HEADER LYASE 13-AUG-04 1X7D TITLE CRYSTAL STRUCTURE ANALYSIS OF ORNITHINE CYCLODEAMINASE COMPLEXED WITH TITLE 2 NAD AND ORNITHINE TO 1.6 ANGSTROMS COMPND MOL_ID: 1; COMPND 2 MOLECULE: ORNITHINE CYCLODEAMINASE; COMPND 3 CHAIN: A, B; COMPND 4 EC: 4.3.1.12; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PSEUDOMONAS PUTIDA; SOURCE 3 ORGANISM_TAXID: 303; SOURCE 4 GENE: ORNITHINE CYCLASE (DEAMINATING); SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: ROSETTA(DE3) AND D834(DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET-21A(+) AND PET-21A-OCD KEYWDS DEAMINASE, BINDS NAD+, BINDS L-ORNITHINE, BINDS L-PROLINE, 2 HELIX KEYWDS 2 BUNDLE, BETA BARREL, ROSSMANN FOLD, LYASE EXPDTA X-RAY DIFFRACTION AUTHOR S.ALAM,J.L.GOODMAN,S.WANG,F.J.RUZICKA,P.A.FREY,J.E.WEDEKIND REVDAT 5 15-NOV-23 1X7D 1 REMARK REVDAT 4 23-AUG-23 1X7D 1 REMARK SEQADV LINK REVDAT 3 13-JUL-11 1X7D 1 VERSN REVDAT 2 24-FEB-09 1X7D 1 VERSN REVDAT 1 09-NOV-04 1X7D 0 JRNL AUTH J.L.GOODMAN,S.WANG,S.ALAM,F.J.RUZICKA,P.A.FREY,J.E.WEDEKIND JRNL TITL ORNITHINE CYCLODEAMINASE: STRUCTURE, MECHANISM OF ACTION, JRNL TITL 2 AND IMPLICATIONS FOR THE U-CRYSTALLIN FAMILY JRNL REF BIOCHEMISTRY V. 43 13883 2004 JRNL REFN ISSN 0006-2960 JRNL PMID 15518536 JRNL DOI 10.1021/BI048207I 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 : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 24.95 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 2107943.980 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 98.6 REMARK 3 NUMBER OF REFLECTIONS : 86668 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) : 0.170 REMARK 3 FREE R VALUE : 0.190 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 4400 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.003 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) (%) : 93.90 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 12853 REMARK 3 BIN R VALUE (WORKING SET) : 0.2410 REMARK 3 BIN FREE R VALUE : 0.2660 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 5.20 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 699 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.010 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5235 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 168 REMARK 3 SOLVENT ATOMS : 828 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 17.20 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 16.40 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.60000 REMARK 3 B22 (A**2) : 0.75000 REMARK 3 B33 (A**2) : -0.15000 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) : 0.16 REMARK 3 ESD FROM SIGMAA (A) : 0.12 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) : 0.18 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.15 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.005 REMARK 3 BOND ANGLES (DEGREES) : 1.400 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 23.60 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.850 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) : 0.967 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 1.438 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 1.876 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 2.722 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.34 REMARK 3 BSOL : 53.49 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 : NAD_XPLOR.PAR REMARK 3 PARAMETER FILE 3 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 4 : ION.PARAM REMARK 3 PARAMETER FILE 5 : SUPER1.PAR REMARK 3 PARAMETER FILE 6 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : NAD_XPLOR.TOP REMARK 3 TOPOLOGY FILE 3 : WATER.TOP REMARK 3 TOPOLOGY FILE 4 : ION.TOP REMARK 3 TOPOLOGY FILE 5 : SUPER1.TOP REMARK 3 TOPOLOGY FILE 6 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1X7D COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 19-AUG-04. REMARK 100 THE DEPOSITION ID IS D_1000030031. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 23-JUL-04 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 6.25 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : CHESS REMARK 200 BEAMLINE : A1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97640 REMARK 200 MONOCHROMATOR : SILICON AND GERMANIUM CRYSTALS REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 210 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : ADSC REMARK 200 DATA SCALING SOFTWARE : CRYSTALCLEAR (MSC/RIGAKU) REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 86668 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.600 REMARK 200 RESOLUTION RANGE LOW (A) : 24.950 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.0 REMARK 200 DATA REDUNDANCY : 2.290 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.04600 REMARK 200 FOR THE DATA SET : 12.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.65 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.0 REMARK 200 DATA REDUNDANCY IN SHELL : 1.97 REMARK 200 R MERGE FOR SHELL (I) : 0.20300 REMARK 200 R SYM FOR SHELL (I) : 0.20300 REMARK 200 FOR SHELL : 3.800 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: DIFFERENCE FOURIER/ REMARK 200 MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: CNS REMARK 200 STARTING MODEL: PDB ENTRY 1U7H REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 42.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.10 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M MES, 40% (V/V) MPD, PH 6.25, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K 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 34.94000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 59.97000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 39.31000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 59.97000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 34.94000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 39.31000 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 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: 12350 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 22420 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -153.0 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 MET A 1 REMARK 465 GLY A 342 REMARK 465 LYS A 343 REMARK 465 ARG A 344 REMARK 465 ARG A 345 REMARK 465 ILE A 346 REMARK 465 ARG A 347 REMARK 465 ARG A 348 REMARK 465 VAL A 349 REMARK 465 ALA A 350 REMARK 465 MET B 1 REMARK 465 ALA B 341 REMARK 465 GLY B 342 REMARK 465 LYS B 343 REMARK 465 ARG B 344 REMARK 465 ARG B 345 REMARK 465 ILE B 346 REMARK 465 ARG B 347 REMARK 465 ARG B 348 REMARK 465 VAL B 349 REMARK 465 ALA B 350 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 62 -164.41 -120.86 REMARK 500 ARG A 130 -17.82 -141.92 REMARK 500 THR A 209 60.82 -113.48 REMARK 500 ASP A 228 27.74 -154.78 REMARK 500 GLU A 248 -92.75 -87.14 REMARK 500 TRP A 325 -140.99 -106.51 REMARK 500 ASP A 332 72.57 -103.47 REMARK 500 ASP B 62 -161.94 -121.64 REMARK 500 ARG B 130 -17.47 -142.59 REMARK 500 ASP B 204 110.93 -161.91 REMARK 500 THR B 209 71.24 -115.55 REMARK 500 ASP B 228 26.25 -155.19 REMARK 500 GLU B 248 -91.56 -86.05 REMARK 500 TRP B 325 -148.81 -100.16 REMARK 500 ASP B 332 71.93 -103.78 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 NA A1501 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ALA A 224 O REMARK 620 2 GLY A 227 O 164.8 REMARK 620 3 SER A 293 O 81.6 90.1 REMARK 620 4 HOH A1513 O 85.9 100.3 165.4 REMARK 620 5 HOH A1879 O 119.6 74.2 99.5 93.2 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA B1502 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ALA B 224 O REMARK 620 2 GLY B 227 O 163.7 REMARK 620 3 SER B 293 O 81.6 88.3 REMARK 620 4 HOH B3176 O 85.7 102.3 165.2 REMARK 620 5 HOH B3315 O 118.3 75.7 98.4 94.3 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 1501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA B 1502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NAD B 1301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NAD A 1302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ORN A 1101 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ORN A 1102 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MES B 3158 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MPD A 1401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MPD A 1402 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MPD A 1403 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MPD A 1404 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MPD B 1405 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MPD B 1406 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1U7H RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF ORNITHINE CYCLODEAMINASE COMPLEXED WITH NAD DBREF 1X7D A 1 350 UNP Q88H32 Q88H32_PSEPK 1 350 DBREF 1X7D B 1 350 UNP Q88H32 Q88H32_PSEPK 1 350 SEQADV 1X7D MSE A 10 UNP Q88H32 MET 10 MODIFIED RESIDUE SEQADV 1X7D MSE A 58 UNP Q88H32 MET 58 MODIFIED RESIDUE SEQADV 1X7D MSE A 86 UNP Q88H32 MET 86 MODIFIED RESIDUE SEQADV 1X7D MSE A 119 UNP Q88H32 MET 119 MODIFIED RESIDUE SEQADV 1X7D MSE A 132 UNP Q88H32 MET 132 MODIFIED RESIDUE SEQADV 1X7D MSE A 215 UNP Q88H32 MET 215 MODIFIED RESIDUE SEQADV 1X7D MSE A 220 UNP Q88H32 MET 220 MODIFIED RESIDUE SEQADV 1X7D MSE A 316 UNP Q88H32 MET 316 MODIFIED RESIDUE SEQADV 1X7D MSE B 10 UNP Q88H32 MET 10 MODIFIED RESIDUE SEQADV 1X7D MSE B 58 UNP Q88H32 MET 58 MODIFIED RESIDUE SEQADV 1X7D MSE B 86 UNP Q88H32 MET 86 MODIFIED RESIDUE SEQADV 1X7D MSE B 119 UNP Q88H32 MET 119 MODIFIED RESIDUE SEQADV 1X7D MSE B 132 UNP Q88H32 MET 132 MODIFIED RESIDUE SEQADV 1X7D MSE B 215 UNP Q88H32 MET 215 MODIFIED RESIDUE SEQADV 1X7D MSE B 220 UNP Q88H32 MET 220 MODIFIED RESIDUE SEQADV 1X7D MSE B 316 UNP Q88H32 MET 316 MODIFIED RESIDUE SEQRES 1 A 350 MET THR TYR PHE ILE ASP VAL PRO THR MSE SER ASP LEU SEQRES 2 A 350 VAL HIS ASP ILE GLY VAL ALA PRO PHE ILE GLY GLU LEU SEQRES 3 A 350 ALA ALA ALA LEU ARG ASP ASP PHE LYS ARG TRP GLN ALA SEQRES 4 A 350 PHE ASP LYS SER ALA ARG VAL ALA SER HIS SER GLU VAL SEQRES 5 A 350 GLY VAL ILE GLU LEU MSE PRO VAL ALA ASP LYS SER ARG SEQRES 6 A 350 TYR ALA PHE LYS TYR VAL ASN GLY HIS PRO ALA ASN THR SEQRES 7 A 350 ALA ARG ASN LEU HIS THR VAL MSE ALA PHE GLY VAL LEU SEQRES 8 A 350 ALA ASP VAL ASP SER GLY TYR PRO VAL LEU LEU SER GLU SEQRES 9 A 350 LEU THR ILE ALA THR ALA LEU ARG THR ALA ALA THR SER SEQRES 10 A 350 LEU MSE ALA ALA GLN ALA LEU ALA ARG PRO ASN ALA ARG SEQRES 11 A 350 LYS MSE ALA LEU ILE GLY ASN GLY ALA GLN SER GLU PHE SEQRES 12 A 350 GLN ALA LEU ALA PHE HIS LYS HIS LEU GLY ILE GLU GLU SEQRES 13 A 350 ILE VAL ALA TYR ASP THR ASP PRO LEU ALA THR ALA LYS SEQRES 14 A 350 LEU ILE ALA ASN LEU LYS GLU TYR SER GLY LEU THR ILE SEQRES 15 A 350 ARG ARG ALA SER SER VAL ALA GLU ALA VAL LYS GLY VAL SEQRES 16 A 350 ASP ILE ILE THR THR VAL THR ALA ASP LYS ALA TYR ALA SEQRES 17 A 350 THR ILE ILE THR PRO ASP MSE LEU GLU PRO GLY MSE HIS SEQRES 18 A 350 LEU ASN ALA VAL GLY GLY ASP CYS PRO GLY LYS THR GLU SEQRES 19 A 350 LEU HIS ALA ASP VAL LEU ARG ASN ALA ARG VAL PHE VAL SEQRES 20 A 350 GLU TYR GLU PRO GLN THR ARG ILE GLU GLY GLU ILE GLN SEQRES 21 A 350 GLN LEU PRO ALA ASP PHE PRO VAL VAL ASP LEU TRP ARG SEQRES 22 A 350 VAL LEU ARG GLY GLU THR GLU GLY ARG GLN SER ASP SER SEQRES 23 A 350 GLN VAL THR VAL PHE ASP SER VAL GLY PHE ALA LEU GLU SEQRES 24 A 350 ASP TYR THR VAL LEU ARG TYR VAL LEU GLN GLN ALA GLU SEQRES 25 A 350 LYS ARG GLY MSE GLY THR LYS ILE ASP LEU VAL PRO TRP SEQRES 26 A 350 VAL GLU ASP ASP PRO LYS ASP LEU PHE SER HIS THR ARG SEQRES 27 A 350 GLY ARG ALA GLY LYS ARG ARG ILE ARG ARG VAL ALA SEQRES 1 B 350 MET THR TYR PHE ILE ASP VAL PRO THR MSE SER ASP LEU SEQRES 2 B 350 VAL HIS ASP ILE GLY VAL ALA PRO PHE ILE GLY GLU LEU SEQRES 3 B 350 ALA ALA ALA LEU ARG ASP ASP PHE LYS ARG TRP GLN ALA SEQRES 4 B 350 PHE ASP LYS SER ALA ARG VAL ALA SER HIS SER GLU VAL SEQRES 5 B 350 GLY VAL ILE GLU LEU MSE PRO VAL ALA ASP LYS SER ARG SEQRES 6 B 350 TYR ALA PHE LYS TYR VAL ASN GLY HIS PRO ALA ASN THR SEQRES 7 B 350 ALA ARG ASN LEU HIS THR VAL MSE ALA PHE GLY VAL LEU SEQRES 8 B 350 ALA ASP VAL ASP SER GLY TYR PRO VAL LEU LEU SER GLU SEQRES 9 B 350 LEU THR ILE ALA THR ALA LEU ARG THR ALA ALA THR SER SEQRES 10 B 350 LEU MSE ALA ALA GLN ALA LEU ALA ARG PRO ASN ALA ARG SEQRES 11 B 350 LYS MSE ALA LEU ILE GLY ASN GLY ALA GLN SER GLU PHE SEQRES 12 B 350 GLN ALA LEU ALA PHE HIS LYS HIS LEU GLY ILE GLU GLU SEQRES 13 B 350 ILE VAL ALA TYR ASP THR ASP PRO LEU ALA THR ALA LYS SEQRES 14 B 350 LEU ILE ALA ASN LEU LYS GLU TYR SER GLY LEU THR ILE SEQRES 15 B 350 ARG ARG ALA SER SER VAL ALA GLU ALA VAL LYS GLY VAL SEQRES 16 B 350 ASP ILE ILE THR THR VAL THR ALA ASP LYS ALA TYR ALA SEQRES 17 B 350 THR ILE ILE THR PRO ASP MSE LEU GLU PRO GLY MSE HIS SEQRES 18 B 350 LEU ASN ALA VAL GLY GLY ASP CYS PRO GLY LYS THR GLU SEQRES 19 B 350 LEU HIS ALA ASP VAL LEU ARG ASN ALA ARG VAL PHE VAL SEQRES 20 B 350 GLU TYR GLU PRO GLN THR ARG ILE GLU GLY GLU ILE GLN SEQRES 21 B 350 GLN LEU PRO ALA ASP PHE PRO VAL VAL ASP LEU TRP ARG SEQRES 22 B 350 VAL LEU ARG GLY GLU THR GLU GLY ARG GLN SER ASP SER SEQRES 23 B 350 GLN VAL THR VAL PHE ASP SER VAL GLY PHE ALA LEU GLU SEQRES 24 B 350 ASP TYR THR VAL LEU ARG TYR VAL LEU GLN GLN ALA GLU SEQRES 25 B 350 LYS ARG GLY MSE GLY THR LYS ILE ASP LEU VAL PRO TRP SEQRES 26 B 350 VAL GLU ASP ASP PRO LYS ASP LEU PHE SER HIS THR ARG SEQRES 27 B 350 GLY ARG ALA GLY LYS ARG ARG ILE ARG ARG VAL ALA MODRES 1X7D MSE A 10 MET SELENOMETHIONINE MODRES 1X7D MSE A 58 MET SELENOMETHIONINE MODRES 1X7D MSE A 86 MET SELENOMETHIONINE MODRES 1X7D MSE A 119 MET SELENOMETHIONINE MODRES 1X7D MSE A 132 MET SELENOMETHIONINE MODRES 1X7D MSE A 215 MET SELENOMETHIONINE MODRES 1X7D MSE A 220 MET SELENOMETHIONINE MODRES 1X7D MSE A 316 MET SELENOMETHIONINE MODRES 1X7D MSE B 10 MET SELENOMETHIONINE MODRES 1X7D MSE B 58 MET SELENOMETHIONINE MODRES 1X7D MSE B 86 MET SELENOMETHIONINE MODRES 1X7D MSE B 119 MET SELENOMETHIONINE MODRES 1X7D MSE B 132 MET SELENOMETHIONINE MODRES 1X7D MSE B 215 MET SELENOMETHIONINE MODRES 1X7D MSE B 220 MET SELENOMETHIONINE MODRES 1X7D MSE B 316 MET SELENOMETHIONINE HET MSE A 10 8 HET MSE A 58 8 HET MSE A 86 8 HET MSE A 119 8 HET MSE A 132 8 HET MSE A 215 8 HET MSE A 220 8 HET MSE A 316 8 HET MSE B 10 8 HET MSE B 58 8 HET MSE B 86 8 HET MSE B 119 8 HET MSE B 132 8 HET MSE B 215 8 HET MSE B 220 8 HET MSE B 316 8 HET NA A1501 1 HET NAD A1302 44 HET ORN A1101 18 HET ORN A1102 18 HET MPD A1401 8 HET MPD A1402 8 HET MPD A1403 8 HET MPD A1404 8 HET NA B1502 1 HET NAD B1301 44 HET MES B3158 12 HET MPD B1405 8 HET MPD B1406 8 HETNAM MSE SELENOMETHIONINE HETNAM NA SODIUM ION HETNAM NAD NICOTINAMIDE-ADENINE-DINUCLEOTIDE HETNAM ORN L-ORNITHINE HETNAM MPD (4S)-2-METHYL-2,4-PENTANEDIOL HETNAM MES 2-(N-MORPHOLINO)-ETHANESULFONIC ACID FORMUL 1 MSE 16(C5 H11 N O2 SE) FORMUL 3 NA 2(NA 1+) FORMUL 4 NAD 2(C21 H27 N7 O14 P2) FORMUL 5 ORN 2(C5 H12 N2 O2) FORMUL 7 MPD 6(C6 H14 O2) FORMUL 13 MES C6 H13 N O4 S FORMUL 16 HOH *828(H2 O) HELIX 1 1 ASP A 6 GLY A 18 1 13 HELIX 2 2 GLY A 18 ARG A 36 1 19 HELIX 3 3 TRP A 37 PHE A 40 5 4 HELIX 4 4 PRO A 75 ASN A 81 5 7 HELIX 5 5 LEU A 105 ALA A 125 1 21 HELIX 6 6 GLN A 140 LEU A 152 1 13 HELIX 7 7 ASP A 163 LYS A 175 1 13 HELIX 8 8 SER A 187 LYS A 193 1 7 HELIX 9 9 THR A 212 LEU A 216 5 5 HELIX 10 10 HIS A 236 ASN A 242 1 7 HELIX 11 11 TYR A 249 GLY A 257 1 9 HELIX 12 12 GLU A 258 LEU A 262 5 5 HELIX 13 13 LEU A 271 ARG A 276 1 6 HELIX 14 14 PHE A 296 LYS A 313 1 18 HELIX 15 15 LEU A 333 ARG A 338 5 6 HELIX 16 16 ASP B 6 GLY B 18 1 13 HELIX 17 17 GLY B 18 ARG B 36 1 19 HELIX 18 18 TRP B 37 PHE B 40 5 4 HELIX 19 19 PRO B 75 ASN B 81 5 7 HELIX 20 20 LEU B 105 ALA B 125 1 21 HELIX 21 21 GLN B 140 LEU B 152 1 13 HELIX 22 22 ASP B 163 LYS B 175 1 13 HELIX 23 23 SER B 187 LYS B 193 1 7 HELIX 24 24 THR B 212 LEU B 216 5 5 HELIX 25 25 HIS B 236 ASN B 242 1 7 HELIX 26 26 TYR B 249 GLY B 257 1 9 HELIX 27 27 GLU B 258 LEU B 262 5 5 HELIX 28 28 LEU B 271 ARG B 276 1 6 HELIX 29 29 PHE B 296 GLY B 315 1 20 HELIX 30 30 ASP B 332 GLY B 339 5 8 SHEET 1 A 7 VAL A 46 HIS A 49 0 SHEET 2 A 7 VAL A 54 ALA A 61 -1 O ILE A 55 N SER A 48 SHEET 3 A 7 ARG A 65 GLY A 73 -1 O VAL A 71 N GLU A 56 SHEET 4 A 7 VAL A 85 ASP A 93 -1 O ALA A 92 N TYR A 66 SHEET 5 A 7 PRO A 99 GLU A 104 -1 O SER A 103 N GLY A 89 SHEET 6 A 7 TYR A 3 ILE A 5 1 N TYR A 3 O LEU A 102 SHEET 7 A 7 THR A 318 LYS A 319 -1 O THR A 318 N PHE A 4 SHEET 1 B 8 THR A 181 ARG A 184 0 SHEET 2 B 8 GLU A 156 TYR A 160 1 N ILE A 157 O THR A 181 SHEET 3 B 8 LYS A 131 ILE A 135 1 N MSE A 132 O GLU A 156 SHEET 4 B 8 ILE A 197 THR A 200 1 O THR A 199 N ALA A 133 SHEET 5 B 8 HIS A 221 ALA A 224 1 O ASN A 223 N ILE A 198 SHEET 6 B 8 THR A 289 ASP A 292 1 O PHE A 291 N LEU A 222 SHEET 7 B 8 ARG A 244 VAL A 247 1 N PHE A 246 O VAL A 290 SHEET 8 B 8 VAL A 269 ASP A 270 1 O VAL A 269 N VAL A 245 SHEET 1 C 2 TYR A 207 ILE A 211 0 SHEET 2 C 2 THR A 233 LEU A 235 1 O THR A 233 N ALA A 208 SHEET 1 D 7 VAL B 46 HIS B 49 0 SHEET 2 D 7 VAL B 54 ALA B 61 -1 O ILE B 55 N SER B 48 SHEET 3 D 7 ARG B 65 GLY B 73 -1 O VAL B 71 N GLU B 56 SHEET 4 D 7 VAL B 85 ASP B 93 -1 O ALA B 92 N TYR B 66 SHEET 5 D 7 PRO B 99 GLU B 104 -1 O SER B 103 N GLY B 89 SHEET 6 D 7 TYR B 3 ILE B 5 1 N TYR B 3 O LEU B 102 SHEET 7 D 7 THR B 318 LYS B 319 -1 O THR B 318 N PHE B 4 SHEET 1 E 8 THR B 181 ARG B 184 0 SHEET 2 E 8 GLU B 156 TYR B 160 1 N ILE B 157 O THR B 181 SHEET 3 E 8 LYS B 131 ILE B 135 1 N MSE B 132 O GLU B 156 SHEET 4 E 8 ILE B 197 THR B 200 1 O THR B 199 N ALA B 133 SHEET 5 E 8 HIS B 221 ALA B 224 1 O ASN B 223 N ILE B 198 SHEET 6 E 8 THR B 289 ASP B 292 1 O PHE B 291 N LEU B 222 SHEET 7 E 8 ARG B 244 VAL B 247 1 N PHE B 246 O VAL B 290 SHEET 8 E 8 VAL B 269 ASP B 270 1 O VAL B 269 N VAL B 245 SHEET 1 F 2 TYR B 207 ILE B 211 0 SHEET 2 F 2 THR B 233 LEU B 235 1 O GLU B 234 N ILE B 211 LINK C THR A 9 N MSE A 10 1555 1555 1.33 LINK C MSE A 10 N SER A 11 1555 1555 1.33 LINK C LEU A 57 N MSE A 58 1555 1555 1.33 LINK C MSE A 58 N PRO A 59 1555 1555 1.34 LINK C VAL A 85 N MSE A 86 1555 1555 1.33 LINK C MSE A 86 N ALA A 87 1555 1555 1.33 LINK C LEU A 118 N MSE A 119 1555 1555 1.33 LINK C MSE A 119 N ALA A 120 1555 1555 1.33 LINK C LYS A 131 N MSE A 132 1555 1555 1.33 LINK C MSE A 132 N ALA A 133 1555 1555 1.33 LINK C ASP A 214 N MSE A 215 1555 1555 1.33 LINK C MSE A 215 N LEU A 216 1555 1555 1.33 LINK C GLY A 219 N MSE A 220 1555 1555 1.33 LINK C MSE A 220 N HIS A 221 1555 1555 1.33 LINK C GLY A 315 N MSE A 316 1555 1555 1.33 LINK C MSE A 316 N GLY A 317 1555 1555 1.33 LINK C THR B 9 N MSE B 10 1555 1555 1.33 LINK C MSE B 10 N SER B 11 1555 1555 1.33 LINK C LEU B 57 N MSE B 58 1555 1555 1.33 LINK C MSE B 58 N PRO B 59 1555 1555 1.34 LINK C VAL B 85 N MSE B 86 1555 1555 1.33 LINK C MSE B 86 N ALA B 87 1555 1555 1.33 LINK C LEU B 118 N MSE B 119 1555 1555 1.33 LINK C MSE B 119 N ALA B 120 1555 1555 1.33 LINK C LYS B 131 N MSE B 132 1555 1555 1.33 LINK C MSE B 132 N ALA B 133 1555 1555 1.33 LINK C ASP B 214 N MSE B 215 1555 1555 1.33 LINK C MSE B 215 N LEU B 216 1555 1555 1.33 LINK C GLY B 219 N MSE B 220 1555 1555 1.33 LINK C MSE B 220 N HIS B 221 1555 1555 1.33 LINK C GLY B 315 N MSE B 316 1555 1555 1.33 LINK C MSE B 316 N GLY B 317 1555 1555 1.33 LINK O ALA A 224 NA NA A1501 1555 1555 2.55 LINK O GLY A 227 NA NA A1501 1555 1555 2.43 LINK O SER A 293 NA NA A1501 1555 1555 2.39 LINK NA NA A1501 O HOH A1513 1555 1555 2.55 LINK NA NA A1501 O HOH A1879 1555 1555 2.57 LINK O ALA B 224 NA NA B1502 1555 1555 2.57 LINK O GLY B 227 NA NA B1502 1555 1555 2.47 LINK O SER B 293 NA NA B1502 1555 1555 2.41 LINK NA NA B1502 O HOH B3176 1555 1555 2.61 LINK NA NA B1502 O HOH B3315 1555 1555 2.64 SITE 1 AC1 6 ALA A 224 VAL A 225 GLY A 227 SER A 293 SITE 2 AC1 6 HOH A1513 HOH A1879 SITE 1 AC2 6 ALA B 224 VAL B 225 GLY B 227 SER B 293 SITE 2 AC2 6 HOH B3176 HOH B3315 SITE 1 AC3 31 LYS A 331 ORN A1102 HOH A1516 HOH A1668 SITE 2 AC3 31 THR B 84 ARG B 112 THR B 113 GLY B 138 SITE 3 AC3 31 ALA B 139 GLN B 140 ASP B 161 THR B 162 SITE 4 AC3 31 VAL B 201 THR B 202 ALA B 203 ILE B 210 SITE 5 AC3 31 VAL B 225 GLY B 226 ASP B 228 LYS B 232 SITE 6 AC3 31 SER B 293 VAL B 294 GLY B 295 HOH B3165 SITE 7 AC3 31 HOH B3166 HOH B3170 HOH B3209 HOH B3223 SITE 8 AC3 31 HOH B3323 HOH B3387 HOH B3538 SITE 1 AC4 31 THR A 84 ARG A 112 THR A 113 GLY A 138 SITE 2 AC4 31 ALA A 139 GLN A 140 ASP A 161 THR A 162 SITE 3 AC4 31 VAL A 201 THR A 202 ALA A 203 ILE A 210 SITE 4 AC4 31 VAL A 225 GLY A 226 ASP A 228 LYS A 232 SITE 5 AC4 31 SER A 293 VAL A 294 GLY A 295 ORN A1101 SITE 6 AC4 31 HOH A1503 HOH A1504 HOH A1512 HOH A1519 SITE 7 AC4 31 HOH A1559 HOH A1598 HOH A1610 HOH A1686 SITE 8 AC4 31 HOH A1695 HOH A1801 LYS B 331 SITE 1 AC5 16 ARG A 45 VAL A 54 GLU A 56 LYS A 69 SITE 2 AC5 16 VAL A 71 ASN A 72 GLY A 73 VAL A 85 SITE 3 AC5 16 ARG A 112 ASP A 228 VAL A 294 GLY A 295 SITE 4 AC5 16 NAD A1302 HOH A1558 HOH A1642 HOH A1695 SITE 1 AC6 15 HOH A1611 ARG B 45 VAL B 54 GLU B 56 SITE 2 AC6 15 MSE B 58 LYS B 69 ASN B 72 GLY B 73 SITE 3 AC6 15 VAL B 85 ARG B 112 ASP B 228 VAL B 294 SITE 4 AC6 15 GLY B 295 NAD B1301 HOH B3207 SITE 1 AC7 9 GLN A 283 SER A 284 GLN A 287 ARG A 338 SITE 2 AC7 9 HOH A1793 HIS B 15 GLU B 176 TYR B 177 SITE 3 AC7 9 HOH B3259 SITE 1 AC8 6 GLN A 38 ALA A 39 PHE A 40 ASP A 62 SITE 2 AC8 6 LYS A 63 MPD A1402 SITE 1 AC9 7 GLN A 38 ALA A 39 MPD A1401 LEU B 216 SITE 2 AC9 7 ASN B 242 SER B 286 HOH B3440 SITE 1 BC1 6 SER A 64 ARG A 65 LEU A 91 ASP A 93 SITE 2 BC1 6 VAL A 100 HOH A1592 SITE 1 BC2 4 TYR A 3 ALA A 311 GLU A 312 MSE A 316 SITE 1 BC3 5 TYR B 3 ALA B 311 GLU B 312 GLY B 315 SITE 2 BC3 5 MSE B 316 SITE 1 BC4 8 SER B 64 ARG B 65 ALA B 92 ASP B 93 SITE 2 BC4 8 VAL B 100 LEU B 308 HOH B3267 HOH B3513 CRYST1 69.880 78.620 119.940 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 0.014310 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012719 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008338 0.00000