80 1J93 - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER LYASE 23-MAY-01 1J93
TITLE CRYSTAL STRUCTURE AND SUBSTRATE BINDING MODELING OF THE TITLE 2 UROPORPHYRINOGEN-III DECARBOXYLASE FROM NICOTIANA TABACUM: TITLE 3 IMPLICATIONS FOR THE CATALYTIC MECHANISM
COMPND MOL_ID: 1; COMPND 2 MOLECULE: UROPORPHYRINOGEN DECARBOXYLASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: UROD; COMPND 5 EC: 4.1.1.37; COMPND 6 ENGINEERED: YES
SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: NICOTIANA TABACUM; SOURCE 3 ORGANISM_COMMON: COMMON TOBACCO; SOURCE 4 ORGANISM_TAXID: 4097; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562
KEYWDS BETA BARREL, PLASTIDIAL ENZYME, CRYSTALLOGRAPHIC DIMER, KEYWDS 2 LYASE
EXPDTA X-RAY DIFFRACTION
AUTHOR B.M.MARTINS,B.GRIMM,H.-P.MOCK,R.HUBER,A.MESSERSCHMIDT
REVDAT 3 24-FEB-09 1J93 1 VERSN REVDAT 2 01-APR-03 1J93 1 JRNL REVDAT 1 17-OCT-01 1J93 0
JRNL AUTH B.M.MARTINS,B.GRIMM,H.-P.MOCK,R.HUBER, JRNL AUTH 2 A.MESSERSCHMIDT JRNL TITL CRYSTAL STRUCTURE AND SUBSTRATE BINDING MODELING JRNL TITL 2 OF THE UROPORPHYRINOGEN-III DECARBOXYLASE FROM JRNL TITL 3 NICOTIANA TABACUM. IMPLICATIONS FOR THE CATALYTIC JRNL TITL 4 MECHANISM JRNL REF J.BIOL.CHEM. V. 276 44108 2001 JRNL REFN ISSN 0021-9258 JRNL PMID 11524417 JRNL DOI 10.1074/JBC.M104759200
REMARK 1
REMARK 2 REMARK 2 RESOLUTION. 2.30 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) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 18.00 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) (%) : 97.7 REMARK 3 NUMBER OF REFLECTIONS : 21792 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) : 0.209 REMARK 3 FREE R VALUE : 0.256 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 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 : 2697 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 25 REMARK 3 SOLVENT ATOMS : 231 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) : 0.007 REMARK 3 BOND ANGLES (DEGREES) : 1.23 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 : PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : SO4.PAR REMARK 3 PARAMETER FILE 3 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : NULL REMARK 3 TOPOLOGY FILE 3 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: BULK SOLVENT CORRECTION OPTION IN CNS
REMARK 4 REMARK 4 1J93 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 25-MAY-01. REMARK 100 THE RCSB ID CODE IS RCSB013513.
REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 02-MAR-99 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 9.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : MPG/DESY, HAMBURG REMARK 200 BEAMLINE : BW6 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.05 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 22173 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 REMARK 200 RESOLUTION RANGE LOW (A) : 18.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.7 REMARK 200 DATA REDUNDANCY : 2.140 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.06000 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 26.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 18.00 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.3 REMARK 200 DATA REDUNDANCY IN SHELL : 3.95 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.34600 REMARK 200 <I/SIGMA(I)> FOR SHELL : 4.300 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: PDB ENTRY 1URO REMARK 200 REMARK 200 REMARK: NULL
REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 61.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.14 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: AMMONIUM SULFATE, PH 9.6, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 295K
REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 6 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 -X,-Y,Z REMARK 290 5555 Y,-X+Y,Z REMARK 290 6555 X-Y,X,Z REMARK 290 7555 Y,X,-Z REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z REMARK 290 10555 -Y,-X,-Z REMARK 290 11555 -X+Y,Y,-Z REMARK 290 12555 X,X-Y,-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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 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 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 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 0.00000 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 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 S SO4 A 585 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 519 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 THR A 0 REMARK 465 VAL A 1 REMARK 465 ALA A 2 REMARK 465 GLU A 3 REMARK 465 PRO A 4 REMARK 465 LYS A 5 REMARK 465 ALA A 6 REMARK 465 ILE A 7 REMARK 465 ASN A 8 REMARK 465 ALA A 9
REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 LYS A 167 CD CE NZ REMARK 480 GLU A 337 CG CD OE1 OE2 REMARK 480 PHE A 340 CE1 CE2 CZ
REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O HOH A 357 O HOH A 537 1.72 REMARK 500 O GLU A 56 CD2 TYR A 128 1.89 REMARK 500 O GLU A 56 CE2 TYR A 128 1.92 REMARK 500 O HOH A 375 O HOH A 555 1.96 REMARK 500 O HOH A 521 O HOH A 568 2.01 REMARK 500 O HOH A 371 O HOH A 451 2.04 REMARK 500 O HOH A 484 O HOH A 507 2.12 REMARK 500 O PRO A 49 CB ASP A 53 2.13 REMARK 500 O HOH A 411 O HOH A 563 2.13 REMARK 500 CE2 TYR A 37 O HOH A 455 2.13 REMARK 500 ND2 ASN A 57 N LEU A 60 2.17 REMARK 500 CE LYS A 233 O1 SO4 A 585 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 O1 SO4 A 585 O4 SO4 A 585 10665 0.23 REMARK 500 O2 SO4 A 585 O3 SO4 A 585 10665 0.39 REMARK 500 S SO4 A 585 O1 SO4 A 585 10665 1.45 REMARK 500 S SO4 A 585 O3 SO4 A 585 10665 1.50 REMARK 500 S SO4 A 585 O4 SO4 A 585 10665 1.54 REMARK 500 S SO4 A 585 O2 SO4 A 585 10665 1.57 REMARK 500 NZ LYS A 233 O4 SO4 A 585 10665 1.96 REMARK 500 CE LYS A 233 O4 SO4 A 585 10665 2.01 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 TYR A 48 CA - CB - CG ANGL. DEV. = -11.7 DEGREES REMARK 500 LYS A 47 O - C - N ANGL. DEV. = 15.0 DEGREES REMARK 500 TYR A 48 C - N - CA ANGL. DEV. = 18.0 DEGREES REMARK 500 TYR A 48 CA - C - N ANGL. DEV. = 23.4 DEGREES REMARK 500 TYR A 48 O - C - N ANGL. DEV. = -23.1 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 GLN A 33 64.36 -59.14 REMARK 500 TYR A 37 -37.44 -131.16 REMARK 500 TYR A 48 -66.25 1.89 REMARK 500 SER A 55 76.71 64.69 REMARK 500 GLU A 56 -69.82 -164.83 REMARK 500 ASN A 91 28.93 80.38 REMARK 500 LYS A 98 108.02 -58.08 REMARK 500 ARG A 109 -22.19 -153.95 REMARK 500 VAL A 126 58.45 -141.97 REMARK 500 ASP A 213 34.89 -147.89 REMARK 500 SER A 228 -65.42 -134.97 REMARK 500 LEU A 300 0.37 -67.47 REMARK 500 ASN A 326 -174.90 -172.79 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 ARG A 32 23.15 REMARK 500 ARG A 36 10.93 REMARK 500 REMARK 500 REMARK: NULL
REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 367 DISTANCE = 5.35 ANGSTROMS REMARK 525 HOH A 389 DISTANCE = 5.16 ANGSTROMS REMARK 525 HOH A 468 DISTANCE = 5.73 ANGSTROMS REMARK 525 HOH A 480 DISTANCE = 5.24 ANGSTROMS REMARK 525 HOH A 519 DISTANCE = 9.17 ANGSTROMS REMARK 525 HOH A 535 DISTANCE = 5.16 ANGSTROMS
REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 584 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 585 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 586 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 587 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 588
DBREF 1J93 A 0 352 UNP Q42967 DCUP_TOBAC 39 391
SEQRES 1 A 353 THR VAL ALA GLU PRO LYS ALA ILE ASN ALA THR GLN PRO SEQRES 2 A 353 LEU LEU LEU ASP ALA VAL ARG GLY LYS GLU VAL GLU ARG SEQRES 3 A 353 PRO PRO VAL TRP LEU MET ARG GLN ALA GLY ARG TYR MET SEQRES 4 A 353 LYS SER TYR GLN LEU LEU CYS GLU LYS TYR PRO LEU PHE SEQRES 5 A 353 ARG ASP ARG SER GLU ASN VAL ASP LEU VAL VAL GLU ILE SEQRES 6 A 353 SER LEU GLN PRO TRP LYS VAL PHE ARG PRO ASP GLY VAL SEQRES 7 A 353 ILE LEU PHE SER ASP ILE LEU THR PRO LEU SER GLY MET SEQRES 8 A 353 ASN ILE PRO PHE ASP ILE ILE LYS GLY LYS GLY PRO VAL SEQRES 9 A 353 ILE PHE ASP PRO LEU ARG THR ALA ALA ASP VAL GLU LYS SEQRES 10 A 353 VAL ARG GLU PHE ILE PRO GLU LYS SER VAL PRO TYR VAL SEQRES 11 A 353 GLY GLU ALA LEU THR ILE LEU ARG LYS GLU VAL ASN ASN SEQRES 12 A 353 GLN ALA ALA VAL LEU GLY PHE VAL GLY ALA PRO PHE THR SEQRES 13 A 353 LEU ALA SER TYR VAL VAL GLU GLY GLY SER SER LYS ASN SEQRES 14 A 353 PHE THR LYS ILE LYS ARG LEU ALA PHE ALA GLU PRO LYS SEQRES 15 A 353 VAL LEU HIS ALA LEU LEU GLN LYS PHE ALA THR SER MET SEQRES 16 A 353 ALA LYS TYR ILE ARG TYR GLN ALA ASP SER GLY ALA GLN SEQRES 17 A 353 ALA VAL GLN ILE PHE ASP SER TRP ALA THR GLU LEU SER SEQRES 18 A 353 PRO VAL ASP PHE GLU GLU PHE SER LEU PRO TYR LEU LYS SEQRES 19 A 353 GLN ILE VAL ASP SER VAL LYS LEU THR HIS PRO ASN LEU SEQRES 20 A 353 PRO LEU ILE LEU TYR ALA SER GLY SER GLY GLY LEU LEU SEQRES 21 A 353 GLU ARG LEU PRO LEU THR GLY VAL ASP VAL VAL SER LEU SEQRES 22 A 353 ASP TRP THR VAL ASP MET ALA ASP GLY ARG ARG ARG LEU SEQRES 23 A 353 GLY PRO ASN VAL ALA ILE GLN GLY ASN VAL ASP PRO GLY SEQRES 24 A 353 VAL LEU PHE GLY SER LYS GLU PHE ILE THR ASN ARG ILE SEQRES 25 A 353 ASN ASP THR VAL LYS LYS ALA GLY LYS GLY LYS HIS ILE SEQRES 26 A 353 LEU ASN LEU GLY HIS GLY ILE LYS VAL GLY THR PRO GLU SEQRES 27 A 353 GLU ASN PHE ALA HIS PHE PHE GLU ILE ALA LYS GLY LEU SEQRES 28 A 353 ARG TYR
HET SO4 A 584 5 HET SO4 A 585 5 HET SO4 A 586 5 HET SO4 A 587 5 HET SO4 A 588 5
HETNAM SO4 SULFATE ION
FORMUL 2 SO4 5(O4 S 2-) FORMUL 7 HOH *231(H2 O)
HELIX 1 1 PRO A 12 GLY A 20 1 9 HELIX 2 2 LYS A 39 LYS A 47 1 9 HELIX 3 3 ASN A 57 ARG A 73 1 17 HELIX 4 4 LEU A 84 ASN A 91 5 8 HELIX 5 5 THR A 110 VAL A 117 1 8 HELIX 6 6 ILE A 121 VAL A 126 1 6 HELIX 7 7 VAL A 126 ASN A 141 1 16 HELIX 8 8 ALA A 152 GLY A 163 1 12 HELIX 9 9 PHE A 169 GLU A 179 1 11 HELIX 10 10 GLU A 179 SER A 204 1 26 HELIX 11 11 SER A 214 LEU A 219 5 6 HELIX 12 12 SER A 220 SER A 228 1 9 HELIX 13 13 SER A 228 HIS A 243 1 16 HELIX 14 14 LEU A 258 GLY A 266 5 9 HELIX 15 15 ASP A 277 LEU A 285 1 9 HELIX 16 16 ASP A 296 GLY A 302 5 7 HELIX 17 17 SER A 303 GLY A 319 1 17 HELIX 18 18 PRO A 336 GLY A 349 1 14
SHEET 1 A 7 GLY A 76 ILE A 78 0 SHEET 2 A 7 ALA A 145 GLY A 151 1 O ALA A 145 N VAL A 77 SHEET 3 A 7 ALA A 208 PHE A 212 1 O ALA A 208 N GLY A 148 SHEET 4 A 7 LEU A 248 TYR A 251 1 O ILE A 249 N ILE A 211 SHEET 5 A 7 VAL A 269 SER A 271 1 O VAL A 269 N LEU A 250 SHEET 6 A 7 ALA A 290 GLN A 292 1 O ALA A 290 N VAL A 270 SHEET 7 A 7 HIS A 323 ILE A 324 1 N ILE A 324 O ILE A 291 SHEET 1 B 2 PHE A 94 ILE A 97 0 SHEET 2 B 2 GLY A 101 ILE A 104 -1 N GLY A 101 O ILE A 97
LINK NZ LYS A 233 O1 SO4 A 585 1555 1555 2.05 LINK NZ LYS A 233 O4 SO4 A 585 10665 1555 1.96 LINK CE LYS A 233 O4 SO4 A 585 10665 1555 2.01
SITE 1 AC1 6 PHE A 212 SER A 214 TRP A 215 TYR A 251 SITE 2 AC1 6 SER A 253 HIS A 329 SITE 1 AC2 2 LYS A 233 HOH A 581 SITE 1 AC3 5 SER A 166 LYS A 167 ASN A 168 PHE A 169 SITE 2 AC3 5 HOH A 538 SITE 1 AC4 3 ARG A 118 GLU A 119 LYS A 189 SITE 1 AC5 3 ARG A 137 HOH A 418 HOH A 488
CRYST1 158.440 158.440 67.680 90.00 90.00 120.00 P 6 2 2 12
ORIGX1 1.000000 0.000000 0.000000 0.00000
ORIGX2 0.000000 1.000000 0.000000 0.00000
ORIGX3 0.000000 0.000000 1.000000 0.00000
SCALE1 0.006312 0.003644 0.000000 0.00000
SCALE2 0.000000 0.007288 0.000000 0.00000
SCALE3 0.000000 0.000000 0.014775 0.00000