HEADER TRANSFERASE 13-AUG-09 3INY TITLE CRYSTAL STRUCTURE OF HUMAN PURINE NUCLEOSIDE PHOSPHORYLASE IN COMPLEX TITLE 2 WITH 7-DEAZAGUANINE COMPND MOL_ID: 1; COMPND 2 MOLECULE: PURINE NUCLEOSIDE PHOSPHORYLASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: PNP, INOSINE PHOSPHORYLASE; COMPND 5 EC: 2.4.2.1; 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: NP, PNP; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS 7-DEAZAGUANINE, CYTOSKELETON, DISEASE MUTATION, GLYCOSYLTRANSFERASE, KEYWDS 2 TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR W.F.DE AZEVEDO JR,D.S.SANTOS,L.A.BASSO REVDAT 2 06-SEP-23 3INY 1 REMARK REVDAT 1 19-JAN-11 3INY 0 JRNL AUTH R.A.CACERES,L.F.TIMMERS,I.PAULI,L.M.GAVA,R.G.DUCATI, JRNL AUTH 2 L.A.BASSO,D.S.SANTOS,W.F.DE AZEVEDO JRNL TITL CRYSTAL STRUCTURE AND MOLECULAR DYNAMICS STUDIES OF HUMAN JRNL TITL 2 PURINE NUCLEOSIDE PHOSPHORYLASE COMPLEXED WITH JRNL TITL 3 7-DEAZAGUANINE. JRNL REF J.STRUCT.BIOL. V. 169 379 2010 JRNL REFN ISSN 1047-8477 JRNL PMID 19932753 JRNL DOI 10.1016/J.JSB.2009.11.010 REMARK 2 REMARK 2 RESOLUTION. 2.75 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0005 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.75 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 43.69 REMARK 3 DATA CUTOFF (SIGMA(F)) : 2.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.7 REMARK 3 NUMBER OF REFLECTIONS : 14566 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) : 0.212 REMARK 3 R VALUE (WORKING SET) : 0.209 REMARK 3 FREE R VALUE : 0.269 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 765 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) : 2.75 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.82 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1067 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.74 REMARK 3 BIN R VALUE (WORKING SET) : 0.3450 REMARK 3 BIN FREE R VALUE SET COUNT : 69 REMARK 3 BIN FREE R VALUE : 0.4600 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2251 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 26 REMARK 3 SOLVENT ATOMS : 24 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 65.00 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 43.40 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.01000 REMARK 3 B22 (A**2) : 0.01000 REMARK 3 B33 (A**2) : -0.02000 REMARK 3 B12 (A**2) : 0.01000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.385 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.301 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.200 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 9.736 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.923 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.885 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2327 ; 0.040 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3152 ; 3.570 ; 1.968 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 287 ;12.423 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 107 ;40.430 ;23.551 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 385 ;25.884 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 17 ;26.683 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 337 ; 0.226 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1783 ; 0.013 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1473 ; 0.322 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1597 ; 0.368 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 151 ; 0.226 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 64 ; 0.262 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 11 ; 0.210 ; 0.200 REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 1490 ; 1.751 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2295 ; 2.837 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 988 ; 3.767 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 857 ; 5.604 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 3INY COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 24-FEB-10. REMARK 100 THE DEPOSITION ID IS D_1000054646. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 02-FEB-08 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : LNLS REMARK 200 BEAMLINE : D03B-MX1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.4310 REMARK 200 MONOCHROMATOR : GRAPHITE REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MAR CCD 165 MM REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : NULL REMARK 200 RESOLUTION RANGE HIGH (A) : 2.750 REMARK 200 RESOLUTION RANGE LOW (A) : 47.950 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.1 REMARK 200 DATA REDUNDANCY : 3.900 REMARK 200 R MERGE (I) : 0.08100 REMARK 200 R SYM (I) : 0.08100 REMARK 200 FOR THE DATA SET : 11.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.75 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : 99.1 REMARK 200 DATA REDUNDANCY IN SHELL : 3.90 REMARK 200 R MERGE FOR SHELL (I) : 0.08100 REMARK 200 R SYM FOR SHELL (I) : 0.08100 REMARK 200 FOR SHELL : 3.910 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: 1V41 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 73.18 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 4.59 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: HANGING DROPS WERE PREPARED MIXING 1 REMARK 280 MICROL OF PROTEIN SOLUTION AND 1 MICROL OF RESERVOIR SOLUTION REMARK 280 CONTAINING 19% AMMONIUM SULFATE AND 0.5 M SODIUM CITRATE PH 5.6. REMARK 280 , VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K, PH 8 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: H 3 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z REMARK 290 6555 -X,-X+Y,-Z REMARK 290 7555 X+2/3,Y+1/3,Z+1/3 REMARK 290 8555 -Y+2/3,X-Y+1/3,Z+1/3 REMARK 290 9555 -X+Y+2/3,-X+1/3,Z+1/3 REMARK 290 10555 Y+2/3,X+1/3,-Z+1/3 REMARK 290 11555 X-Y+2/3,-Y+1/3,-Z+1/3 REMARK 290 12555 -X+2/3,-X+Y+1/3,-Z+1/3 REMARK 290 13555 X+1/3,Y+2/3,Z+2/3 REMARK 290 14555 -Y+1/3,X-Y+2/3,Z+2/3 REMARK 290 15555 -X+Y+1/3,-X+2/3,Z+2/3 REMARK 290 16555 Y+1/3,X+2/3,-Z+2/3 REMARK 290 17555 X-Y+1/3,-Y+2/3,-Z+2/3 REMARK 290 18555 -X+1/3,-X+Y+2/3,-Z+2/3 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 7 1.000000 0.000000 0.000000 69.37400 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 40.05310 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 53.12200 REMARK 290 SMTRY1 8 -0.500000 -0.866025 0.000000 69.37400 REMARK 290 SMTRY2 8 0.866025 -0.500000 0.000000 40.05310 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 53.12200 REMARK 290 SMTRY1 9 -0.500000 0.866025 0.000000 69.37400 REMARK 290 SMTRY2 9 -0.866025 -0.500000 0.000000 40.05310 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 53.12200 REMARK 290 SMTRY1 10 -0.500000 0.866025 0.000000 69.37400 REMARK 290 SMTRY2 10 0.866025 0.500000 0.000000 40.05310 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 53.12200 REMARK 290 SMTRY1 11 1.000000 0.000000 0.000000 69.37400 REMARK 290 SMTRY2 11 0.000000 -1.000000 0.000000 40.05310 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 53.12200 REMARK 290 SMTRY1 12 -0.500000 -0.866025 0.000000 69.37400 REMARK 290 SMTRY2 12 -0.866025 0.500000 0.000000 40.05310 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 53.12200 REMARK 290 SMTRY1 13 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 80.10620 REMARK 290 SMTRY3 13 0.000000 0.000000 1.000000 106.24400 REMARK 290 SMTRY1 14 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 14 0.866025 -0.500000 0.000000 80.10620 REMARK 290 SMTRY3 14 0.000000 0.000000 1.000000 106.24400 REMARK 290 SMTRY1 15 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 15 -0.866025 -0.500000 0.000000 80.10620 REMARK 290 SMTRY3 15 0.000000 0.000000 1.000000 106.24400 REMARK 290 SMTRY1 16 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 16 0.866025 0.500000 0.000000 80.10620 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 106.24400 REMARK 290 SMTRY1 17 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 17 0.000000 -1.000000 0.000000 80.10620 REMARK 290 SMTRY3 17 0.000000 0.000000 -1.000000 106.24400 REMARK 290 SMTRY1 18 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 18 -0.866025 0.500000 0.000000 80.10620 REMARK 290 SMTRY3 18 0.000000 0.000000 -1.000000 106.24400 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 10240 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 30820 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -164.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 2 -0.500000 -0.866025 0.000000 0.00000 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 350 BIOMT2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 3 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 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 O LYS A 179 N GLY A 182 2.08 REMARK 500 N GLU A 2 O HOH A 319 2.16 REMARK 500 O ALA A 263 OE1 GLN A 266 2.17 REMARK 500 REMARK 500 REMARK: NULL 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 2 CG GLU A 2 CD 0.113 REMARK 500 GLU A 8 CB GLU A 8 CG 0.118 REMARK 500 GLU A 8 CG GLU A 8 CD 0.156 REMARK 500 TRP A 16 CB TRP A 16 CG -0.140 REMARK 500 ALA A 65 CA ALA A 65 CB 0.174 REMARK 500 CYS A 78 CB CYS A 78 SG -0.152 REMARK 500 LEU A 93 CB LEU A 93 CG 0.250 REMARK 500 LEU A 93 CA LEU A 93 C -0.158 REMARK 500 TRP A 94 CB TRP A 94 CG 0.124 REMARK 500 VAL A 102 CB VAL A 102 CG2 -0.156 REMARK 500 LYS A 123 CB LYS A 123 CG 0.213 REMARK 500 LYS A 123 CG LYS A 123 CD 0.221 REMARK 500 GLU A 125 CG GLU A 125 CD 0.113 REMARK 500 ARG A 148 CG ARG A 148 CD 0.293 REMARK 500 GLY A 149 N GLY A 149 CA 0.261 REMARK 500 GLY A 149 C GLY A 149 O 0.117 REMARK 500 PHE A 159 CD1 PHE A 159 CE1 0.147 REMARK 500 TYR A 166 CD1 TYR A 166 CE1 -0.112 REMARK 500 TYR A 166 CE2 TYR A 166 CD2 -0.092 REMARK 500 GLN A 180 CB GLN A 180 CG 0.202 REMARK 500 GLY A 197 N GLY A 197 CA 0.098 REMARK 500 GLU A 201 CB GLU A 201 CG -0.168 REMARK 500 VAL A 245 N VAL A 245 CA 0.141 REMARK 500 VAL A 260 CA VAL A 260 CB 0.128 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 THR A 6 CB - CA - C ANGL. DEV. = -18.8 DEGREES REMARK 500 PRO A 25 C - N - CA ANGL. DEV. = -9.5 DEGREES REMARK 500 PRO A 54 O - C - N ANGL. DEV. = -10.3 DEGREES REMARK 500 ASN A 55 C - N - CA ANGL. DEV. = -26.0 DEGREES REMARK 500 CYS A 78 CA - CB - SG ANGL. DEV. = -13.8 DEGREES REMARK 500 PRO A 92 C - N - CA ANGL. DEV. = -13.6 DEGREES REMARK 500 LEU A 93 CB - CG - CD2 ANGL. DEV. = -11.6 DEGREES REMARK 500 LEU A 93 O - C - N ANGL. DEV. = -9.7 DEGREES REMARK 500 LYS A 95 CD - CE - NZ ANGL. DEV. = -17.3 DEGREES REMARK 500 GLY A 118 N - CA - C ANGL. DEV. = -20.3 DEGREES REMARK 500 ASP A 134 CB - CG - OD1 ANGL. DEV. = -5.6 DEGREES REMARK 500 ARG A 148 CB - CA - C ANGL. DEV. = -14.9 DEGREES REMARK 500 ARG A 148 NH1 - CZ - NH2 ANGL. DEV. = -12.2 DEGREES REMARK 500 ARG A 148 NE - CZ - NH1 ANGL. DEV. = 11.1 DEGREES REMARK 500 GLY A 197 N - CA - C ANGL. DEV. = -16.3 DEGREES REMARK 500 LEU A 212 CA - CB - CG ANGL. DEV. = 15.7 DEGREES REMARK 500 LEU A 212 N - CA - C ANGL. DEV. = -21.4 DEGREES REMARK 500 MET A 219 CG - SD - CE ANGL. DEV. = 10.9 DEGREES REMARK 500 VAL A 235 CB - CA - C ANGL. DEV. = -13.2 DEGREES REMARK 500 LEU A 252 CA - CB - CG ANGL. DEV. = 13.8 DEGREES REMARK 500 LEU A 261 CA - CB - CG ANGL. DEV. = 24.0 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 3 163.83 -14.19 REMARK 500 SER A 51 -85.38 21.32 REMARK 500 VAL A 61 -53.60 -165.25 REMARK 500 ALA A 65 42.65 78.95 REMARK 500 ALA A 77 85.34 -58.28 REMARK 500 HIS A 104 -70.49 -43.04 REMARK 500 LYS A 123 -7.46 -36.97 REMARK 500 GLN A 144 70.32 -68.36 REMARK 500 GLN A 180 -50.17 -18.18 REMARK 500 LYS A 211 38.40 -72.71 REMARK 500 LEU A 212 -4.58 -143.55 REMARK 500 THR A 221 -68.45 71.70 REMARK 500 ASN A 243 175.49 178.05 REMARK 500 ILE A 246 -8.86 171.32 REMARK 500 ASP A 248 -70.50 -71.41 REMARK 500 TYR A 249 114.70 -37.87 REMARK 500 GLU A 250 89.19 86.60 REMARK 500 LEU A 252 23.36 -70.88 REMARK 500 GLU A 253 169.02 173.61 REMARK 500 LYS A 254 -145.96 -112.29 REMARK 500 ASN A 256 -144.61 -76.48 REMARK 500 VAL A 260 31.44 -155.01 REMARK 500 ALA A 262 90.32 61.66 REMARK 500 ALA A 263 -12.08 40.65 REMARK 500 LYS A 287 -53.35 172.06 REMARK 500 ALA A 288 82.16 10.11 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 TYR A 50 SER A 51 141.64 REMARK 500 PRO A 62 GLY A 63 135.81 REMARK 500 HIS A 64 ALA A 65 -118.05 REMARK 500 ALA A 65 GLY A 66 149.11 REMARK 500 GLN A 184 ARG A 185 120.55 REMARK 500 ALA A 196 GLY A 197 -129.08 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 SO4 A 290 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 291 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 292 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 7DG A 293 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1V41 RELATED DB: PDB REMARK 999 REMARK 999 SEQUENCE REMARK 999 AUTHOR'S COORDINATES SEQUENCE HAS ONE CONFLICT G51S WITH DATABASE REMARK 999 SEQUENCE P00491. AUTHOR DOES NOT PROVIDE ANY EXPLANATION FOR THE REMARK 999 CONFLICT DBREF 3INY A 1 289 UNP P00491 PNPH_HUMAN 1 289 SEQADV 3INY SER A 51 UNP P00491 GLY 51 SEE REMARK 999 SEQRES 1 A 289 MET GLU ASN GLY TYR THR TYR GLU ASP TYR LYS ASN THR SEQRES 2 A 289 ALA GLU TRP LEU LEU SER HIS THR LYS HIS ARG PRO GLN SEQRES 3 A 289 VAL ALA ILE ILE CYS GLY SER GLY LEU GLY GLY LEU THR SEQRES 4 A 289 ASP LYS LEU THR GLN ALA GLN ILE PHE ASP TYR SER GLU SEQRES 5 A 289 ILE PRO ASN PHE PRO ARG SER THR VAL PRO GLY HIS ALA SEQRES 6 A 289 GLY ARG LEU VAL PHE GLY PHE LEU ASN GLY ARG ALA CYS SEQRES 7 A 289 VAL MET MET GLN GLY ARG PHE HIS MET TYR GLU GLY TYR SEQRES 8 A 289 PRO LEU TRP LYS VAL THR PHE PRO VAL ARG VAL PHE HIS SEQRES 9 A 289 LEU LEU GLY VAL ASP THR LEU VAL VAL THR ASN ALA ALA SEQRES 10 A 289 GLY GLY LEU ASN PRO LYS PHE GLU VAL GLY ASP ILE MET SEQRES 11 A 289 LEU ILE ARG ASP HIS ILE ASN LEU PRO GLY PHE SER GLY SEQRES 12 A 289 GLN ASN PRO LEU ARG GLY PRO ASN ASP GLU ARG PHE GLY SEQRES 13 A 289 ASP ARG PHE PRO ALA MET SER ASP ALA TYR ASP ARG THR SEQRES 14 A 289 MET ARG GLN ARG ALA LEU SER THR TRP LYS GLN MET GLY SEQRES 15 A 289 GLU GLN ARG GLU LEU GLN GLU GLY THR TYR VAL MET VAL SEQRES 16 A 289 ALA GLY PRO SER PHE GLU THR VAL ALA GLU CYS ARG VAL SEQRES 17 A 289 LEU GLN LYS LEU GLY ALA ASP ALA VAL GLY MET SER THR SEQRES 18 A 289 VAL PRO GLU VAL ILE VAL ALA ARG HIS CYS GLY LEU ARG SEQRES 19 A 289 VAL PHE GLY PHE SER LEU ILE THR ASN LYS VAL ILE MET SEQRES 20 A 289 ASP TYR GLU SER LEU GLU LYS ALA ASN HIS GLU GLU VAL SEQRES 21 A 289 LEU ALA ALA GLY LYS GLN ALA ALA GLN LYS LEU GLU GLN SEQRES 22 A 289 PHE VAL SER ILE LEU MET ALA SER ILE PRO LEU PRO ASP SEQRES 23 A 289 LYS ALA SER HET SO4 A 290 5 HET SO4 A 291 5 HET SO4 A 292 5 HET 7DG A 293 11 HETNAM SO4 SULFATE ION HETNAM 7DG 7-DEAZAGUANINE FORMUL 2 SO4 3(O4 S 2-) FORMUL 5 7DG C6 H6 N4 O FORMUL 6 HOH *24(H2 O) HELIX 1 1 THR A 6 SER A 19 1 14 HELIX 2 2 LEU A 35 LEU A 42 5 8 HELIX 3 3 SER A 51 ILE A 53 5 3 HELIX 4 4 HIS A 86 GLY A 90 5 5 HELIX 5 5 PRO A 92 THR A 97 1 6 HELIX 6 6 THR A 97 GLY A 107 1 11 HELIX 7 7 LEU A 138 GLY A 143 1 6 HELIX 8 8 ASP A 167 MET A 181 1 15 HELIX 9 9 THR A 202 LYS A 211 1 10 HELIX 10 10 THR A 221 CYS A 231 1 11 HELIX 11 11 GLY A 264 MET A 279 1 16 HELIX 12 12 ALA A 280 ILE A 282 5 3 SHEET 1 A10 THR A 43 ASP A 49 0 SHEET 2 A10 ARG A 67 PHE A 72 -1 O LEU A 68 N PHE A 48 SHEET 3 A10 ALA A 77 GLN A 82 -1 O GLN A 82 N ARG A 67 SHEET 4 A10 VAL A 27 CYS A 31 1 N ILE A 29 O MET A 81 SHEET 5 A10 THR A 110 GLY A 119 1 O VAL A 112 N ALA A 28 SHEET 6 A10 ARG A 234 ASN A 243 1 O ASN A 243 N GLY A 119 SHEET 7 A10 ILE A 129 ASN A 137 -1 N ILE A 132 O GLY A 237 SHEET 8 A10 GLN A 188 MET A 194 1 O TYR A 192 N ASP A 134 SHEET 9 A10 ALA A 216 GLY A 218 1 O ALA A 216 N VAL A 193 SHEET 10 A10 THR A 110 GLY A 119 -1 N GLY A 118 O VAL A 217 SITE 1 AC1 7 GLY A 32 SER A 33 ARG A 84 HIS A 86 SITE 2 AC1 7 ASN A 115 ALA A 116 SER A 220 SITE 1 AC2 4 GLY A 34 LEU A 35 GLY A 36 GLN A 82 SITE 1 AC3 4 PRO A 92 GLN A 144 ARG A 148 HOH A 307 SITE 1 AC4 8 ALA A 116 ALA A 117 GLY A 118 PHE A 200 SITE 2 AC4 8 GLU A 201 VAL A 217 THR A 242 ASN A 243 CRYST1 138.748 138.748 159.366 90.00 90.00 120.00 H 3 2 18 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 0.007207 0.004161 0.000000 0.00000 SCALE2 0.000000 0.008322 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006275 0.00000