HEADER TRANSFERASE 17-MAR-09 3GNN TITLE CRYSTAL STRUCTURE OF NICOTINATE-NUCLEOTIDE PYROPHOSPHORYLASE FROM TITLE 2 BURKHOLDERI PSEUDOMALLEI COMPND MOL_ID: 1; COMPND 2 MOLECULE: NICOTINATE-NUCLEOTIDE DIPHOSPHORYLASE (CARBOXYLATING); COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: QUINOLINATE PHOSPHORIBOSYLTRANSFERASE [DECARBOXYLATING]; COMPND 5 EC: 2.4.2.19; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: UNKNOWN PEPTIDE; COMPND 9 CHAIN: D, E; COMPND 10 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BURKHOLDERIA PSEUDOMALLEI 1710B; SOURCE 3 ORGANISM_TAXID: 320372; SOURCE 4 STRAIN: 1710B; SOURCE 5 GENE: NADC, BURPS1710B_1132; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: AVA0421; SOURCE 9 MOL_ID: 2; SOURCE 10 ORGANISM_SCIENTIFIC: UNIDENTIFIED; SOURCE 11 ORGANISM_TAXID: 32644; SOURCE 12 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 13 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS DECODE BIOSTRUCTURES, SSGCID, NIAID, SBRI, UWPPG, KEYWDS 2 GLYCOSYLTRANSFERASE, TRANSFERASE, STRUCTURAL GENOMICS, SEATTLE KEYWDS 3 STRUCTURAL GENOMICS CENTER FOR INFECTIOUS DISEASE EXPDTA X-RAY DIFFRACTION AUTHOR SEATTLE STRUCTURAL GENOMICS CENTER FOR INFECTIOUS DISEASE (SSGCID) REVDAT 3 21-FEB-24 3GNN 1 COMPND SOURCE DBREF SEQADV REVDAT 3 2 1 SHEET REVDAT 2 01-NOV-17 3GNN 1 REMARK REVDAT 1 31-MAR-09 3GNN 0 JRNL AUTH SEATTLE STRUCTURAL GENOMICS CENTER FOR INFECTIOUS DISEASE JRNL AUTH 2 (SSGCID) JRNL TITL CRYSTAL STRUCTURE OF NICOTINATE-NUCLEOTIDE PYROPHOSPHORYLASE JRNL TITL 2 FROM BURKHOLDERI PSEUDOMALLEI JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.25 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.25 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 39.14 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.7 REMARK 3 NUMBER OF REFLECTIONS : 27260 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) : 0.217 REMARK 3 R VALUE (WORKING SET) : 0.214 REMARK 3 FREE R VALUE : 0.273 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1366 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) : 2.25 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.31 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1802 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 94.55 REMARK 3 BIN R VALUE (WORKING SET) : 0.2710 REMARK 3 BIN FREE R VALUE SET COUNT : 105 REMARK 3 BIN FREE R VALUE : 0.3600 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3773 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 106 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 48.36 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.08000 REMARK 3 B22 (A**2) : -2.44000 REMARK 3 B33 (A**2) : 2.55000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 2.07000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.303 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.243 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.173 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 6.813 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.943 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.920 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3818 ; 0.020 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 2470 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5192 ; 1.791 ; 1.962 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5971 ; 1.074 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 510 ; 6.585 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 164 ;32.522 ;22.805 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 575 ;19.167 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 46 ;19.676 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 634 ; 0.109 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4385 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 793 ; 0.001 ; 0.020 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): 2564 ; 1.101 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1057 ; 0.232 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4051 ; 2.016 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1254 ; 2.895 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1141 ; 4.725 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REMARK 3 HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS REMARK 3 U VALUES: REFINED INDIVIDUALLY REMARK 4 REMARK 4 3GNN COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 18-MAR-09. REMARK 100 THE DEPOSITION ID IS D_1000052086. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 18-JUN-08 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 23-ID-D REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97934 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : NULL REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO, HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK, HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 27262 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.250 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.9 REMARK 200 DATA REDUNDANCY : 3.800 REMARK 200 R MERGE (I) : 0.06800 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 21.9980 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.25 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.33 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.7 REMARK 200 DATA REDUNDANCY IN SHELL : 3.70 REMARK 200 R MERGE FOR SHELL (I) : 0.58900 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.270 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45.93 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.27 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: HAMPTON CRYSTAL SCREEN CONDITION E8, REMARK 280 1.5 M NACL, 10% ETHANOL WITH 25% GLYCEROL AS CRYO-PROTECTANT, REMARK 280 28.7 MG/ML PROTEIN, CRYSTAL ID 109334E8, VAPOR DIFFUSION, REMARK 280 SITTING DROP, TEMPERATURE 289K 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 80.48900 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 28.70700 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 80.48900 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 28.70700 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, D, E 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 295 LIES ON A SPECIAL POSITION. 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 -3 REMARK 465 PRO A -2 REMARK 465 GLY A -1 REMARK 465 SER A 0 REMARK 465 MET A 1 REMARK 465 ASP A 41 REMARK 465 GLN A 42 REMARK 465 THR A 43 REMARK 465 GLY A 44 REMARK 465 ARG A 45 REMARK 465 ARG A 172 REMARK 465 LEU A 173 REMARK 465 ALA A 174 REMARK 465 LEU A 175 REMARK 465 TYR A 176 REMARK 465 ALA A 177 REMARK 465 GLY A 178 REMARK 465 ILE A 179 REMARK 465 LEU A 180 REMARK 465 ILE A 181 REMARK 465 LYS A 182 REMARK 465 GLU A 183 REMARK 465 ASN A 184 REMARK 465 HIS A 185 REMARK 465 ILE A 186 REMARK 465 ALA A 187 REMARK 465 ALA A 188 REMARK 465 ALA A 189 REMARK 465 GLY A 190 REMARK 465 ALA A 204 REMARK 465 GLU A 205 REMARK 465 GLU A 294 REMARK 465 GLY B -3 REMARK 465 PRO B -2 REMARK 465 GLY B -1 REMARK 465 SER B 0 REMARK 465 MET B 1 REMARK 465 THR B 43 REMARK 465 GLY B 44 REMARK 465 ARG B 45 REMARK 465 LEU B 46 REMARK 465 VAL B 47 REMARK 465 PRO B 48 REMARK 465 ASP B 49 REMARK 465 GLY B 50 REMARK 465 ASN B 170 REMARK 465 GLN B 171 REMARK 465 ARG B 172 REMARK 465 LEU B 173 REMARK 465 ALA B 174 REMARK 465 LEU B 175 REMARK 465 TYR B 176 REMARK 465 ALA B 177 REMARK 465 GLY B 178 REMARK 465 ILE B 179 REMARK 465 LEU B 180 REMARK 465 ILE B 181 REMARK 465 LYS B 182 REMARK 465 GLU B 183 REMARK 465 ASN B 184 REMARK 465 HIS B 185 REMARK 465 ILE B 186 REMARK 465 ALA B 187 REMARK 465 ALA B 188 REMARK 465 ALA B 189 REMARK 465 GLY B 190 REMARK 465 GLY B 191 REMARK 465 VAL B 192 REMARK 465 GLY B 193 REMARK 465 GLU B 194 REMARK 465 ALA B 195 REMARK 465 LEU B 196 REMARK 465 ASP B 197 REMARK 465 ALA B 198 REMARK 465 ALA B 199 REMARK 465 PHE B 200 REMARK 465 ALA B 201 REMARK 465 LEU B 202 REMARK 465 ASN B 203 REMARK 465 ALA B 204 REMARK 465 GLU B 205 REMARK 465 VAL B 206 REMARK 465 PRO B 207 REMARK 465 ILE B 292 REMARK 465 VAL B 293 REMARK 465 GLU B 294 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 THR A 2 OG1 CG2 REMARK 470 ARG A 54 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 149 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 150 CG CD CE NZ REMARK 470 GLU A 194 CG CD OE1 OE2 REMARK 470 PHE A 200 CG CD1 CD2 CE1 CE2 CZ REMARK 470 LEU A 202 CG CD1 CD2 REMARK 470 ASN A 203 CG OD1 ND2 REMARK 470 ARG A 227 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 247 CG CD OE1 OE2 REMARK 470 LYS A 281 CG CD CE NZ REMARK 470 THR B 2 OG1 CG2 REMARK 470 ARG B 15 CG CD NE CZ NH1 NH2 REMARK 470 ASP B 41 CG OD1 OD2 REMARK 470 ARG B 144 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 150 CG CD CE NZ REMARK 470 ILE B 210 CG1 CG2 CD1 REMARK 470 ARG B 219 CG CD NE CZ NH1 NH2 REMARK 470 HIS B 224 CG ND1 CD2 CE1 NE2 REMARK 470 ARG B 227 CG CD NE CZ NH1 NH2 REMARK 470 THR B 235 OG1 CG2 REMARK 470 ARG B 244 CG CD NE CZ NH1 NH2 REMARK 470 GLU B 247 CG CD OE1 OE2 REMARK 470 ARG B 249 CG CD NE CZ NH1 NH2 REMARK 470 VAL B 251 CG1 CG2 REMARK 470 PHE B 260 CG CD1 CD2 CE1 CE2 CZ REMARK 470 ARG B 264 CG CD NE CZ NH1 NH2 REMARK 470 ARG B 273 CG CD NE CZ NH1 NH2 REMARK 470 ARG B 291 CG CD NE CZ NH1 NH2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 OD1 ASP A 282 O HOH A 341 1.95 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 ALA A 130 CA ALA A 130 CB 0.137 REMARK 500 GLU A 268 CG GLU A 268 CD -0.093 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 LEU A 157 CB - CG - CD1 ANGL. DEV. = 10.2 DEGREES REMARK 500 ARG B 89 NE - CZ - NH2 ANGL. DEV. = -3.4 DEGREES REMARK 500 ASP B 92 CB - CG - OD1 ANGL. DEV. = 5.9 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 ALA A 5 -3.33 71.88 REMARK 500 ASP A 49 -75.29 -56.17 REMARK 500 ALA A 51 155.07 89.05 REMARK 500 ASP A 79 106.07 -168.21 REMARK 500 ASN A 170 -28.94 -38.41 REMARK 500 HIS A 224 -119.38 -80.65 REMARK 500 ALA A 226 -144.76 75.72 REMARK 500 ARG A 227 -55.65 86.01 REMARK 500 THR A 269 -17.38 -46.99 REMARK 500 THR A 280 22.52 -141.99 REMARK 500 ALA B 5 -8.90 83.74 REMARK 500 SER B 39 -103.43 -149.58 REMARK 500 ASP B 41 112.78 53.33 REMARK 500 ASP B 79 106.01 -160.28 REMARK 500 ASP B 140 -23.37 70.38 REMARK 500 ASN B 233 -97.05 65.87 REMARK 500 PHE B 234 135.75 58.37 REMARK 500 GLU B 247 -84.11 58.78 REMARK 500 ALA B 250 -101.93 -69.05 REMARK 500 VAL B 251 72.02 42.30 REMARK 500 UNK E 182 104.48 80.38 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: BUPSA.00056.A RELATED DB: TARGETDB REMARK 999 REMARK 999 SEQUENCE REMARK 999 CHAINS D,E ARE ACTUALLY PARTS OF CHAINS A,B. REMARK 999 THE AUTHORS COULD NOT DETERMINE THE EXACT REMARK 999 SEQUENCE FROM THE KNOWN PRIMARY STRUCTURE. REMARK 999 THUS THEY WERE MODELED AS UNK IN THIS ENTRY DBREF 3GNN A 1 294 UNP Q3JV59 Q3JV59_BURP1 1 294 DBREF 3GNN B 1 294 UNP Q3JV59 Q3JV59_BURP1 1 294 DBREF 3GNN D 169 172 PDB 3GNN 3GNN 169 172 DBREF 3GNN E 181 184 PDB 3GNN 3GNN 181 184 SEQADV 3GNN GLY A -3 UNP Q3JV59 EXPRESSION TAG SEQADV 3GNN PRO A -2 UNP Q3JV59 EXPRESSION TAG SEQADV 3GNN GLY A -1 UNP Q3JV59 EXPRESSION TAG SEQADV 3GNN SER A 0 UNP Q3JV59 EXPRESSION TAG SEQADV 3GNN GLY B -3 UNP Q3JV59 EXPRESSION TAG SEQADV 3GNN PRO B -2 UNP Q3JV59 EXPRESSION TAG SEQADV 3GNN GLY B -1 UNP Q3JV59 EXPRESSION TAG SEQADV 3GNN SER B 0 UNP Q3JV59 EXPRESSION TAG SEQRES 1 A 298 GLY PRO GLY SER MET THR ILE ASP ALA VAL SER PRO LEU SEQRES 2 A 298 PHE ALA ASP ILE SER ARG GLU TYR GLY ALA ALA PHE ASP SEQRES 3 A 298 ALA ALA ILE ALA ARG ASN VAL ALA ASP ALA LEU ALA GLU SEQRES 4 A 298 ASP VAL GLY SER GLY ASP GLN THR GLY ARG LEU VAL PRO SEQRES 5 A 298 ASP GLY ALA PRO ARG ARG ALA ARG VAL ILE VAL ARG GLU SEQRES 6 A 298 ASP ALA VAL LEU CYS GLY VAL PRO TRP PHE ASP ALA VAL SEQRES 7 A 298 VAL ARG ALA VAL ASP PRO SER ILE GLU VAL ASP TRP ARG SEQRES 8 A 298 HIS ARG GLU GLY ASP ARG MET SER ALA ASP SER THR VAL SEQRES 9 A 298 CYS GLU LEU ARG GLY PRO ALA ARG ALA LEU LEU THR ALA SEQRES 10 A 298 GLU ARG ASN ALA LEU ASN PHE LEU GLN LEU LEU SER GLY SEQRES 11 A 298 VAL ALA SER ALA THR ARG GLN TYR VAL ASP ARG ILE ALA SEQRES 12 A 298 ASP THR ARG ALA ARG ILE LEU ASP THR ARG LYS THR LEU SEQRES 13 A 298 PRO GLY LEU ARG LEU ALA GLN LYS TYR ALA VAL ARG VAL SEQRES 14 A 298 GLY GLY GLY ALA ASN GLN ARG LEU ALA LEU TYR ALA GLY SEQRES 15 A 298 ILE LEU ILE LYS GLU ASN HIS ILE ALA ALA ALA GLY GLY SEQRES 16 A 298 VAL GLY GLU ALA LEU ASP ALA ALA PHE ALA LEU ASN ALA SEQRES 17 A 298 GLU VAL PRO VAL GLN ILE GLU VAL GLU THR LEU ASP GLN SEQRES 18 A 298 LEU ARG THR ALA LEU ALA HIS GLY ALA ARG SER VAL LEU SEQRES 19 A 298 LEU ASP ASN PHE THR LEU ASP MET MET ARG ASP ALA VAL SEQRES 20 A 298 ARG VAL THR GLU GLY ARG ALA VAL LEU GLU VAL SER GLY SEQRES 21 A 298 GLY VAL ASN PHE ASP THR VAL ARG ALA ILE ALA GLU THR SEQRES 22 A 298 GLY VAL ASP ARG ILE SER ILE GLY ALA LEU THR LYS ASP SEQRES 23 A 298 VAL ARG ALA THR ASP TYR SER MET ARG ILE VAL GLU SEQRES 1 B 298 GLY PRO GLY SER MET THR ILE ASP ALA VAL SER PRO LEU SEQRES 2 B 298 PHE ALA ASP ILE SER ARG GLU TYR GLY ALA ALA PHE ASP SEQRES 3 B 298 ALA ALA ILE ALA ARG ASN VAL ALA ASP ALA LEU ALA GLU SEQRES 4 B 298 ASP VAL GLY SER GLY ASP GLN THR GLY ARG LEU VAL PRO SEQRES 5 B 298 ASP GLY ALA PRO ARG ARG ALA ARG VAL ILE VAL ARG GLU SEQRES 6 B 298 ASP ALA VAL LEU CYS GLY VAL PRO TRP PHE ASP ALA VAL SEQRES 7 B 298 VAL ARG ALA VAL ASP PRO SER ILE GLU VAL ASP TRP ARG SEQRES 8 B 298 HIS ARG GLU GLY ASP ARG MET SER ALA ASP SER THR VAL SEQRES 9 B 298 CYS GLU LEU ARG GLY PRO ALA ARG ALA LEU LEU THR ALA SEQRES 10 B 298 GLU ARG ASN ALA LEU ASN PHE LEU GLN LEU LEU SER GLY SEQRES 11 B 298 VAL ALA SER ALA THR ARG GLN TYR VAL ASP ARG ILE ALA SEQRES 12 B 298 ASP THR ARG ALA ARG ILE LEU ASP THR ARG LYS THR LEU SEQRES 13 B 298 PRO GLY LEU ARG LEU ALA GLN LYS TYR ALA VAL ARG VAL SEQRES 14 B 298 GLY GLY GLY ALA ASN GLN ARG LEU ALA LEU TYR ALA GLY SEQRES 15 B 298 ILE LEU ILE LYS GLU ASN HIS ILE ALA ALA ALA GLY GLY SEQRES 16 B 298 VAL GLY GLU ALA LEU ASP ALA ALA PHE ALA LEU ASN ALA SEQRES 17 B 298 GLU VAL PRO VAL GLN ILE GLU VAL GLU THR LEU ASP GLN SEQRES 18 B 298 LEU ARG THR ALA LEU ALA HIS GLY ALA ARG SER VAL LEU SEQRES 19 B 298 LEU ASP ASN PHE THR LEU ASP MET MET ARG ASP ALA VAL SEQRES 20 B 298 ARG VAL THR GLU GLY ARG ALA VAL LEU GLU VAL SER GLY SEQRES 21 B 298 GLY VAL ASN PHE ASP THR VAL ARG ALA ILE ALA GLU THR SEQRES 22 B 298 GLY VAL ASP ARG ILE SER ILE GLY ALA LEU THR LYS ASP SEQRES 23 B 298 VAL ARG ALA THR ASP TYR SER MET ARG ILE VAL GLU SEQRES 1 D 4 UNK UNK UNK UNK SEQRES 1 E 4 UNK UNK UNK UNK FORMUL 5 HOH *106(H2 O) HELIX 1 1 PRO A 8 GLY A 18 1 11 HELIX 2 2 GLY A 18 GLY A 40 1 23 HELIX 3 3 GLY A 67 ASP A 79 1 13 HELIX 4 4 ALA A 107 ILE A 138 1 32 HELIX 5 5 LEU A 155 GLY A 166 1 12 HELIX 6 6 GLY A 191 ASN A 203 1 13 HELIX 7 7 THR A 214 HIS A 224 1 11 HELIX 8 8 THR A 235 GLU A 247 1 13 HELIX 9 9 THR A 262 THR A 269 1 8 HELIX 10 10 GLY A 277 LYS A 281 5 5 HELIX 11 11 PRO B 8 GLY B 18 1 11 HELIX 12 12 GLY B 18 SER B 39 1 22 HELIX 13 13 GLY B 67 ASP B 79 1 13 HELIX 14 14 ALA B 107 ALA B 117 1 11 HELIX 15 15 ALA B 117 ILE B 138 1 22 HELIX 16 16 LEU B 155 GLY B 166 1 12 HELIX 17 17 THR B 214 ALA B 223 1 10 HELIX 18 18 THR B 235 GLU B 247 1 13 HELIX 19 19 THR B 262 THR B 269 1 8 SHEET 1 A 4 GLU A 83 TRP A 86 0 SHEET 2 A 4 THR A 99 PRO A 106 -1 O GLU A 102 N ASP A 85 SHEET 3 A 4 PRO A 52 VAL A 59 -1 N ALA A 55 O LEU A 103 SHEET 4 A 4 TYR A 288 ILE A 292 -1 O SER A 289 N ILE A 58 SHEET 1 B 2 ALA A 63 VAL A 64 0 SHEET 2 B 2 ARG A 93 MET A 94 -1 O MET A 94 N ALA A 63 SHEET 1 C 5 ILE A 145 LEU A 146 0 SHEET 2 C 5 ARG A 273 SER A 275 1 O ILE A 274 N LEU A 146 SHEET 3 C 5 ALA A 250 SER A 255 1 N VAL A 254 O SER A 275 SHEET 4 C 5 ARG A 227 ASP A 232 1 N ARG A 227 O VAL A 251 SHEET 5 C 5 GLN A 209 VAL A 212 1 N VAL A 212 O LEU A 230 SHEET 1 D 4 GLU B 83 TRP B 86 0 SHEET 2 D 4 THR B 99 PRO B 106 -1 O GLU B 102 N ASP B 85 SHEET 3 D 4 PRO B 52 VAL B 59 -1 N VAL B 57 O VAL B 100 SHEET 4 D 4 TYR B 288 MET B 290 -1 O SER B 289 N ILE B 58 SHEET 1 E 2 ALA B 63 VAL B 64 0 SHEET 2 E 2 ARG B 93 MET B 94 -1 O MET B 94 N ALA B 63 SHEET 1 F 5 ARG B 144 ASP B 147 0 SHEET 2 F 5 ARG B 273 ILE B 276 1 O ILE B 274 N LEU B 146 SHEET 3 F 5 LEU B 252 VAL B 254 1 N LEU B 252 O ARG B 273 SHEET 4 F 5 SER B 228 LEU B 231 1 N LEU B 231 O GLU B 253 SHEET 5 F 5 GLN B 209 VAL B 212 1 N VAL B 212 O LEU B 230 CRYST1 160.978 57.414 66.243 90.00 106.74 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 0.006212 0.000000 0.001869 0.00000 SCALE2 0.000000 0.017417 0.000000 0.00000 SCALE3 0.000000 0.000000 0.015764 0.00000