HEADER HYDROLASE 23-OCT-13 4NBI TITLE D-AMINOACYL-TRNA DEACYLASE (DTD) FROM PLASMODIUM FALCIPARUM IN COMPLEX TITLE 2 WITH D-TYROSYL-3'-AMINOADENOSINE AT 1.86 ANGSTROM RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: D-TYROSYL-TRNA(TYR) DEACYLASE; COMPND 3 CHAIN: A, B; COMPND 4 EC: 3.1.-.-; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PLASMODIUM FALCIPARUM; SOURCE 3 ORGANISM_TAXID: 36329; SOURCE 4 STRAIN: 3D7; SOURCE 5 GENE: DTD, PF11_0095; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET-21B KEYWDS DTD, DEACYLASE, DTD-LIKE, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR S.AHMAD,S.B.ROUTH,V.KAMARTHAPU,R.SANKARANARAYANAN REVDAT 2 15-NOV-17 4NBI 1 REMARK REVDAT 1 18-DEC-13 4NBI 0 JRNL AUTH S.AHMAD,S.B.ROUTH,V.KAMARTHAPU,J.CHALISSERY,S.MUTHUKUMAR, JRNL AUTH 2 T.HUSSAIN,S.P.KRUPARANI,M.V.DESHMUKH,R.SANKARANARAYANAN JRNL TITL MECHANISM OF CHIRAL PROOFREADING DURING TRANSLATION OF THE JRNL TITL 2 GENETIC CODE. JRNL REF ELIFE V. 2 01519 2013 JRNL REFN ESSN 2050-084X JRNL PMID 24302572 JRNL DOI 10.7554/ELIFE.01519 REMARK 2 REMARK 2 RESOLUTION. 1.86 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.6.0117 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.86 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 25.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.6 REMARK 3 NUMBER OF REFLECTIONS : 25154 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) : 0.169 REMARK 3 R VALUE (WORKING SET) : 0.168 REMARK 3 FREE R VALUE : 0.193 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1276 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) : 1.86 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.91 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1619 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 91.55 REMARK 3 BIN R VALUE (WORKING SET) : 0.2360 REMARK 3 BIN FREE R VALUE SET COUNT : 71 REMARK 3 BIN FREE R VALUE : 0.2600 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2593 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 72 REMARK 3 SOLVENT ATOMS : 250 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 30.67 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.71000 REMARK 3 B22 (A**2) : 0.00000 REMARK 3 B33 (A**2) : -1.77000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.58000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.155 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.127 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.082 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.651 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.967 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.956 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2693 ; 0.007 ; 0.020 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3633 ; 1.093 ; 1.982 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 311 ; 5.891 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 129 ;45.213 ;25.504 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 501 ;12.881 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 10 ;12.760 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 402 ; 0.079 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1992 ; 0.004 ; 0.020 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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 USED IF PRESENT IN REMARK 3 THE INPUT U VALUES REMARK 4 REMARK 4 4NBI COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 06-NOV-13. REMARK 100 THE DEPOSITION ID IS D_1000082993. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 21-AUG-11 REMARK 200 TEMPERATURE (KELVIN) : 100.0 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 MICROMAX-007 HF REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MAR SCANNER 345 MM PLATE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO, HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK, HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 25156 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.860 REMARK 200 RESOLUTION RANGE LOW (A) : 25.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.3 REMARK 200 DATA REDUNDANCY : 7.100 REMARK 200 R MERGE (I) : 0.07500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 24.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.86 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.93 REMARK 200 COMPLETENESS FOR SHELL (%) : 89.3 REMARK 200 DATA REDUNDANCY IN SHELL : 6.40 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: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP, PHASER REMARK 200 STARTING MODEL: 3KNF REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 38.32 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.99 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 32% PEG 3350, 0.6M SODIUM CHLORIDE, REMARK 280 0.1M HEPES, PH 7.0, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE REMARK 280 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z 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 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 41.06700 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 32.87150 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 41.06700 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 32.87150 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: 3790 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 14440 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -10.0 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 LYS A 164 REMARK 465 GLU B 18 REMARK 465 ASN B 19 REMARK 465 ILE B 20 REMARK 465 GLY B 21 REMARK 465 GLU B 22 REMARK 465 ASN B 23 REMARK 465 GLU B 24 REMARK 465 LYS B 25 REMARK 465 GLU B 26 REMARK 465 ASN B 161 REMARK 465 LEU B 162 REMARK 465 ASN B 163 REMARK 465 LYS B 164 REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 GLU A 28 CB CG CD OE1 OE2 REMARK 480 GLU A 32 CD OE1 OE2 REMARK 480 LYS A 34 CE NZ REMARK 480 LYS A 45 CE NZ REMARK 480 ASN A 69 CB CG OD1 ND2 REMARK 480 ASN B 94 CG OD1 ND2 REMARK 480 LYS B 97 CD CE NZ REMARK 480 ASP B 102 CB CG OD1 OD2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 GLU A 32 CG GLU A 32 CD -0.109 REMARK 500 ASN A 69 CA ASN A 69 CB 0.182 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 ASN A 69 N - CA - CB ANGL. DEV. = -27.7 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 LYS A 34 -135.58 -94.08 REMARK 500 ASN A 67 -113.13 -92.46 REMARK 500 TYR A 127 -109.41 -117.47 REMARK 500 LYS B 34 -134.63 -94.71 REMARK 500 PHE B 92 65.31 -110.12 REMARK 500 PHE B 103 42.05 -97.04 REMARK 500 TYR B 127 -113.51 -114.51 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 D3Y A 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PGE A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE D3Y B 201 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4NBJ RELATED DB: PDB DBREF 4NBI A 1 164 UNP Q8IIS0 Q8IIS0_PLAF7 1 164 DBREF 4NBI B 1 164 UNP Q8IIS0 Q8IIS0_PLAF7 1 164 SEQRES 1 A 164 MET ARG VAL VAL ILE GLN ARG VAL LYS GLY ALA ILE LEU SEQRES 2 A 164 SER VAL ARG LYS GLU ASN ILE GLY GLU ASN GLU LYS GLU SEQRES 3 A 164 LEU GLU ILE ILE SER GLU ILE LYS ASN GLY LEU ILE CYS SEQRES 4 A 164 PHE LEU GLY ILE HIS LYS ASN ASP THR TRP GLU ASP ALA SEQRES 5 A 164 LEU TYR ILE ILE ARG LYS CYS LEU ASN LEU ARG LEU TRP SEQRES 6 A 164 ASN ASN ASP ASN LYS THR TRP ASP LYS ASN VAL LYS ASP SEQRES 7 A 164 LEU ASN TYR GLU LEU LEU ILE VAL SER GLN PHE THR LEU SEQRES 8 A 164 PHE GLY ASN THR LYS LYS GLY ASN LYS PRO ASP PHE HIS SEQRES 9 A 164 LEU ALA LYS GLU PRO ASN GLU ALA LEU ILE PHE TYR ASN SEQRES 10 A 164 LYS ILE ILE ASP GLU PHE LYS LYS GLN TYR ASN ASP ASP SEQRES 11 A 164 LYS ILE LYS ILE GLY LYS PHE GLY ASN TYR MET ASN ILE SEQRES 12 A 164 ASP VAL THR ASN ASP GLY PRO VAL THR ILE TYR ILE ASP SEQRES 13 A 164 THR HIS ASP ILE ASN LEU ASN LYS SEQRES 1 B 164 MET ARG VAL VAL ILE GLN ARG VAL LYS GLY ALA ILE LEU SEQRES 2 B 164 SER VAL ARG LYS GLU ASN ILE GLY GLU ASN GLU LYS GLU SEQRES 3 B 164 LEU GLU ILE ILE SER GLU ILE LYS ASN GLY LEU ILE CYS SEQRES 4 B 164 PHE LEU GLY ILE HIS LYS ASN ASP THR TRP GLU ASP ALA SEQRES 5 B 164 LEU TYR ILE ILE ARG LYS CYS LEU ASN LEU ARG LEU TRP SEQRES 6 B 164 ASN ASN ASP ASN LYS THR TRP ASP LYS ASN VAL LYS ASP SEQRES 7 B 164 LEU ASN TYR GLU LEU LEU ILE VAL SER GLN PHE THR LEU SEQRES 8 B 164 PHE GLY ASN THR LYS LYS GLY ASN LYS PRO ASP PHE HIS SEQRES 9 B 164 LEU ALA LYS GLU PRO ASN GLU ALA LEU ILE PHE TYR ASN SEQRES 10 B 164 LYS ILE ILE ASP GLU PHE LYS LYS GLN TYR ASN ASP ASP SEQRES 11 B 164 LYS ILE LYS ILE GLY LYS PHE GLY ASN TYR MET ASN ILE SEQRES 12 B 164 ASP VAL THR ASN ASP GLY PRO VAL THR ILE TYR ILE ASP SEQRES 13 B 164 THR HIS ASP ILE ASN LEU ASN LYS HET D3Y A 201 31 HET PGE A 502 10 HET D3Y B 201 31 HETNAM D3Y 3'-DEOXY-3'-(D-TYROSYLAMINO)ADENOSINE HETNAM PGE TRIETHYLENE GLYCOL FORMUL 3 D3Y 2(C19 H23 N7 O5) FORMUL 4 PGE C6 H14 O4 FORMUL 6 HOH *250(H2 O) HELIX 1 1 THR A 48 LEU A 62 1 15 HELIX 2 2 PHE A 89 GLY A 93 5 5 HELIX 3 3 GLU A 108 TYR A 127 1 20 HELIX 4 4 ASN A 128 ASP A 130 5 3 HELIX 5 5 HIS A 158 ILE A 160 5 3 HELIX 6 6 THR B 48 LEU B 62 1 15 HELIX 7 7 PHE B 89 GLY B 93 5 5 HELIX 8 8 GLU B 108 TYR B 127 1 20 HELIX 9 9 ASN B 128 ASP B 130 5 3 SHEET 1 A 6 LEU A 27 ILE A 33 0 SHEET 2 A 6 ARG A 2 ARG A 16 -1 N LEU A 13 O SER A 31 SHEET 3 A 6 MET A 141 ASP A 156 -1 O ASN A 142 N SER A 14 SHEET 4 A 6 MET B 141 ASP B 156 -1 O ILE B 143 N ASN A 147 SHEET 5 A 6 ARG B 2 VAL B 15 -1 N ILE B 5 O ILE B 153 SHEET 6 A 6 GLU B 28 ILE B 33 -1 O SER B 31 N LEU B 13 SHEET 1 B10 ILE A 132 ILE A 134 0 SHEET 2 B10 GLU A 82 SER A 87 1 N LEU A 83 O LYS A 133 SHEET 3 B10 GLY A 36 GLY A 42 1 N CYS A 39 O LEU A 84 SHEET 4 B10 ARG A 2 ARG A 16 -1 N ARG A 2 O GLY A 42 SHEET 5 B10 MET A 141 ASP A 156 -1 O ASN A 142 N SER A 14 SHEET 6 B10 MET B 141 ASP B 156 -1 O ILE B 143 N ASN A 147 SHEET 7 B10 ARG B 2 VAL B 15 -1 N ILE B 5 O ILE B 153 SHEET 8 B10 GLY B 36 GLY B 42 -1 O GLY B 42 N ARG B 2 SHEET 9 B10 GLU B 82 SER B 87 1 O VAL B 86 N CYS B 39 SHEET 10 B10 ILE B 132 ILE B 134 1 O LYS B 133 N LEU B 83 CISPEP 1 GLY A 149 PRO A 150 0 -9.78 CISPEP 2 GLY B 149 PRO B 150 0 -11.02 SITE 1 AC1 14 LEU A 41 ILE A 43 SER A 87 GLN A 88 SITE 2 AC1 14 PHE A 89 LYS A 107 ALA A 112 PHE A 137 SITE 3 AC1 14 GLY A 138 ASN A 139 HOH A 648 HOH A 705 SITE 4 AC1 14 GLY B 149 PRO B 150 SITE 1 AC2 5 ASP A 144 THR A 146 GLY B 10 ILE B 12 SITE 2 AC2 5 THR B 146 SITE 1 AC3 15 GLY A 149 PRO A 150 LEU B 41 ILE B 43 SITE 2 AC3 15 SER B 87 GLN B 88 PHE B 89 LYS B 107 SITE 3 AC3 15 PHE B 137 GLY B 138 ASN B 139 HOH B 343 SITE 4 AC3 15 HOH B 345 HOH B 368 HOH B 393 CRYST1 82.134 65.743 56.917 90.00 93.30 90.00 C 1 2 1 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 0.012175 0.000000 0.000702 0.00000 SCALE2 0.000000 0.015211 0.000000 0.00000 SCALE3 0.000000 0.000000 0.017599 0.00000 MASTER 354 0 3 9 16 0 10 6 0 0 0 26 END