PDB Short entry for 3RBL HEADER LYASE 29-MAR-11 3RBL TITLE CRYSTAL STRUCTURE OF HUMAN AROMATIC L-AMINO ACID DECARBOXYLASE (AADC) TITLE 2 IN THE APO FORM COMPND MOL_ID: 1; COMPND 2 MOLECULE: AROMATIC L-AMINO ACID DECARBOXYLASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: AADC, DOPA DECARBOXYLASE, DDC; COMPND 5 EC: 4.1.1.28; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: AADC; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: JM109; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PTRCHIS2A KEYWDS APO ENZYME, APO FORM, OPEN CONFORMATION, OPEN DIMER, EXPOSED, KEYWDS 2 CONFORMATIONAL CHANGE, PARKINSON, AADC DEFICIENCY, DDC, KEYWDS 3 DECARBOXYLASE, PLP, L-DOPA, LYASE EXPDTA X-RAY DIFFRACTION AUTHOR G.GIARDINA,R.MONTIOLI,S.GIANNI,B.CELLINI,A.PAIARDINI,C.BORRI AUTHOR 2 VOLTATTORNI,F.CUTRUZZOLA REVDAT 3 13-SEP-23 3RBL 1 REMARK REVDAT 2 04-JAN-12 3RBL 1 JRNL REVDAT 1 19-OCT-11 3RBL 0 JRNL AUTH G.GIARDINA,R.MONTIOLI,S.GIANNI,B.CELLINI,A.PAIARDINI, JRNL AUTH 2 C.B.VOLTATTORNI,F.CUTRUZZOLA JRNL TITL OPEN CONFORMATION OF HUMAN DOPA DECARBOXYLASE REVEALS THE JRNL TITL 2 MECHANISM OF PLP ADDITION TO GROUP II DECARBOXYLASES. JRNL REF PROC.NATL.ACAD.SCI.USA V. 108 20514 2011 JRNL REFN ISSN 0027-8424 JRNL PMID 22143761 JRNL DOI 10.1073/PNAS.1111456108 REMARK 2 REMARK 2 RESOLUTION. 3.24 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 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) : 3.24 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 3 NUMBER OF REFLECTIONS : 19980 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) : 0.239 REMARK 3 R VALUE (WORKING SET) : 0.236 REMARK 3 FREE R VALUE : 0.294 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1019 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) : 3.24 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 3.32 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1368 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.2980 REMARK 3 BIN FREE R VALUE SET COUNT : 65 REMARK 3 BIN FREE R VALUE : 0.3180 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6949 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 1 REMARK 3 SOLVENT ATOMS : 0 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 46.69 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.87000 REMARK 3 B22 (A**2) : 1.87000 REMARK 3 B33 (A**2) : -3.74000 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 OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.589 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.479 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 28.076 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.882 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.816 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 7130 ; 0.011 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 9645 ; 1.271 ; 1.956 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 880 ; 5.961 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 317 ;35.851 ;23.344 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1213 ;19.478 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 50 ;18.835 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 1059 ; 0.082 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5381 ; 0.006 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL 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): 4412 ; 0.464 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 7071 ; 0.919 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2718 ; 1.353 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 2574 ; 2.396 ; 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 : 1.40 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 U VALUES : REFINED INDIVIDUALLY REMARK 4 REMARK 4 3RBL COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 07-APR-11. REMARK 100 THE DEPOSITION ID IS D_1000064729. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 20-NOV-10 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID14-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.934 REMARK 200 MONOCHROMATOR : SI-111 CRYSTAL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 210 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA 3.3.16 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 20098 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.240 REMARK 200 RESOLUTION RANGE LOW (A) : 127.025 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 6.400 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.13100 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 13.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.24 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.41 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 6.20 REMARK 200 R MERGE FOR SHELL (I) : 0.40200 REMARK 200 R SYM FOR SHELL (I) : 0.40200 REMARK 200 <I/SIGMA(I)> FOR SHELL : 1.900 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: 3RBF REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 56.09 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.80 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: CRYSTALS OBTAINED FROM HOLOAADC IN 0.1 REMARK 280 M HEPES PH 7.0, 28-30% JEFFAMINE ED 2001 PH 7.0 WERE TRANSFERRED REMARK 280 IN A ML DROPLET TO YIELD APOAADC, VAPOR DIFFUSION FOLLOWED BY REMARK 280 SOAKING, TEMPERATURE 294K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+1/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+3/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+1/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+3/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 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 37.47500 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 89.82000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 89.82000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 18.73750 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 89.82000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 89.82000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 56.21250 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 89.82000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 89.82000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 18.73750 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 89.82000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 89.82000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 56.21250 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 37.47500 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: BIOLOGICAL UNIT IS THE SAME AS ASYM. 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 8510 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 34370 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -77.0 KCAL/MOL 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 GLY A 102 REMARK 465 PHE A 103 REMARK 465 SER A 104 REMARK 465 TRP A 105 REMARK 465 ALA A 106 REMARK 465 ALA A 107 REMARK 465 THR A 323 REMARK 465 GLY A 324 REMARK 465 ALA A 325 REMARK 465 PHE A 326 REMARK 465 ARG A 327 REMARK 465 LEU A 328 REMARK 465 ASP A 329 REMARK 465 PRO A 330 REMARK 465 THR A 331 REMARK 465 TYR A 332 REMARK 465 LEU A 333 REMARK 465 LYS A 334 REMARK 465 HIS A 335 REMARK 465 SER A 336 REMARK 465 HIS A 337 REMARK 465 GLN A 338 REMARK 465 ASP A 339 REMARK 465 SER A 340 REMARK 465 GLY A 341 REMARK 465 LEU A 342 REMARK 465 ILE A 343 REMARK 465 THR A 344 REMARK 465 ASP A 345 REMARK 465 TYR A 346 REMARK 465 ARG A 347 REMARK 465 HIS A 348 REMARK 465 TRP A 349 REMARK 465 GLN A 350 REMARK 465 ILE A 351 REMARK 465 PRO A 352 REMARK 465 LEU A 353 REMARK 465 GLY A 354 REMARK 465 CYS B 100 REMARK 465 ILE B 101 REMARK 465 GLY B 102 REMARK 465 PHE B 103 REMARK 465 THR B 323 REMARK 465 GLY B 324 REMARK 465 ALA B 325 REMARK 465 PHE B 326 REMARK 465 ARG B 327 REMARK 465 LEU B 328 REMARK 465 ASP B 329 REMARK 465 PRO B 330 REMARK 465 THR B 331 REMARK 465 TYR B 332 REMARK 465 LEU B 333 REMARK 465 LYS B 334 REMARK 465 HIS B 335 REMARK 465 SER B 336 REMARK 465 HIS B 337 REMARK 465 GLN B 338 REMARK 465 ASP B 339 REMARK 465 SER B 340 REMARK 465 GLY B 341 REMARK 465 LEU B 342 REMARK 465 ILE B 343 REMARK 465 THR B 344 REMARK 465 ASP B 345 REMARK 465 TYR B 346 REMARK 465 ARG B 347 REMARK 465 HIS B 348 REMARK 465 TRP B 349 REMARK 465 GLN B 350 REMARK 465 ILE B 351 REMARK 465 PRO B 352 REMARK 465 LEU B 353 REMARK 465 GLY B 354 REMARK 465 ARG B 355 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 ARG A 355 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 356 CG CD NE CZ NH1 NH2 REMARK 470 ARG B 356 CG CD NE CZ NH1 NH2 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 OD2 ASP A 120 OD1 ASN A 134 1.79 REMARK 500 OD2 ASP B 189 OG SER B 211 1.94 REMARK 500 CE LYS A 124 OE1 GLU A 135 2.01 REMARK 500 O VAL B 29 O THR B 69 2.05 REMARK 500 O THR B 245 O CYS B 248 2.08 REMARK 500 ND1 HIS A 302 O CYS A 311 2.11 REMARK 500 CE2 PHE A 80 O CYS A 451 2.12 REMARK 500 OH TYR A 30 CD2 HIS A 434 2.16 REMARK 500 OD1 ASN B 134 N GLY B 142 2.18 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 PRO B 236 C - N - CD ANGL. DEV. = -17.8 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 ASP A 32 75.02 -116.29 REMARK 500 PRO A 35 122.07 -33.99 REMARK 500 SER A 73 133.45 -38.27 REMARK 500 PHE A 77 40.31 -89.93 REMARK 500 ILE A 98 60.78 -109.24 REMARK 500 ALA A 131 -39.35 -38.89 REMARK 500 ALA A 137 11.58 87.54 REMARK 500 SER A 193 -39.45 -31.31 REMARK 500 ASP A 212 -159.04 -101.81 REMARK 500 GLU A 292 -37.08 -37.57 REMARK 500 TRP A 304 -12.22 -143.92 REMARK 500 PHE A 309 -37.18 -38.90 REMARK 500 LEU A 406 94.00 -165.83 REMARK 500 LYS A 431 -4.62 82.40 REMARK 500 ARG A 441 -132.92 54.01 REMARK 500 ASP B 32 52.31 -103.73 REMARK 500 PRO B 43 143.96 -39.28 REMARK 500 HIS B 72 11.45 -69.63 REMARK 500 PHE B 77 58.21 -93.72 REMARK 500 GLU B 135 45.35 -75.98 REMARK 500 LYS B 136 13.18 55.73 REMARK 500 ALA B 219 -61.35 74.60 REMARK 500 ALA B 273 -132.82 58.39 REMARK 500 LEU B 406 -154.94 -120.50 REMARK 500 ARG B 441 -125.57 60.06 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 CL B 481 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3RBF RELATED DB: PDB REMARK 900 AADC WITH PLP NOT COVALENTLY BOUND TO CHAIN-A (OCCUPANCY=0.5) REMARK 900 RELATED ID: 3RCH RELATED DB: PDB REMARK 900 AADC IN THE OPEN CONFORMATION WITH LLP AND PLP BOUND TO CHAIN-A AND REMARK 900 CHAIN-B RESPECTIVELY DBREF 3RBL A 1 480 UNP P20711 DDC_HUMAN 1 480 DBREF 3RBL B 1 480 UNP P20711 DDC_HUMAN 1 480 SEQRES 1 A 480 MET ASN ALA SER GLU PHE ARG ARG ARG GLY LYS GLU MET SEQRES 2 A 480 VAL ASP TYR VAL ALA ASN TYR MET GLU GLY ILE GLU GLY SEQRES 3 A 480 ARG GLN VAL TYR PRO ASP VAL GLU PRO GLY TYR LEU ARG SEQRES 4 A 480 PRO LEU ILE PRO ALA ALA ALA PRO GLN GLU PRO ASP THR SEQRES 5 A 480 PHE GLU ASP ILE ILE ASN ASP VAL GLU LYS ILE ILE MET SEQRES 6 A 480 PRO GLY VAL THR HIS TRP HIS SER PRO TYR PHE PHE ALA SEQRES 7 A 480 TYR PHE PRO THR ALA SER SER TYR PRO ALA MET LEU ALA SEQRES 8 A 480 ASP MET LEU CYS GLY ALA ILE GLY CYS ILE GLY PHE SER SEQRES 9 A 480 TRP ALA ALA SER PRO ALA CYS THR GLU LEU GLU THR VAL SEQRES 10 A 480 MET MET ASP TRP LEU GLY LYS MET LEU GLU LEU PRO LYS SEQRES 11 A 480 ALA PHE LEU ASN GLU LYS ALA GLY GLU GLY GLY GLY VAL SEQRES 12 A 480 ILE GLN GLY SER ALA SER GLU ALA THR LEU VAL ALA LEU SEQRES 13 A 480 LEU ALA ALA ARG THR LYS VAL ILE HIS ARG LEU GLN ALA SEQRES 14 A 480 ALA SER PRO GLU LEU THR GLN ALA ALA ILE MET GLU LYS SEQRES 15 A 480 LEU VAL ALA TYR SER SER ASP GLN ALA HIS SER SER VAL SEQRES 16 A 480 GLU ARG ALA GLY LEU ILE GLY GLY VAL LYS LEU LYS ALA SEQRES 17 A 480 ILE PRO SER ASP GLY ASN PHE ALA MET ARG ALA SER ALA SEQRES 18 A 480 LEU GLN GLU ALA LEU GLU ARG ASP LYS ALA ALA GLY LEU SEQRES 19 A 480 ILE PRO PHE PHE MET VAL ALA THR LEU GLY THR THR THR SEQRES 20 A 480 CYS CYS SER PHE ASP ASN LEU LEU GLU VAL GLY PRO ILE SEQRES 21 A 480 CYS ASN LYS GLU ASP ILE TRP LEU HIS VAL ASP ALA ALA SEQRES 22 A 480 TYR ALA GLY SER ALA PHE ILE CYS PRO GLU PHE ARG HIS SEQRES 23 A 480 LEU LEU ASN GLY VAL GLU PHE ALA ASP SER PHE ASN PHE SEQRES 24 A 480 ASN PRO HIS LYS TRP LEU LEU VAL ASN PHE ASP CYS SER SEQRES 25 A 480 ALA MET TRP VAL LYS LYS ARG THR ASP LEU THR GLY ALA SEQRES 26 A 480 PHE ARG LEU ASP PRO THR TYR LEU LYS HIS SER HIS GLN SEQRES 27 A 480 ASP SER GLY LEU ILE THR ASP TYR ARG HIS TRP GLN ILE SEQRES 28 A 480 PRO LEU GLY ARG ARG PHE ARG SER LEU LYS MET TRP PHE SEQRES 29 A 480 VAL PHE ARG MET TYR GLY VAL LYS GLY LEU GLN ALA TYR SEQRES 30 A 480 ILE ARG LYS HIS VAL GLN LEU SER HIS GLU PHE GLU SER SEQRES 31 A 480 LEU VAL ARG GLN ASP PRO ARG PHE GLU ILE CYS VAL GLU SEQRES 32 A 480 VAL ILE LEU GLY LEU VAL CYS PHE ARG LEU LYS GLY SER SEQRES 33 A 480 ASN LYS VAL ASN GLU ALA LEU LEU GLN ARG ILE ASN SER SEQRES 34 A 480 ALA LYS LYS ILE HIS LEU VAL PRO CYS HIS LEU ARG ASP SEQRES 35 A 480 LYS PHE VAL LEU ARG PHE ALA ILE CYS SER ARG THR VAL SEQRES 36 A 480 GLU SER ALA HIS VAL GLN ARG ALA TRP GLU HIS ILE LYS SEQRES 37 A 480 GLU LEU ALA ALA ASP VAL LEU ARG ALA GLU ARG GLU SEQRES 1 B 480 MET ASN ALA SER GLU PHE ARG ARG ARG GLY LYS GLU MET SEQRES 2 B 480 VAL ASP TYR VAL ALA ASN TYR MET GLU GLY ILE GLU GLY SEQRES 3 B 480 ARG GLN VAL TYR PRO ASP VAL GLU PRO GLY TYR LEU ARG SEQRES 4 B 480 PRO LEU ILE PRO ALA ALA ALA PRO GLN GLU PRO ASP THR SEQRES 5 B 480 PHE GLU ASP ILE ILE ASN ASP VAL GLU LYS ILE ILE MET SEQRES 6 B 480 PRO GLY VAL THR HIS TRP HIS SER PRO TYR PHE PHE ALA SEQRES 7 B 480 TYR PHE PRO THR ALA SER SER TYR PRO ALA MET LEU ALA SEQRES 8 B 480 ASP MET LEU CYS GLY ALA ILE GLY CYS ILE GLY PHE SER SEQRES 9 B 480 TRP ALA ALA SER PRO ALA CYS THR GLU LEU GLU THR VAL SEQRES 10 B 480 MET MET ASP TRP LEU GLY LYS MET LEU GLU LEU PRO LYS SEQRES 11 B 480 ALA PHE LEU ASN GLU LYS ALA GLY GLU GLY GLY GLY VAL SEQRES 12 B 480 ILE GLN GLY SER ALA SER GLU ALA THR LEU VAL ALA LEU SEQRES 13 B 480 LEU ALA ALA ARG THR LYS VAL ILE HIS ARG LEU GLN ALA SEQRES 14 B 480 ALA SER PRO GLU LEU THR GLN ALA ALA ILE MET GLU LYS SEQRES 15 B 480 LEU VAL ALA TYR SER SER ASP GLN ALA HIS SER SER VAL SEQRES 16 B 480 GLU ARG ALA GLY LEU ILE GLY GLY VAL LYS LEU LYS ALA SEQRES 17 B 480 ILE PRO SER ASP GLY ASN PHE ALA MET ARG ALA SER ALA SEQRES 18 B 480 LEU GLN GLU ALA LEU GLU ARG ASP LYS ALA ALA GLY LEU SEQRES 19 B 480 ILE PRO PHE PHE MET VAL ALA THR LEU GLY THR THR THR SEQRES 20 B 480 CYS CYS SER PHE ASP ASN LEU LEU GLU VAL GLY PRO ILE SEQRES 21 B 480 CYS ASN LYS GLU ASP ILE TRP LEU HIS VAL ASP ALA ALA SEQRES 22 B 480 TYR ALA GLY SER ALA PHE ILE CYS PRO GLU PHE ARG HIS SEQRES 23 B 480 LEU LEU ASN GLY VAL GLU PHE ALA ASP SER PHE ASN PHE SEQRES 24 B 480 ASN PRO HIS LYS TRP LEU LEU VAL ASN PHE ASP CYS SER SEQRES 25 B 480 ALA MET TRP VAL LYS LYS ARG THR ASP LEU THR GLY ALA SEQRES 26 B 480 PHE ARG LEU ASP PRO THR TYR LEU LYS HIS SER HIS GLN SEQRES 27 B 480 ASP SER GLY LEU ILE THR ASP TYR ARG HIS TRP GLN ILE SEQRES 28 B 480 PRO LEU GLY ARG ARG PHE ARG SER LEU LYS MET TRP PHE SEQRES 29 B 480 VAL PHE ARG MET TYR GLY VAL LYS GLY LEU GLN ALA TYR SEQRES 30 B 480 ILE ARG LYS HIS VAL GLN LEU SER HIS GLU PHE GLU SER SEQRES 31 B 480 LEU VAL ARG GLN ASP PRO ARG PHE GLU ILE CYS VAL GLU SEQRES 32 B 480 VAL ILE LEU GLY LEU VAL CYS PHE ARG LEU LYS GLY SER SEQRES 33 B 480 ASN LYS VAL ASN GLU ALA LEU LEU GLN ARG ILE ASN SER SEQRES 34 B 480 ALA LYS LYS ILE HIS LEU VAL PRO CYS HIS LEU ARG ASP SEQRES 35 B 480 LYS PHE VAL LEU ARG PHE ALA ILE CYS SER ARG THR VAL SEQRES 36 B 480 GLU SER ALA HIS VAL GLN ARG ALA TRP GLU HIS ILE LYS SEQRES 37 B 480 GLU LEU ALA ALA ASP VAL LEU ARG ALA GLU ARG GLU HET CL B 481 1 HETNAM CL CHLORIDE ION FORMUL 3 CL CL 1- HELIX 1 1 ASN A 2 GLY A 23 1 22 HELIX 2 2 ILE A 24 ARG A 27 5 4 HELIX 3 3 LEU A 38 ILE A 42 5 5 HELIX 4 4 THR A 52 ILE A 64 1 13 HELIX 5 5 MET A 65 VAL A 68 5 4 HELIX 6 6 SER A 85 ILE A 98 1 14 HELIX 7 7 SER A 108 LEU A 126 1 19 HELIX 8 8 PRO A 129 LEU A 133 5 5 HELIX 9 9 SER A 147 SER A 171 1 25 HELIX 10 10 THR A 175 GLU A 181 1 7 HELIX 11 11 SER A 193 GLY A 203 1 11 HELIX 12 12 ARG A 218 ALA A 231 1 14 HELIX 13 13 ASN A 253 GLU A 264 1 12 HELIX 14 14 TYR A 274 CYS A 281 5 8 HELIX 15 15 PHE A 284 ASN A 289 5 6 HELIX 16 16 GLY A 290 ALA A 294 5 5 HELIX 17 17 ASN A 300 TRP A 304 5 5 HELIX 18 18 ARG A 358 ASP A 395 1 38 HELIX 19 19 SER A 416 LYS A 431 1 16 HELIX 20 20 GLU A 456 GLU A 480 1 25 HELIX 21 21 ASN B 2 ILE B 24 1 23 HELIX 22 22 LEU B 38 ILE B 42 5 5 HELIX 23 23 THR B 52 ILE B 64 1 13 HELIX 24 24 MET B 65 VAL B 68 5 4 HELIX 25 25 SER B 85 GLY B 99 1 15 HELIX 26 26 SER B 108 GLU B 127 1 20 HELIX 27 27 PRO B 129 LEU B 133 5 5 HELIX 28 28 SER B 147 SER B 171 1 25 HELIX 29 29 THR B 175 GLU B 181 1 7 HELIX 30 30 SER B 193 GLY B 203 1 11 HELIX 31 31 ALA B 219 ALA B 232 1 14 HELIX 32 32 ASN B 253 GLU B 264 1 12 HELIX 33 33 TYR B 274 ASN B 289 5 16 HELIX 34 34 GLY B 290 ALA B 294 5 5 HELIX 35 35 PRO B 301 LEU B 306 1 6 HELIX 36 36 ARG B 358 ASP B 395 1 38 HELIX 37 37 SER B 416 LYS B 431 1 16 HELIX 38 38 GLU B 456 ARG B 479 1 24 SHEET 1 A 7 GLY A 141 VAL A 143 0 SHEET 2 A 7 ALA A 313 VAL A 316 -1 O MET A 314 N VAL A 143 SHEET 3 A 7 SER A 296 PHE A 299 -1 N PHE A 297 O TRP A 315 SHEET 4 A 7 TRP A 267 ASP A 271 1 N VAL A 270 O SER A 296 SHEET 5 A 7 ILE A 235 THR A 242 1 N PHE A 237 O TRP A 267 SHEET 6 A 7 LEU A 183 SER A 188 1 N TYR A 186 O VAL A 240 SHEET 7 A 7 LYS A 205 ILE A 209 1 O ILE A 209 N SER A 187 SHEET 1 B 4 PHE A 398 ILE A 400 0 SHEET 2 B 4 LEU A 408 LEU A 413 -1 O ARG A 412 N GLU A 399 SHEET 3 B 4 LYS A 443 ALA A 449 -1 O LEU A 446 N PHE A 411 SHEET 4 B 4 CYS A 438 LEU A 440 -1 N LEU A 440 O LYS A 443 SHEET 1 C 5 PHE B 76 PHE B 77 0 SHEET 2 C 5 HIS B 434 LEU B 440 1 O HIS B 434 N PHE B 77 SHEET 3 C 5 LYS B 443 ALA B 449 -1 O LYS B 443 N LEU B 440 SHEET 4 C 5 LEU B 408 LEU B 413 -1 N VAL B 409 O PHE B 448 SHEET 5 C 5 PHE B 398 ILE B 400 -1 N GLU B 399 O ARG B 412 SHEET 1 D 7 GLY B 142 GLN B 145 0 SHEET 2 D 7 SER B 312 VAL B 316 -1 O MET B 314 N VAL B 143 SHEET 3 D 7 SER B 296 PHE B 299 -1 N PHE B 297 O TRP B 315 SHEET 4 D 7 TRP B 267 ALA B 273 1 N ALA B 272 O ASN B 298 SHEET 5 D 7 ILE B 235 THR B 242 1 N MET B 239 O HIS B 269 SHEET 6 D 7 LEU B 183 SER B 188 1 N VAL B 184 O ILE B 235 SHEET 7 D 7 LYS B 205 ILE B 209 1 O LYS B 205 N ALA B 185 SITE 1 AC1 2 LYS B 303 TRP B 304 CRYST1 179.640 179.640 74.950 90.00 90.00 90.00 P 41 21 2 16 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 0.005567 0.000000 0.000000 0.00000 SCALE2 0.000000 0.005567 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013342 0.00000