HEADER LYASE 05-JUN-07 2Q71 TITLE UROPORPHYRINOGEN DECARBOXYLASE G168R SINGLE MUTANT ENZYME IN COMPLEX TITLE 2 WITH COPROPORPHYRINOGEN-III COMPND MOL_ID: 1; COMPND 2 MOLECULE: UROPORPHYRINOGEN DECARBOXYLASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: URO-D, UPD; COMPND 5 EC: 4.1.1.37; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: UROD; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21DE3-PLYSS; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET-16B KEYWDS UROPORPHYRINOGEN DECARBOXYLASE ENZYME UROD G168R COPROPORPHYRINOGEN- KEYWDS 2 III PRODUCT COMPLEX, LYASE EXPDTA X-RAY DIFFRACTION AUTHOR J.D.PHILLIPS,F.G.WHITBY,B.M.STADTMUELLER,C.Q.EDWARDS,C.P.HILL, AUTHOR 2 J.P.KUSHNER REVDAT 5 20-OCT-21 2Q71 1 REMARK SEQADV REVDAT 4 18-OCT-17 2Q71 1 REMARK REVDAT 3 12-MAR-14 2Q71 1 HETNAM REVDAT 2 24-FEB-09 2Q71 1 VERSN REVDAT 1 19-JUN-07 2Q71 0 JRNL AUTH J.D.PHILLIPS,F.G.WHITBY,B.M.STADTMUELLER,C.Q.EDWARDS, JRNL AUTH 2 C.P.HILL,J.P.KUSHNER JRNL TITL TWO NOVEL UROPOPHYRINOGEN DECARBOXYLASE (URO-D) MUTATIONS JRNL TITL 2 CAUSING HEPATOERYTHROPOIETIC PORPHYRIA (HEP) JRNL REF TRANSL.RES. V. 149 85 2007 JRNL REFN ISSN 1931-5244 JRNL PMID 17240319 JRNL DOI 10.1016/J.TRSL.2006.08.006 REMARK 2 REMARK 2 RESOLUTION. 1.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0005 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 93.5 REMARK 3 NUMBER OF REFLECTIONS : 32682 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 + TEST SET) : 0.164 REMARK 3 R VALUE (WORKING SET) : 0.162 REMARK 3 FREE R VALUE : 0.199 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 3.500 REMARK 3 FREE R VALUE TEST SET COUNT : 1135 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.90 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.95 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1957 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 80.15 REMARK 3 BIN R VALUE (WORKING SET) : 0.2440 REMARK 3 BIN FREE R VALUE SET COUNT : 70 REMARK 3 BIN FREE R VALUE : 0.3700 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2806 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 48 REMARK 3 SOLVENT ATOMS : 383 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 27.00 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.51000 REMARK 3 B22 (A**2) : -1.51000 REMARK 3 B33 (A**2) : 2.27000 REMARK 3 B12 (A**2) : -0.76000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.140 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.129 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.087 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.943 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.963 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.951 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3144 ; 0.014 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4305 ; 1.410 ; 1.962 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 395 ; 5.736 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 149 ;36.321 ;22.752 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 508 ;13.701 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 31 ;17.004 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 448 ; 0.098 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2526 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1732 ; 0.203 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2148 ; 0.306 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 327 ; 0.173 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 68 ; 0.198 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 36 ; 0.224 ; 0.200 REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 1960 ; 0.904 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3087 ; 1.476 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1343 ; 2.245 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1218 ; 3.625 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS. THE CRYSTALS WERE ISOMORPHOUS TO 1RY3. REMARK 4 REMARK 4 2Q71 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 11-JUN-07. REMARK 100 THE DEPOSITION ID IS D_1000043229. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 19-SEP-03 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU RU200 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : YALE FOCUSING MIRRORS, 1.5418 REMARK 200 ANGSTROM WAVELENGTH, 67 DEGREES REMARK 200 OF 0.5 DEGREE OSCILLATIONS (134 REMARK 200 IMAGES, 0-67 DEGREES) PLUS 12 REMARK 200 DEGREES OF 0.25 DEGREE REMARK 200 OSCILLATIONS (48 IMAGES 65-77 REMARK 200 DEGREES) REMARK 200 OPTICS : YALE FOCUSING MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IV REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 32683 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.900 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 93.5 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : 0.07800 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 11.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.97 REMARK 200 COMPLETENESS FOR SHELL (%) : 82.0 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.44200 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: REFMAC REMARK 200 STARTING MODEL: 1RY3 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 55.45 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.76 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PROTIEN AT 6.5 MG/ML IN 50MM TRIS, PH REMARK 280 7.5, 1MM BME WAS MIXED 5 PARTS TO 3 PARTS OF PRECIPITANT (1.7M REMARK 280 CITRATE, PH 7.0) AND EQUILIBRATED BY SITTING DROP VAPOR REMARK 280 DIFFUSION AGAINST A WELL OF PRECIPITANT., VAPOR DIFFUSION, REMARK 280 SITTING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 31 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+2/3 REMARK 290 6555 -X,-X+Y,-Z+1/3 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 23.95500 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 47.91000 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 47.91000 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 23.95500 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 CRYSTAL CONTAINS ONE MONOMER PER ASYMMETRIC UNIT. THE REMARK 300 FUNCTIONAL ENZYME IS A DIMER OF IDENTICAL SUBUNITS. A REMARK 300 CRYSTALLOGRAPHIC 2-FOLD GENERATES TEH BIOLOGICALLY FUNCTIONAL REMARK 300 DIMERIC ENZYME. THE TWO IDENTICAL ACTIVE SITES HAVE BEEN SHOWN TO REMARK 300 ACT INDEPENDENTLY. ONE REACTION PRODUCT MOLECULE (COPROPOPHYRINOGEN- REMARK 300 III) IS IN THE ACTIVE SITE. 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 178.46532 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 119.77500 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 OE1 GLN A 176 O HOH A 1088 2.08 REMARK 500 NE2 GLN A 274 O HOH A 1305 2.16 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 O HOH A 1241 O HOH A 1296 4557 2.19 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 ASP A 239 CB - CG - OD2 ANGL. DEV. = 5.9 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 SER A 85 -164.20 -168.03 REMARK 500 ARG A 168 46.40 -93.91 REMARK 500 ASN A 304 32.72 -142.65 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 CP3 A 867 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2Q6Z RELATED DB: PDB REMARK 900 G168R APO-ENZYME REMARK 900 RELATED ID: 1RY3 RELATED DB: PDB REMARK 900 WT-UROD IN COMPLEX WITH THE REACTION PRODUCT, COPROPORPHYRINOGEN-III DBREF 2Q71 A 11 366 UNP P06132 DCUP_HUMAN 11 366 SEQADV 2Q71 ARG A 168 UNP P06132 GLY 168 ENGINEERED MUTATION SEQRES 1 A 356 PHE PRO GLU LEU LYS ASN ASP THR PHE LEU ARG ALA ALA SEQRES 2 A 356 TRP GLY GLU GLU THR ASP TYR THR PRO VAL TRP CYS MET SEQRES 3 A 356 ARG GLN ALA GLY ARG TYR LEU PRO GLU PHE ARG GLU THR SEQRES 4 A 356 ARG ALA ALA GLN ASP PHE PHE SER THR CYS ARG SER PRO SEQRES 5 A 356 GLU ALA CYS CYS GLU LEU THR LEU GLN PRO LEU ARG ARG SEQRES 6 A 356 PHE PRO LEU ASP ALA ALA ILE ILE PHE SER ASP ILE LEU SEQRES 7 A 356 VAL VAL PRO GLN ALA LEU GLY MET GLU VAL THR MET VAL SEQRES 8 A 356 PRO GLY LYS GLY PRO SER PHE PRO GLU PRO LEU ARG GLU SEQRES 9 A 356 GLU GLN ASP LEU GLU ARG LEU ARG ASP PRO GLU VAL VAL SEQRES 10 A 356 ALA SER GLU LEU GLY TYR VAL PHE GLN ALA ILE THR LEU SEQRES 11 A 356 THR ARG GLN ARG LEU ALA GLY ARG VAL PRO LEU ILE GLY SEQRES 12 A 356 PHE ALA GLY ALA PRO TRP THR LEU MET THR TYR MET VAL SEQRES 13 A 356 GLU ARG GLY GLY SER SER THR MET ALA GLN ALA LYS ARG SEQRES 14 A 356 TRP LEU TYR GLN ARG PRO GLN ALA SER HIS GLN LEU LEU SEQRES 15 A 356 ARG ILE LEU THR ASP ALA LEU VAL PRO TYR LEU VAL GLY SEQRES 16 A 356 GLN VAL VAL ALA GLY ALA GLN ALA LEU GLN LEU PHE GLU SEQRES 17 A 356 SER HIS ALA GLY HIS LEU GLY PRO GLN LEU PHE ASN LYS SEQRES 18 A 356 PHE ALA LEU PRO TYR ILE ARG ASP VAL ALA LYS GLN VAL SEQRES 19 A 356 LYS ALA ARG LEU ARG GLU ALA GLY LEU ALA PRO VAL PRO SEQRES 20 A 356 MET ILE ILE PHE ALA LYS ASP GLY HIS PHE ALA LEU GLU SEQRES 21 A 356 GLU LEU ALA GLN ALA GLY TYR GLU VAL VAL GLY LEU ASP SEQRES 22 A 356 TRP THR VAL ALA PRO LYS LYS ALA ARG GLU CYS VAL GLY SEQRES 23 A 356 LYS THR VAL THR LEU GLN GLY ASN LEU ASP PRO CYS ALA SEQRES 24 A 356 LEU TYR ALA SER GLU GLU GLU ILE GLY GLN LEU VAL LYS SEQRES 25 A 356 GLN MET LEU ASP ASP PHE GLY PRO HIS ARG TYR ILE ALA SEQRES 26 A 356 ASN LEU GLY HIS GLY LEU TYR PRO ASP MET ASP PRO GLU SEQRES 27 A 356 HIS VAL GLY ALA PHE VAL ASP ALA VAL HIS LYS HIS SER SEQRES 28 A 356 ARG LEU LEU ARG GLN HET CP3 A 867 48 HETNAM CP3 COPROPORPHYRINOGEN III FORMUL 2 CP3 C36 H44 N4 O8 FORMUL 3 HOH *383(H2 O) HELIX 1 1 ASP A 17 GLY A 25 1 9 HELIX 2 2 LEU A 43 ALA A 51 1 9 HELIX 3 3 ASP A 54 ARG A 60 1 7 HELIX 4 4 SER A 61 PHE A 76 1 16 HELIX 5 5 LEU A 88 LEU A 94 1 7 HELIX 6 6 GLU A 114 LEU A 121 5 8 HELIX 7 7 ASP A 123 GLU A 125 5 3 HELIX 8 8 VAL A 126 LEU A 131 1 6 HELIX 9 9 LEU A 131 ALA A 146 1 16 HELIX 10 10 ALA A 157 GLU A 167 1 11 HELIX 11 11 MET A 174 ARG A 184 1 11 HELIX 12 12 ARG A 184 ALA A 209 1 26 HELIX 13 13 HIS A 220 LEU A 224 5 5 HELIX 14 14 GLY A 225 ALA A 233 1 9 HELIX 15 15 ALA A 233 ALA A 251 1 19 HELIX 16 16 GLY A 265 PHE A 267 5 3 HELIX 17 17 ALA A 268 ALA A 273 1 6 HELIX 18 18 ALA A 287 GLY A 296 1 10 HELIX 19 19 ASP A 306 ALA A 312 5 7 HELIX 20 20 SER A 313 GLY A 329 1 17 HELIX 21 21 ASP A 346 LEU A 364 1 19 SHEET 1 A 7 ALA A 81 ILE A 82 0 SHEET 2 A 7 LEU A 151 GLY A 156 1 O ILE A 152 N ALA A 81 SHEET 3 A 7 ALA A 213 GLU A 218 1 O ALA A 213 N GLY A 153 SHEET 4 A 7 MET A 258 ALA A 262 1 O ILE A 259 N LEU A 216 SHEET 5 A 7 VAL A 279 GLY A 281 1 O GLY A 281 N ILE A 260 SHEET 6 A 7 THR A 300 LEU A 305 1 O THR A 300 N VAL A 280 SHEET 7 A 7 TYR A 333 LEU A 337 1 O ILE A 334 N LEU A 301 SHEET 1 B 2 THR A 99 VAL A 101 0 SHEET 2 B 2 GLY A 105 SER A 107 -1 O GLY A 105 N VAL A 101 CISPEP 1 GLY A 303 ASN A 304 0 -3.45 SITE 1 AC1 26 ARG A 37 GLN A 38 ALA A 39 GLY A 40 SITE 2 AC1 26 ARG A 41 PHE A 46 PHE A 55 ILE A 82 SITE 3 AC1 26 ILE A 83 PHE A 84 SER A 85 ASP A 86 SITE 4 AC1 26 ILE A 87 MET A 100 PRO A 106 PHE A 154 SITE 5 AC1 26 TYR A 164 PHE A 217 SER A 219 HIS A 339 SITE 6 AC1 26 HOH A1143 HOH A1306 HOH A1326 HOH A1328 SITE 7 AC1 26 HOH A1350 HOH A1374 CRYST1 103.037 103.037 71.865 90.00 90.00 120.00 P 31 2 1 6 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 0.009705 0.005603 0.000000 0.00000 SCALE2 0.000000 0.011207 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013915 0.00000 MASTER 340 0 1 21 9 0 7 6 0 0 0 28 END