HEADER HYDROLASE 01-AUG-06 2DVY TITLE CRYSTAL STRUCTURE OF RESTRICTION ENDONUCLEASES PABI COMPND MOL_ID: 1; COMPND 2 MOLECULE: RESTRICTION ENDONUCLEASE PABI; COMPND 3 CHAIN: A, B, C, D, E, F; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PYROCOCCUS ABYSSI; SOURCE 3 ORGANISM_TAXID: 29292; SOURCE 4 OTHER_DETAILS: WHEAT-GERM-BASED CELL-FREE PROTEIN SYNTHESIS SYSTEM KEYWDS RESTRICTION ENDONUCLEASE, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR K.MIYAZONO,M.WATANABE,M.KAMO,T.SAWASAKI,K.NAGATA,Y.ENDO,M.TANOKURA, AUTHOR 2 I.KOBAYASHI REVDAT 4 13-MAR-24 2DVY 1 REMARK REVDAT 3 11-OCT-17 2DVY 1 REMARK REVDAT 2 24-FEB-09 2DVY 1 VERSN REVDAT 1 08-MAY-07 2DVY 0 JRNL AUTH K.MIYAZONO,M.WATANABE,J.KOSINSKI,K.ISHIKAWA,M.KAMO, JRNL AUTH 2 T.SAWASAKI,K.NAGATA,J.M.BUJNICKI,Y.ENDO,M.TANOKURA, JRNL AUTH 3 I.KOBAYASHI JRNL TITL NOVEL PROTEIN FOLD DISCOVERED IN THE PABI FAMILY OF JRNL TITL 2 RESTRICTION ENZYMES JRNL REF NUCLEIC ACIDS RES. V. 35 1908 2007 JRNL REFN ISSN 0305-1048 JRNL PMID 17332011 JRNL DOI 10.1093/NAR/GKM091 REMARK 2 REMARK 2 RESOLUTION. 3.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.1 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 1513632.660 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 30318 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) : 0.247 REMARK 3 FREE R VALUE : 0.318 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.000 REMARK 3 FREE R VALUE TEST SET COUNT : 3044 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.006 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) : 3.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 3.19 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.40 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 4500 REMARK 3 BIN R VALUE (WORKING SET) : 0.3420 REMARK 3 BIN FREE R VALUE : 0.4060 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 10.30 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 519 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.018 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 10623 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 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) : 66.50 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 5.63000 REMARK 3 B22 (A**2) : -1.41000 REMARK 3 B33 (A**2) : -4.22000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 16.84000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.42 REMARK 3 ESD FROM SIGMAA (A) : 0.44 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) : 0.58 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.61 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.009 REMARK 3 BOND ANGLES (DEGREES) : 1.500 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 24.50 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.890 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : RESTRAINED REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.31 REMARK 3 BSOL : 31.23 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 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2DVY COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 02-AUG-06. REMARK 100 THE DEPOSITION ID IS D_1000025909. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 95 REMARK 200 PH : 6.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PHOTON FACTORY REMARK 200 BEAMLINE : BL-5A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.000 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO, HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 30368 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.000 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 200 DATA REDUNDANCY : 3.600 REMARK 200 R MERGE (I) : 0.06700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 14.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.11 REMARK 200 COMPLETENESS FOR SHELL (%) : 96.7 REMARK 200 DATA REDUNDANCY IN SHELL : 3.40 REMARK 200 R MERGE FOR SHELL (I) : 0.28300 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: SAD REMARK 200 SOFTWARE USED: SHARP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.27 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.47 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 5% PEG 6000, 0.1M MES, PH 6.0, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 56.97800 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3, 4 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: 3230 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 22230 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -21.0 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 350 REMARK 350 BIOMOLECULE: 2 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: 3220 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 21850 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -17.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, D REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 3 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: 3250 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 21820 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -20.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: E, F REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 4 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 9340 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 41190 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -42.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D 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 224 REMARK 465 THR A 225 REMARK 465 SER A 226 REMARK 465 MET B 1 REMARK 465 ILE B 2 REMARK 465 HIS B 3 REMARK 465 LEU B 4 REMARK 465 THR B 5 REMARK 465 SER B 6 REMARK 465 LYS B 154 REMARK 465 GLN B 155 REMARK 465 ARG B 156 REMARK 465 ALA B 157 REMARK 465 SER B 226 REMARK 465 LYS C 154 REMARK 465 GLN C 155 REMARK 465 ARG C 156 REMARK 465 ALA C 157 REMARK 465 VAL C 158 REMARK 465 GLY C 224 REMARK 465 THR C 225 REMARK 465 SER C 226 REMARK 465 MET D 1 REMARK 465 ILE D 2 REMARK 465 HIS D 3 REMARK 465 LEU D 4 REMARK 465 THR D 5 REMARK 465 SER D 6 REMARK 465 VAL D 7 REMARK 465 ILE D 222 REMARK 465 ILE D 223 REMARK 465 GLY D 224 REMARK 465 THR D 225 REMARK 465 SER D 226 REMARK 465 GLY E 224 REMARK 465 THR E 225 REMARK 465 SER E 226 REMARK 465 MET F 1 REMARK 465 ILE F 2 REMARK 465 HIS F 3 REMARK 465 LEU F 4 REMARK 465 THR F 5 REMARK 465 SER F 6 REMARK 465 VAL F 7 REMARK 465 HIS F 153 REMARK 465 LYS F 154 REMARK 465 GLN F 155 REMARK 465 ARG F 156 REMARK 465 ALA F 157 REMARK 465 GLY F 224 REMARK 465 THR F 225 REMARK 465 SER F 226 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 23 C - N - CA ANGL. DEV. = 10.3 DEGREES REMARK 500 PRO E 23 C - N - CA ANGL. DEV. = 9.6 DEGREES REMARK 500 PRO F 23 C - N - CA ANGL. DEV. = 10.8 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 ASN A 15 55.33 18.77 REMARK 500 ARG A 32 168.81 163.48 REMARK 500 ASN A 38 54.85 74.87 REMARK 500 THR A 46 -8.40 -51.52 REMARK 500 ASP A 54 -44.82 138.69 REMARK 500 GLU A 55 26.86 -57.53 REMARK 500 ASN A 56 2.06 157.84 REMARK 500 ALA A 69 126.73 178.05 REMARK 500 ASP A 71 91.48 -165.22 REMARK 500 ASP A 75 32.28 -144.19 REMARK 500 GLU A 77 -105.99 34.61 REMARK 500 LEU A 84 -70.92 -52.14 REMARK 500 ASP A 105 50.32 -93.79 REMARK 500 LYS A 107 19.25 -158.11 REMARK 500 TYR A 125 42.84 35.71 REMARK 500 LYS A 139 136.69 -173.66 REMARK 500 LYS A 154 100.56 -30.25 REMARK 500 GLN A 155 -78.23 -17.55 REMARK 500 ARG A 156 42.05 -104.46 REMARK 500 ALA A 157 -175.48 176.09 REMARK 500 PRO A 175 -158.77 -74.43 REMARK 500 LEU A 177 8.13 -64.03 REMARK 500 ARG A 180 -159.93 -136.74 REMARK 500 ARG A 184 -53.97 -14.72 REMARK 500 SER A 208 142.42 -178.25 REMARK 500 ILE A 222 8.99 -66.85 REMARK 500 PRO B 23 -71.58 -46.04 REMARK 500 ILE B 24 13.47 58.63 REMARK 500 SER B 29 32.78 -62.96 REMARK 500 LYS B 30 -33.69 -135.90 REMARK 500 ILE B 31 94.66 -160.62 REMARK 500 ASN B 38 -55.27 -158.33 REMARK 500 PRO B 43 152.69 -45.75 REMARK 500 LYS B 48 -78.05 -103.31 REMARK 500 ASP B 54 -147.35 -110.87 REMARK 500 GLU B 55 20.03 -71.72 REMARK 500 LEU B 57 -22.77 -34.55 REMARK 500 GLN B 65 93.49 -68.75 REMARK 500 ASP B 71 -13.71 63.37 REMARK 500 ASP B 75 36.58 -147.62 REMARK 500 GLU B 77 -103.63 49.69 REMARK 500 THR B 92 160.59 -47.62 REMARK 500 GLU B 111 -14.43 -48.49 REMARK 500 ASN B 121 46.47 -76.93 REMARK 500 TYR B 125 32.99 32.99 REMARK 500 LYS B 139 118.48 -174.94 REMARK 500 LEU B 170 -39.66 -36.96 REMARK 500 ALA B 178 126.15 -33.24 REMARK 500 ARG B 184 -69.16 -21.57 REMARK 500 VAL B 194 -26.57 -39.17 REMARK 500 REMARK 500 THIS ENTRY HAS 180 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL DBREF 2DVY A 1 226 UNP Q9V2B6 Q9V2B6_PYRAB 1 226 DBREF 2DVY B 1 226 UNP Q9V2B6 Q9V2B6_PYRAB 1 226 DBREF 2DVY C 1 226 UNP Q9V2B6 Q9V2B6_PYRAB 1 226 DBREF 2DVY D 1 226 UNP Q9V2B6 Q9V2B6_PYRAB 1 226 DBREF 2DVY E 1 226 UNP Q9V2B6 Q9V2B6_PYRAB 1 226 DBREF 2DVY F 1 226 UNP Q9V2B6 Q9V2B6_PYRAB 1 226 SEQRES 1 A 226 MET ILE HIS LEU THR SER VAL GLU ALA SER VAL SER PHE SEQRES 2 A 226 GLU ASN GLY LYS ILE VAL VAL ARG LEU PRO ILE THR ARG SEQRES 3 A 226 PRO THR SER LYS ILE ARG VAL LYS LYS ILE GLU ASN GLY SEQRES 4 A 226 VAL GLY ILE PRO VAL SER THR ARG LYS LYS SER PHE PRO SEQRES 5 A 226 SER ASP GLU ASN LEU ARG ASP TYR TYR ILE GLU TRP GLN SEQRES 6 A 226 ILE SER TYR ALA ARG ASP GLY LYS TYR ASP TYR GLU LEU SEQRES 7 A 226 SER ARG MET VAL ARG LEU ALA HIS GLU HIS GLY ILE LEU SEQRES 8 A 226 THR TYR ASN ASP ILE TYR GLU LEU LEU LYS PHE ALA ASP SEQRES 9 A 226 ASP VAL LYS SER TYR LEU GLU ASP LYS GLY ILE ARG ARG SEQRES 10 A 226 GLU SER THR ASN GLU GLU LEU TYR GLY PHE ASN ILE TYR SEQRES 11 A 226 GLU ASP VAL TYR PRO VAL ALA LYS LYS GLU LEU PRO SER SEQRES 12 A 226 GLY GLU PHE ILE GLY ILE VAL LEU LYS HIS LYS GLN ARG SEQRES 13 A 226 ALA VAL GLY TYR GLN SER MET VAL TYR VAL CYS ILE PRO SEQRES 14 A 226 LEU THR ASN VAL GLU PRO SER LEU ALA GLY ARG VAL ALA SEQRES 15 A 226 ARG ARG ASN GLU VAL VAL LYS TYR GLU VAL PRO VAL ASP SEQRES 16 A 226 LEU MET LYS GLU LEU LEU LYS ALA PHE ILE ILE ALA SER SEQRES 17 A 226 GLU THR HIS LYS ASN ASP ILE VAL LYS PHE LEU ARG SER SEQRES 18 A 226 ILE ILE GLY THR SER SEQRES 1 B 226 MET ILE HIS LEU THR SER VAL GLU ALA SER VAL SER PHE SEQRES 2 B 226 GLU ASN GLY LYS ILE VAL VAL ARG LEU PRO ILE THR ARG SEQRES 3 B 226 PRO THR SER LYS ILE ARG VAL LYS LYS ILE GLU ASN GLY SEQRES 4 B 226 VAL GLY ILE PRO VAL SER THR ARG LYS LYS SER PHE PRO SEQRES 5 B 226 SER ASP GLU ASN LEU ARG ASP TYR TYR ILE GLU TRP GLN SEQRES 6 B 226 ILE SER TYR ALA ARG ASP GLY LYS TYR ASP TYR GLU LEU SEQRES 7 B 226 SER ARG MET VAL ARG LEU ALA HIS GLU HIS GLY ILE LEU SEQRES 8 B 226 THR TYR ASN ASP ILE TYR GLU LEU LEU LYS PHE ALA ASP SEQRES 9 B 226 ASP VAL LYS SER TYR LEU GLU ASP LYS GLY ILE ARG ARG SEQRES 10 B 226 GLU SER THR ASN GLU GLU LEU TYR GLY PHE ASN ILE TYR SEQRES 11 B 226 GLU ASP VAL TYR PRO VAL ALA LYS LYS GLU LEU PRO SER SEQRES 12 B 226 GLY GLU PHE ILE GLY ILE VAL LEU LYS HIS LYS GLN ARG SEQRES 13 B 226 ALA VAL GLY TYR GLN SER MET VAL TYR VAL CYS ILE PRO SEQRES 14 B 226 LEU THR ASN VAL GLU PRO SER LEU ALA GLY ARG VAL ALA SEQRES 15 B 226 ARG ARG ASN GLU VAL VAL LYS TYR GLU VAL PRO VAL ASP SEQRES 16 B 226 LEU MET LYS GLU LEU LEU LYS ALA PHE ILE ILE ALA SER SEQRES 17 B 226 GLU THR HIS LYS ASN ASP ILE VAL LYS PHE LEU ARG SER SEQRES 18 B 226 ILE ILE GLY THR SER SEQRES 1 C 226 MET ILE HIS LEU THR SER VAL GLU ALA SER VAL SER PHE SEQRES 2 C 226 GLU ASN GLY LYS ILE VAL VAL ARG LEU PRO ILE THR ARG SEQRES 3 C 226 PRO THR SER LYS ILE ARG VAL LYS LYS ILE GLU ASN GLY SEQRES 4 C 226 VAL GLY ILE PRO VAL SER THR ARG LYS LYS SER PHE PRO SEQRES 5 C 226 SER ASP GLU ASN LEU ARG ASP TYR TYR ILE GLU TRP GLN SEQRES 6 C 226 ILE SER TYR ALA ARG ASP GLY LYS TYR ASP TYR GLU LEU SEQRES 7 C 226 SER ARG MET VAL ARG LEU ALA HIS GLU HIS GLY ILE LEU SEQRES 8 C 226 THR TYR ASN ASP ILE TYR GLU LEU LEU LYS PHE ALA ASP SEQRES 9 C 226 ASP VAL LYS SER TYR LEU GLU ASP LYS GLY ILE ARG ARG SEQRES 10 C 226 GLU SER THR ASN GLU GLU LEU TYR GLY PHE ASN ILE TYR SEQRES 11 C 226 GLU ASP VAL TYR PRO VAL ALA LYS LYS GLU LEU PRO SER SEQRES 12 C 226 GLY GLU PHE ILE GLY ILE VAL LEU LYS HIS LYS GLN ARG SEQRES 13 C 226 ALA VAL GLY TYR GLN SER MET VAL TYR VAL CYS ILE PRO SEQRES 14 C 226 LEU THR ASN VAL GLU PRO SER LEU ALA GLY ARG VAL ALA SEQRES 15 C 226 ARG ARG ASN GLU VAL VAL LYS TYR GLU VAL PRO VAL ASP SEQRES 16 C 226 LEU MET LYS GLU LEU LEU LYS ALA PHE ILE ILE ALA SER SEQRES 17 C 226 GLU THR HIS LYS ASN ASP ILE VAL LYS PHE LEU ARG SER SEQRES 18 C 226 ILE ILE GLY THR SER SEQRES 1 D 226 MET ILE HIS LEU THR SER VAL GLU ALA SER VAL SER PHE SEQRES 2 D 226 GLU ASN GLY LYS ILE VAL VAL ARG LEU PRO ILE THR ARG SEQRES 3 D 226 PRO THR SER LYS ILE ARG VAL LYS LYS ILE GLU ASN GLY SEQRES 4 D 226 VAL GLY ILE PRO VAL SER THR ARG LYS LYS SER PHE PRO SEQRES 5 D 226 SER ASP GLU ASN LEU ARG ASP TYR TYR ILE GLU TRP GLN SEQRES 6 D 226 ILE SER TYR ALA ARG ASP GLY LYS TYR ASP TYR GLU LEU SEQRES 7 D 226 SER ARG MET VAL ARG LEU ALA HIS GLU HIS GLY ILE LEU SEQRES 8 D 226 THR TYR ASN ASP ILE TYR GLU LEU LEU LYS PHE ALA ASP SEQRES 9 D 226 ASP VAL LYS SER TYR LEU GLU ASP LYS GLY ILE ARG ARG SEQRES 10 D 226 GLU SER THR ASN GLU GLU LEU TYR GLY PHE ASN ILE TYR SEQRES 11 D 226 GLU ASP VAL TYR PRO VAL ALA LYS LYS GLU LEU PRO SER SEQRES 12 D 226 GLY GLU PHE ILE GLY ILE VAL LEU LYS HIS LYS GLN ARG SEQRES 13 D 226 ALA VAL GLY TYR GLN SER MET VAL TYR VAL CYS ILE PRO SEQRES 14 D 226 LEU THR ASN VAL GLU PRO SER LEU ALA GLY ARG VAL ALA SEQRES 15 D 226 ARG ARG ASN GLU VAL VAL LYS TYR GLU VAL PRO VAL ASP SEQRES 16 D 226 LEU MET LYS GLU LEU LEU LYS ALA PHE ILE ILE ALA SER SEQRES 17 D 226 GLU THR HIS LYS ASN ASP ILE VAL LYS PHE LEU ARG SER SEQRES 18 D 226 ILE ILE GLY THR SER SEQRES 1 E 226 MET ILE HIS LEU THR SER VAL GLU ALA SER VAL SER PHE SEQRES 2 E 226 GLU ASN GLY LYS ILE VAL VAL ARG LEU PRO ILE THR ARG SEQRES 3 E 226 PRO THR SER LYS ILE ARG VAL LYS LYS ILE GLU ASN GLY SEQRES 4 E 226 VAL GLY ILE PRO VAL SER THR ARG LYS LYS SER PHE PRO SEQRES 5 E 226 SER ASP GLU ASN LEU ARG ASP TYR TYR ILE GLU TRP GLN SEQRES 6 E 226 ILE SER TYR ALA ARG ASP GLY LYS TYR ASP TYR GLU LEU SEQRES 7 E 226 SER ARG MET VAL ARG LEU ALA HIS GLU HIS GLY ILE LEU SEQRES 8 E 226 THR TYR ASN ASP ILE TYR GLU LEU LEU LYS PHE ALA ASP SEQRES 9 E 226 ASP VAL LYS SER TYR LEU GLU ASP LYS GLY ILE ARG ARG SEQRES 10 E 226 GLU SER THR ASN GLU GLU LEU TYR GLY PHE ASN ILE TYR SEQRES 11 E 226 GLU ASP VAL TYR PRO VAL ALA LYS LYS GLU LEU PRO SER SEQRES 12 E 226 GLY GLU PHE ILE GLY ILE VAL LEU LYS HIS LYS GLN ARG SEQRES 13 E 226 ALA VAL GLY TYR GLN SER MET VAL TYR VAL CYS ILE PRO SEQRES 14 E 226 LEU THR ASN VAL GLU PRO SER LEU ALA GLY ARG VAL ALA SEQRES 15 E 226 ARG ARG ASN GLU VAL VAL LYS TYR GLU VAL PRO VAL ASP SEQRES 16 E 226 LEU MET LYS GLU LEU LEU LYS ALA PHE ILE ILE ALA SER SEQRES 17 E 226 GLU THR HIS LYS ASN ASP ILE VAL LYS PHE LEU ARG SER SEQRES 18 E 226 ILE ILE GLY THR SER SEQRES 1 F 226 MET ILE HIS LEU THR SER VAL GLU ALA SER VAL SER PHE SEQRES 2 F 226 GLU ASN GLY LYS ILE VAL VAL ARG LEU PRO ILE THR ARG SEQRES 3 F 226 PRO THR SER LYS ILE ARG VAL LYS LYS ILE GLU ASN GLY SEQRES 4 F 226 VAL GLY ILE PRO VAL SER THR ARG LYS LYS SER PHE PRO SEQRES 5 F 226 SER ASP GLU ASN LEU ARG ASP TYR TYR ILE GLU TRP GLN SEQRES 6 F 226 ILE SER TYR ALA ARG ASP GLY LYS TYR ASP TYR GLU LEU SEQRES 7 F 226 SER ARG MET VAL ARG LEU ALA HIS GLU HIS GLY ILE LEU SEQRES 8 F 226 THR TYR ASN ASP ILE TYR GLU LEU LEU LYS PHE ALA ASP SEQRES 9 F 226 ASP VAL LYS SER TYR LEU GLU ASP LYS GLY ILE ARG ARG SEQRES 10 F 226 GLU SER THR ASN GLU GLU LEU TYR GLY PHE ASN ILE TYR SEQRES 11 F 226 GLU ASP VAL TYR PRO VAL ALA LYS LYS GLU LEU PRO SER SEQRES 12 F 226 GLY GLU PHE ILE GLY ILE VAL LEU LYS HIS LYS GLN ARG SEQRES 13 F 226 ALA VAL GLY TYR GLN SER MET VAL TYR VAL CYS ILE PRO SEQRES 14 F 226 LEU THR ASN VAL GLU PRO SER LEU ALA GLY ARG VAL ALA SEQRES 15 F 226 ARG ARG ASN GLU VAL VAL LYS TYR GLU VAL PRO VAL ASP SEQRES 16 F 226 LEU MET LYS GLU LEU LEU LYS ALA PHE ILE ILE ALA SER SEQRES 17 F 226 GLU THR HIS LYS ASN ASP ILE VAL LYS PHE LEU ARG SER SEQRES 18 F 226 ILE ILE GLY THR SER HELIX 1 1 ASN A 56 ARG A 58 5 3 HELIX 2 2 TYR A 76 HIS A 88 1 13 HELIX 3 3 THR A 92 ASP A 105 1 14 HELIX 4 4 TYR A 109 GLY A 114 1 6 HELIX 5 5 THR A 171 VAL A 173 5 3 HELIX 6 6 PRO A 193 ILE A 206 1 14 HELIX 7 7 SER A 208 ILE A 222 1 15 HELIX 8 8 GLU B 77 HIS B 88 1 12 HELIX 9 9 THR B 92 VAL B 106 1 15 HELIX 10 10 TYR B 109 LYS B 113 5 5 HELIX 11 11 THR B 171 VAL B 173 5 3 HELIX 12 12 PRO B 193 SER B 208 1 16 HELIX 13 13 SER B 208 ILE B 223 1 16 HELIX 14 14 GLU C 37 VAL C 40 5 4 HELIX 15 15 ASN C 56 ARG C 58 5 3 HELIX 16 16 GLU C 77 HIS C 88 1 12 HELIX 17 17 THR C 92 VAL C 106 1 15 HELIX 18 18 TYR C 109 GLY C 114 1 6 HELIX 19 19 THR C 171 VAL C 173 5 3 HELIX 20 20 PRO C 193 ILE C 206 1 14 HELIX 21 21 SER C 208 ILE C 223 1 16 HELIX 22 22 GLU D 77 GLU D 87 1 11 HELIX 23 23 THR D 92 TYR D 97 1 6 HELIX 24 24 GLU D 98 ASP D 105 1 8 HELIX 25 25 TYR D 109 GLY D 114 1 6 HELIX 26 26 VAL D 194 ILE D 206 1 13 HELIX 27 27 SER D 208 ARG D 220 1 13 HELIX 28 28 GLU E 77 GLU E 87 1 11 HELIX 29 29 THR E 92 VAL E 106 1 15 HELIX 30 30 TYR E 109 GLY E 114 1 6 HELIX 31 31 THR E 171 VAL E 173 5 3 HELIX 32 32 PRO E 193 SER E 208 1 16 HELIX 33 33 SER E 208 SER E 221 1 14 HELIX 34 34 SER F 53 LEU F 57 5 5 HELIX 35 35 TYR F 76 HIS F 88 1 13 HELIX 36 36 ASN F 94 ASP F 104 1 11 HELIX 37 37 TYR F 109 GLY F 114 1 6 HELIX 38 38 PRO F 169 THR F 171 5 3 HELIX 39 39 PRO F 193 ILE F 206 1 14 HELIX 40 40 SER F 208 ILE F 222 1 15 SHEET 1 A 3 SER A 10 PHE A 13 0 SHEET 2 A 3 ILE A 18 PRO A 23 -1 O VAL A 19 N SER A 12 SHEET 3 A 3 VAL A 187 VAL A 192 -1 O VAL A 192 N ILE A 18 SHEET 1 B 8 GLY A 41 PRO A 43 0 SHEET 2 B 8 VAL A 33 ILE A 36 -1 N LYS A 35 O ILE A 42 SHEET 3 B 8 TYR A 60 TRP A 64 -1 O TYR A 61 N LYS A 34 SHEET 4 B 8 MET A 163 PRO A 169 -1 O VAL A 166 N TRP A 64 SHEET 5 B 8 PHE A 146 VAL A 150 -1 N GLY A 148 O TYR A 165 SHEET 6 B 8 PHE A 127 GLU A 140 -1 N LYS A 139 O ILE A 147 SHEET 7 B 8 PHE B 127 LYS B 138 -1 O TYR B 134 N ASP A 132 SHEET 8 B 8 ARG B 116 GLU B 118 -1 N ARG B 116 O VAL B 133 SHEET 1 C 4 ARG A 116 LEU A 124 0 SHEET 2 C 4 PHE A 127 GLU A 140 -1 O PHE A 127 N LEU A 124 SHEET 3 C 4 PHE B 127 LYS B 138 -1 O TYR B 134 N ASP A 132 SHEET 4 C 4 GLU B 123 LEU B 124 -1 N LEU B 124 O PHE B 127 SHEET 1 D 3 SER B 10 PHE B 13 0 SHEET 2 D 3 ILE B 18 LEU B 22 -1 O VAL B 19 N SER B 12 SHEET 3 D 3 VAL B 188 VAL B 192 -1 O TYR B 190 N VAL B 20 SHEET 1 E 4 GLY B 41 PRO B 43 0 SHEET 2 E 4 ILE B 31 ILE B 36 -1 N LYS B 35 O ILE B 42 SHEET 3 E 4 TYR B 60 TRP B 64 -1 O TYR B 61 N LYS B 34 SHEET 4 E 4 VAL B 166 PRO B 169 -1 O VAL B 166 N TRP B 64 SHEET 1 F 2 ILE B 149 LYS B 152 0 SHEET 2 F 2 GLN B 161 VAL B 164 -1 O MET B 163 N VAL B 150 SHEET 1 G 3 SER C 10 GLU C 14 0 SHEET 2 G 3 LYS C 17 PRO C 23 -1 O VAL C 19 N SER C 12 SHEET 3 G 3 VAL C 187 VAL C 192 -1 O VAL C 192 N ILE C 18 SHEET 1 H 5 ILE C 42 PRO C 43 0 SHEET 2 H 5 ILE C 31 LYS C 35 -1 N LYS C 35 O ILE C 42 SHEET 3 H 5 TYR C 60 GLN C 65 -1 O TYR C 61 N LYS C 34 SHEET 4 H 5 GLN C 161 PRO C 169 -1 O ILE C 168 N ILE C 62 SHEET 5 H 5 PHE C 146 LYS C 152 -1 N VAL C 150 O MET C 163 SHEET 1 I 3 ARG C 116 GLU C 118 0 SHEET 2 I 3 PHE C 127 VAL C 136 -1 O GLU C 131 N GLU C 118 SHEET 3 I 3 GLU C 123 LEU C 124 -1 N LEU C 124 O PHE C 127 SHEET 1 J 4 ARG C 116 GLU C 118 0 SHEET 2 J 4 PHE C 127 VAL C 136 -1 O GLU C 131 N GLU C 118 SHEET 3 J 4 PHE D 127 ALA D 137 -1 O TYR D 130 N VAL C 136 SHEET 4 J 4 ARG D 116 LEU D 124 -1 N LEU D 124 O PHE D 127 SHEET 1 K 4 SER D 10 SER D 12 0 SHEET 2 K 4 VAL D 19 LEU D 22 -1 O VAL D 19 N SER D 12 SHEET 3 K 4 VAL D 188 GLU D 191 -1 O TYR D 190 N VAL D 20 SHEET 4 K 4 VAL D 173 GLU D 174 -1 N GLU D 174 O LYS D 189 SHEET 1 L 4 ILE D 42 PRO D 43 0 SHEET 2 L 4 ILE D 31 LYS D 35 -1 N LYS D 35 O ILE D 42 SHEET 3 L 4 TYR D 60 TRP D 64 -1 O TYR D 61 N LYS D 34 SHEET 4 L 4 CYS D 167 PRO D 169 -1 O ILE D 168 N ILE D 62 SHEET 1 M 2 ILE D 149 HIS D 153 0 SHEET 2 M 2 TYR D 160 VAL D 164 -1 O MET D 163 N VAL D 150 SHEET 1 N 3 SER E 10 PHE E 13 0 SHEET 2 N 3 ILE E 18 LEU E 22 -1 O ARG E 21 N SER E 10 SHEET 3 N 3 VAL E 188 VAL E 192 -1 O VAL E 188 N LEU E 22 SHEET 1 O 8 GLY E 41 PRO E 43 0 SHEET 2 O 8 ILE E 31 ILE E 36 -1 N LYS E 35 O ILE E 42 SHEET 3 O 8 TYR E 60 TRP E 64 -1 O GLU E 63 N ARG E 32 SHEET 4 O 8 TYR E 160 PRO E 169 -1 O ILE E 168 N ILE E 62 SHEET 5 O 8 PHE E 146 HIS E 153 -1 N GLY E 148 O TYR E 165 SHEET 6 O 8 ASN E 128 GLU E 140 -1 N ALA E 137 O ILE E 149 SHEET 7 O 8 PHE F 127 LYS F 138 -1 O ASN F 128 N LYS E 138 SHEET 8 O 8 ARG F 116 GLU F 118 -1 N ARG F 116 O VAL F 133 SHEET 1 P 8 GLU F 123 LEU F 124 0 SHEET 2 P 8 PHE F 127 LYS F 138 -1 O PHE F 127 N LEU F 124 SHEET 3 P 8 ASN E 128 GLU E 140 -1 N LYS E 138 O ASN F 128 SHEET 4 P 8 PHE E 146 HIS E 153 -1 O ILE E 149 N ALA E 137 SHEET 5 P 8 TYR E 160 PRO E 169 -1 O TYR E 165 N GLY E 148 SHEET 6 P 8 TYR E 60 TRP E 64 -1 N ILE E 62 O ILE E 168 SHEET 7 P 8 ILE E 31 ILE E 36 -1 N ARG E 32 O GLU E 63 SHEET 8 P 8 GLY E 41 PRO E 43 -1 O ILE E 42 N LYS E 35 SHEET 1 Q 5 ARG E 116 SER E 119 0 SHEET 2 Q 5 ASN E 128 GLU E 140 -1 O VAL E 133 N ARG E 116 SHEET 3 Q 5 PHE F 127 LYS F 138 -1 O ASN F 128 N LYS E 138 SHEET 4 Q 5 PHE F 146 LYS F 152 -1 O ILE F 149 N ALA F 137 SHEET 5 Q 5 GLN F 161 CYS F 167 -1 O TYR F 165 N GLY F 148 SHEET 1 R 4 SER F 10 SER F 12 0 SHEET 2 R 4 VAL F 19 LEU F 22 -1 O VAL F 19 N SER F 12 SHEET 3 R 4 VAL F 188 GLU F 191 -1 O TYR F 190 N VAL F 20 SHEET 4 R 4 VAL F 173 GLU F 174 -1 N GLU F 174 O LYS F 189 SHEET 1 S 3 GLY F 41 PRO F 43 0 SHEET 2 S 3 ILE F 31 ILE F 36 -1 N LYS F 35 O ILE F 42 SHEET 3 S 3 TYR F 60 TRP F 64 -1 O TYR F 61 N LYS F 34 CISPEP 1 GLU A 174 PRO A 175 0 -1.74 CISPEP 2 GLU B 174 PRO B 175 0 -0.02 CISPEP 3 GLU C 174 PRO C 175 0 -0.01 CISPEP 4 GLU D 174 PRO D 175 0 5.53 CISPEP 5 GLU E 174 PRO E 175 0 3.34 CISPEP 6 GLU F 174 PRO F 175 0 0.42 CRYST1 84.570 113.956 89.173 90.00 116.23 90.00 P 1 21 1 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 0.011825 0.000000 0.005826 0.00000 SCALE2 0.000000 0.008775 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012501 0.00000