PDB Short entry for 4IDU HEADER DNA BINDING PROTEIN 13-DEC-12 4IDU TITLE CRYSTAL STRUCTURE OF SCHMALLENBERG VIRUS NUCLEOPROTEIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: SBV NUCLEOPROTEIN; COMPND 3 CHAIN: A, C, D; COMPND 4 FRAGMENT: UNP RESIDUES 2-228; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: SBV NUCLEOPROTEIN; COMPND 8 CHAIN: B; COMPND 9 FRAGMENT: UNP RESIDUES 2-228; COMPND 10 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SCHMALLENBERG VIRUS; SOURCE 3 ORGANISM_COMMON: SBV; SOURCE 4 ORGANISM_TAXID: 1133363; SOURCE 5 GENE: N; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: ROSSETTA; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PDEST14; SOURCE 10 MOL_ID: 2; SOURCE 11 ORGANISM_SCIENTIFIC: SCHMALLENBERG VIRUS; SOURCE 12 ORGANISM_COMMON: SBV; SOURCE 13 ORGANISM_TAXID: 1133363; SOURCE 14 GENE: N; SOURCE 15 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 16 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 17 EXPRESSION_SYSTEM_STRAIN: ROSSETTA; SOURCE 18 EXPRESSION_SYSTEM_VECTOR_TYPE: PDEST14 KEYWDS SCHMALLENBERG VIRUS, NUCLEOPROTEIN, PROTECT GENOME RNA, REPLICATION KEYWDS 2 AND TRANSCRIPTION, DNA BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR H.DONG,P.LI,R.M.ELLIOTT,C.DONG REVDAT 3 19-APR-17 4IDU 1 REMARK REVDAT 2 02-OCT-13 4IDU 1 JRNL REVDAT 1 24-APR-13 4IDU 0 JRNL AUTH H.DONG,P.LI,R.M.ELLIOTT,C.DONG JRNL TITL STRUCTURE OF SCHMALLENBERG ORTHOBUNYAVIRUS NUCLEOPROTEIN JRNL TITL 2 SUGGESTS A NOVEL MECHANISM OF GENOME ENCAPSIDATION JRNL REF J.VIROL. V. 87 5593 2013 JRNL REFN ISSN 0022-538X JRNL PMID 23468499 JRNL DOI 10.1128/JVI.00223-13 REMARK 2 REMARK 2 RESOLUTION. 3.08 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) : 3.08 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.71 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 17787 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) : 0.323 REMARK 3 R VALUE (WORKING SET) : 0.321 REMARK 3 FREE R VALUE : 0.364 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 960 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) : 3.08 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 3.14 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1234 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.69 REMARK 3 BIN R VALUE (WORKING SET) : 0.3230 REMARK 3 BIN FREE R VALUE SET COUNT : 69 REMARK 3 BIN FREE R VALUE : 0.3060 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6838 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) : 35.00 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 100.4 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.06000 REMARK 3 B22 (A**2) : -0.39000 REMARK 3 B33 (A**2) : 0.47000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.03000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.704 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.799 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 97.612 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.853 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.811 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 7012 ; 0.008 ; 0.020 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 9485 ; 1.531 ; 1.934 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 852 ; 6.856 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 322 ;37.494 ;24.037 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1152 ;21.188 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 30 ;18.623 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 1027 ; 0.110 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5327 ; 0.005 ; 0.021 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 : 4 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 2 A 228 REMARK 3 ORIGIN FOR THE GROUP (A): 27.2495 16.3318 1.7095 REMARK 3 T TENSOR REMARK 3 T11: 0.4443 T22: 0.5471 REMARK 3 T33: 0.2216 T12: -0.0444 REMARK 3 T13: 0.0649 T23: 0.0281 REMARK 3 L TENSOR REMARK 3 L11: 2.1826 L22: 2.5905 REMARK 3 L33: 0.4043 L12: -0.9925 REMARK 3 L13: -0.2855 L23: -0.6052 REMARK 3 S TENSOR REMARK 3 S11: -0.0456 S12: 0.5241 S13: 0.1259 REMARK 3 S21: -0.0203 S22: -0.0955 S23: 0.0287 REMARK 3 S31: 0.1204 S32: -0.0925 S33: 0.1411 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 4 B 228 REMARK 3 ORIGIN FOR THE GROUP (A): 21.7776 37.6257 34.6023 REMARK 3 T TENSOR REMARK 3 T11: 0.5685 T22: 0.4457 REMARK 3 T33: 0.4533 T12: -0.0405 REMARK 3 T13: 0.0963 T23: -0.0588 REMARK 3 L TENSOR REMARK 3 L11: 1.2368 L22: 0.5628 REMARK 3 L33: 0.0767 L12: 0.1723 REMARK 3 L13: 0.2506 L23: -0.0751 REMARK 3 S TENSOR REMARK 3 S11: -0.0285 S12: 0.0072 S13: -0.0364 REMARK 3 S21: -0.4348 S22: 0.0846 S23: 0.0153 REMARK 3 S31: 0.0663 S32: -0.0038 S33: -0.0561 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : C 6 C 214 REMARK 3 ORIGIN FOR THE GROUP (A): 1.5090 -5.6396 33.4461 REMARK 3 T TENSOR REMARK 3 T11: 0.2823 T22: 0.2780 REMARK 3 T33: 0.4839 T12: -0.0251 REMARK 3 T13: 0.0082 T23: 0.0257 REMARK 3 L TENSOR REMARK 3 L11: 2.8279 L22: 3.0042 REMARK 3 L33: 1.8013 L12: 0.5419 REMARK 3 L13: -0.3774 L23: 0.0014 REMARK 3 S TENSOR REMARK 3 S11: 0.0101 S12: -0.0357 S13: -0.2754 REMARK 3 S21: -0.0226 S22: -0.0151 S23: -0.5355 REMARK 3 S31: -0.1242 S32: -0.1018 S33: 0.0051 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : D 2 D 229 REMARK 3 ORIGIN FOR THE GROUP (A): -11.9260 21.0202 5.3579 REMARK 3 T TENSOR REMARK 3 T11: 0.3791 T22: 0.3974 REMARK 3 T33: 0.2544 T12: 0.0244 REMARK 3 T13: -0.0300 T23: 0.0922 REMARK 3 L TENSOR REMARK 3 L11: 2.8110 L22: 1.5284 REMARK 3 L33: 2.4463 L12: 0.4970 REMARK 3 L13: 0.0097 L23: -1.0181 REMARK 3 S TENSOR REMARK 3 S11: 0.0641 S12: -0.0152 S13: 0.1173 REMARK 3 S21: 0.0207 S22: 0.0391 S23: 0.2648 REMARK 3 S31: -0.2676 S32: 0.3628 S33: -0.1033 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 REMARK 4 REMARK 4 4IDU COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 21-DEC-12. REMARK 100 THE DEPOSITION ID IS D_1000076627. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 13-JUL-12 REMARK 200 TEMPERATURE (KELVIN) : 273 REMARK 200 PH : 7 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I04 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9218 REMARK 200 MONOCHROMATOR : GRAPHITE REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : AREA DETECTOR REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 18304 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.060 REMARK 200 RESOLUTION RANGE LOW (A) : 33.920 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 200 DATA REDUNDANCY : 7.500 REMARK 200 R MERGE (I) : 0.09300 REMARK 200 R SYM (I) : 0.09000 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 2.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.06 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.16 REMARK 200 COMPLETENESS FOR SHELL (%) : 93.8 REMARK 200 DATA REDUNDANCY IN SHELL : 6.90 REMARK 200 R MERGE FOR SHELL (I) : 0.77300 REMARK 200 R SYM FOR SHELL (I) : 0.76000 REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.600 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: SHELXS REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 48.46 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.39 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2M SODIUM FORMATE, 20% PEG3350, PH REMARK 280 7, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 297K 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 43.22000 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, 5 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 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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: 3 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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: 4 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: C 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: 5 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 MET A 1 REMARK 465 TRP A 193 REMARK 465 MET A 194 REMARK 465 THR A 195 REMARK 465 GLN A 196 REMARK 465 LYS A 197 REMARK 465 LYS A 215 REMARK 465 SER A 216 REMARK 465 GLY A 217 REMARK 465 PHE A 218 REMARK 465 SER A 219 REMARK 465 PHE A 229 REMARK 465 GLY A 230 REMARK 465 ILE A 231 REMARK 465 ASN A 232 REMARK 465 ILE A 233 REMARK 465 MET B 1 REMARK 465 SER B 2 REMARK 465 SER B 3 REMARK 465 PHE B 229 REMARK 465 GLY B 230 REMARK 465 ILE B 231 REMARK 465 ASN B 232 REMARK 465 ILE B 233 REMARK 465 MET C 1 REMARK 465 SER C 2 REMARK 465 SER C 3 REMARK 465 GLN C 4 REMARK 465 PHE C 5 REMARK 465 ASP C 9 REMARK 465 VAL C 10 REMARK 465 PRO C 11 REMARK 465 LYS C 215 REMARK 465 SER C 216 REMARK 465 GLY C 217 REMARK 465 PHE C 218 REMARK 465 SER C 219 REMARK 465 PRO C 220 REMARK 465 ALA C 221 REMARK 465 ALA C 222 REMARK 465 ARG C 223 REMARK 465 THR C 224 REMARK 465 PHE C 225 REMARK 465 LEU C 226 REMARK 465 GLN C 227 REMARK 465 GLN C 228 REMARK 465 PHE C 229 REMARK 465 GLY C 230 REMARK 465 ILE C 231 REMARK 465 ASN C 232 REMARK 465 ILE C 233 REMARK 465 MET D 1 REMARK 465 VAL D 10 REMARK 465 PRO D 11 REMARK 465 GLN D 12 REMARK 465 ARG D 13 REMARK 465 ASN D 14 REMARK 465 ALA D 15 REMARK 465 ALA D 16 REMARK 465 THR D 17 REMARK 465 THR D 195 REMARK 465 GLN D 196 REMARK 465 LYS D 197 REMARK 465 ILE D 198 REMARK 465 THR D 199 REMARK 465 ALA D 221 REMARK 465 GLY D 230 REMARK 465 ILE D 231 REMARK 465 ASN D 232 REMARK 465 ILE D 233 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 B 202 CD1 PHE B 205 1.65 REMARK 500 O PHE A 27 N GLY A 29 2.05 REMARK 500 CE1 HIS B 165 O PHE B 205 2.17 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 MET A 172 N - CA - C ANGL. DEV. = -17.2 DEGREES REMARK 500 ILE B 28 N - CA - C ANGL. DEV. = -19.2 DEGREES REMARK 500 THR B 195 N - CA - C ANGL. DEV. = 17.4 DEGREES REMARK 500 VAL C 180 N - CA - CB ANGL. DEV. = 13.6 DEGREES REMARK 500 TYR D 138 N - CA - C ANGL. DEV. = -25.6 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 GLN A 4 -135.85 -112.79 REMARK 500 PHE A 5 117.09 112.37 REMARK 500 PHE A 7 -125.15 -91.93 REMARK 500 GLU A 8 -52.21 -178.98 REMARK 500 ASP A 9 94.36 156.08 REMARK 500 VAL A 10 160.30 82.09 REMARK 500 PRO A 11 -113.37 -44.17 REMARK 500 GLN A 12 88.01 63.16 REMARK 500 ARG A 13 -85.48 161.49 REMARK 500 ASN A 14 -72.24 62.32 REMARK 500 PHE A 18 80.57 -49.36 REMARK 500 ASN A 19 -96.78 -148.29 REMARK 500 PRO A 20 24.01 -70.42 REMARK 500 GLU A 21 -19.17 -147.45 REMARK 500 ALA A 26 -78.70 -82.11 REMARK 500 PHE A 27 136.35 -25.83 REMARK 500 ILE A 28 -51.39 46.29 REMARK 500 TYR A 31 -43.59 72.33 REMARK 500 GLN A 80 -56.28 109.76 REMARK 500 VAL A 82 -8.33 -58.70 REMARK 500 SER A 119 -9.65 -57.24 REMARK 500 THR A 133 170.24 55.13 REMARK 500 ASP A 156 130.21 81.59 REMARK 500 PHE A 157 72.35 -49.10 REMARK 500 LYS A 169 -48.05 -156.95 REMARK 500 ASN A 171 -178.28 54.75 REMARK 500 MET A 172 172.82 151.26 REMARK 500 LEU A 181 -6.12 -57.71 REMARK 500 ARG A 184 -167.46 -115.74 REMARK 500 THR A 187 92.27 59.28 REMARK 500 ALA A 190 -115.86 165.83 REMARK 500 GLU A 200 -78.28 -172.38 REMARK 500 ILE A 201 -107.62 33.47 REMARK 500 ALA A 221 -97.83 48.58 REMARK 500 ARG A 223 -163.52 49.51 REMARK 500 PHE A 225 -151.45 76.16 REMARK 500 GLN A 227 94.98 -19.82 REMARK 500 ILE B 6 -66.61 -150.88 REMARK 500 PHE B 7 147.04 62.62 REMARK 500 PRO B 11 -160.76 -116.45 REMARK 500 ARG B 13 10.33 -63.49 REMARK 500 ALA B 16 36.83 -88.85 REMARK 500 PHE B 18 71.30 -113.70 REMARK 500 TYR B 24 -50.24 -10.40 REMARK 500 ILE B 28 -32.71 115.48 REMARK 500 LYS B 30 -71.27 -68.07 REMARK 500 GLN B 33 -0.51 -57.73 REMARK 500 GLN B 34 -18.60 -141.29 REMARK 500 LYS B 70 -50.40 59.50 REMARK 500 PHE B 71 139.95 -32.48 REMARK 500 REMARK 500 THIS ENTRY HAS 154 RAMACHANDRAN OUTLIERS. 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 GLY B 23 TYR B 24 148.61 REMARK 500 VAL B 69 LYS B 70 116.38 REMARK 500 REMARK 500 REMARK: NULL DBREF 4IDU A 1 233 UNP H2AM13 H2AM13_SBV 1 233 DBREF 4IDU B 1 233 UNP H2AM13 H2AM13_SBV 1 233 DBREF 4IDU C 1 233 UNP H2AM13 H2AM13_SBV 1 233 DBREF 4IDU D 1 233 UNP H2AM13 H2AM13_SBV 1 233 SEQRES 1 A 233 MET SER SER GLN PHE ILE PHE GLU ASP VAL PRO GLN ARG SEQRES 2 A 233 ASN ALA ALA THR PHE ASN PRO GLU VAL GLY TYR VAL ALA SEQRES 3 A 233 PHE ILE GLY LYS TYR GLY GLN GLN LEU ASN PHE GLY VAL SEQRES 4 A 233 ALA ARG VAL PHE PHE LEU ASN GLN LYS LYS ALA LYS MET SEQRES 5 A 233 VAL LEU HIS LYS THR ALA GLN PRO SER VAL ASP LEU THR SEQRES 6 A 233 PHE GLY GLY VAL LYS PHE THR VAL VAL ASN ASN HIS PHE SEQRES 7 A 233 PRO GLN TYR VAL SER ASN PRO VAL PRO ASP ASN ALA ILE SEQRES 8 A 233 THR LEU HIS ARG MET SER GLY TYR LEU ALA ARG TRP ILE SEQRES 9 A 233 ALA ASP THR CYS LYS ALA SER VAL LEU LYS LEU ALA GLU SEQRES 10 A 233 ALA SER ALA GLN ILE VAL MET PRO LEU ALA GLU VAL LYS SEQRES 11 A 233 GLY CYS THR TRP ALA ASP GLY TYR THR MET TYR LEU GLY SEQRES 12 A 233 PHE ALA PRO GLY ALA GLU MET PHE LEU ASP ALA PHE ASP SEQRES 13 A 233 PHE TYR PRO LEU VAL ILE GLU MET HIS ARG VAL LEU LYS SEQRES 14 A 233 ASP ASN MET ASP VAL ASN PHE MET LYS LYS VAL LEU ARG SEQRES 15 A 233 GLN ARG TYR GLY THR MET THR ALA GLU GLU TRP MET THR SEQRES 16 A 233 GLN LYS ILE THR GLU ILE LYS ALA ALA PHE ASN SER VAL SEQRES 17 A 233 GLY GLN LEU ALA TRP ALA LYS SER GLY PHE SER PRO ALA SEQRES 18 A 233 ALA ARG THR PHE LEU GLN GLN PHE GLY ILE ASN ILE SEQRES 1 B 233 MET SER SER GLN PHE ILE PHE GLU ASP VAL PRO GLN ARG SEQRES 2 B 233 ASN ALA ALA THR PHE ASN PRO GLU VAL GLY TYR VAL ALA SEQRES 3 B 233 PHE ILE GLY LYS TYR GLY GLN GLN LEU ASN PHE GLY VAL SEQRES 4 B 233 ALA ARG VAL PHE PHE LEU ASN GLN LYS LYS ALA LYS MET SEQRES 5 B 233 VAL LEU HIS LYS THR ALA GLN PRO SER VAL ASP LEU THR SEQRES 6 B 233 PHE GLY GLY VAL LYS PHE THR VAL VAL ASN ASN HIS PHE SEQRES 7 B 233 PRO GLN TYR VAL SER ASN PRO VAL PRO ASP ASN ALA ILE SEQRES 8 B 233 THR LEU HIS ARG MSE SER GLY TYR LEU ALA ARG TRP ILE SEQRES 9 B 233 ALA ASP THR CYS LYS ALA SER VAL LEU LYS LEU ALA GLU SEQRES 10 B 233 ALA SER ALA GLN ILE VAL MET PRO LEU ALA GLU VAL LYS SEQRES 11 B 233 GLY CYS THR TRP ALA ASP GLY TYR THR MET TYR LEU GLY SEQRES 12 B 233 PHE ALA PRO GLY ALA GLU MSE PHE LEU ASP ALA PHE ASP SEQRES 13 B 233 PHE TYR PRO LEU VAL ILE GLU MET HIS ARG VAL LEU LYS SEQRES 14 B 233 ASP ASN MET ASP VAL ASN PHE MET LYS LYS VAL LEU ARG SEQRES 15 B 233 GLN ARG TYR GLY THR MET THR ALA GLU GLU TRP MET THR SEQRES 16 B 233 GLN LYS ILE THR GLU ILE LYS ALA ALA PHE ASN SER VAL SEQRES 17 B 233 GLY GLN LEU ALA TRP ALA LYS SER GLY PHE SER PRO ALA SEQRES 18 B 233 ALA ARG THR PHE LEU GLN GLN PHE GLY ILE ASN ILE SEQRES 1 C 233 MET SER SER GLN PHE ILE PHE GLU ASP VAL PRO GLN ARG SEQRES 2 C 233 ASN ALA ALA THR PHE ASN PRO GLU VAL GLY TYR VAL ALA SEQRES 3 C 233 PHE ILE GLY LYS TYR GLY GLN GLN LEU ASN PHE GLY VAL SEQRES 4 C 233 ALA ARG VAL PHE PHE LEU ASN GLN LYS LYS ALA LYS MET SEQRES 5 C 233 VAL LEU HIS LYS THR ALA GLN PRO SER VAL ASP LEU THR SEQRES 6 C 233 PHE GLY GLY VAL LYS PHE THR VAL VAL ASN ASN HIS PHE SEQRES 7 C 233 PRO GLN TYR VAL SER ASN PRO VAL PRO ASP ASN ALA ILE SEQRES 8 C 233 THR LEU HIS ARG MET SER GLY TYR LEU ALA ARG TRP ILE SEQRES 9 C 233 ALA ASP THR CYS LYS ALA SER VAL LEU LYS LEU ALA GLU SEQRES 10 C 233 ALA SER ALA GLN ILE VAL MET PRO LEU ALA GLU VAL LYS SEQRES 11 C 233 GLY CYS THR TRP ALA ASP GLY TYR THR MET TYR LEU GLY SEQRES 12 C 233 PHE ALA PRO GLY ALA GLU MET PHE LEU ASP ALA PHE ASP SEQRES 13 C 233 PHE TYR PRO LEU VAL ILE GLU MET HIS ARG VAL LEU LYS SEQRES 14 C 233 ASP ASN MET ASP VAL ASN PHE MET LYS LYS VAL LEU ARG SEQRES 15 C 233 GLN ARG TYR GLY THR MET THR ALA GLU GLU TRP MET THR SEQRES 16 C 233 GLN LYS ILE THR GLU ILE LYS ALA ALA PHE ASN SER VAL SEQRES 17 C 233 GLY GLN LEU ALA TRP ALA LYS SER GLY PHE SER PRO ALA SEQRES 18 C 233 ALA ARG THR PHE LEU GLN GLN PHE GLY ILE ASN ILE SEQRES 1 D 233 MET SER SER GLN PHE ILE PHE GLU ASP VAL PRO GLN ARG SEQRES 2 D 233 ASN ALA ALA THR PHE ASN PRO GLU VAL GLY TYR VAL ALA SEQRES 3 D 233 PHE ILE GLY LYS TYR GLY GLN GLN LEU ASN PHE GLY VAL SEQRES 4 D 233 ALA ARG VAL PHE PHE LEU ASN GLN LYS LYS ALA LYS MET SEQRES 5 D 233 VAL LEU HIS LYS THR ALA GLN PRO SER VAL ASP LEU THR SEQRES 6 D 233 PHE GLY GLY VAL LYS PHE THR VAL VAL ASN ASN HIS PHE SEQRES 7 D 233 PRO GLN TYR VAL SER ASN PRO VAL PRO ASP ASN ALA ILE SEQRES 8 D 233 THR LEU HIS ARG MET SER GLY TYR LEU ALA ARG TRP ILE SEQRES 9 D 233 ALA ASP THR CYS LYS ALA SER VAL LEU LYS LEU ALA GLU SEQRES 10 D 233 ALA SER ALA GLN ILE VAL MET PRO LEU ALA GLU VAL LYS SEQRES 11 D 233 GLY CYS THR TRP ALA ASP GLY TYR THR MET TYR LEU GLY SEQRES 12 D 233 PHE ALA PRO GLY ALA GLU MET PHE LEU ASP ALA PHE ASP SEQRES 13 D 233 PHE TYR PRO LEU VAL ILE GLU MET HIS ARG VAL LEU LYS SEQRES 14 D 233 ASP ASN MET ASP VAL ASN PHE MET LYS LYS VAL LEU ARG SEQRES 15 D 233 GLN ARG TYR GLY THR MET THR ALA GLU GLU TRP MET THR SEQRES 16 D 233 GLN LYS ILE THR GLU ILE LYS ALA ALA PHE ASN SER VAL SEQRES 17 D 233 GLY GLN LEU ALA TRP ALA LYS SER GLY PHE SER PRO ALA SEQRES 18 D 233 ALA ARG THR PHE LEU GLN GLN PHE GLY ILE ASN ILE MODRES 4IDU MSE B 96 MET SELENOMETHIONINE MODRES 4IDU MSE B 150 MET SELENOMETHIONINE HET MSE B 96 8 HET MSE B 150 8 HETNAM MSE SELENOMETHIONINE FORMUL 2 MSE 2(C5 H11 N O2 SE) HELIX 1 1 ASN A 36 HIS A 55 1 20 HELIX 2 2 THR A 92 SER A 111 1 20 HELIX 3 3 SER A 111 ILE A 122 1 12 HELIX 4 4 MET A 124 VAL A 129 1 6 HELIX 5 5 GLY A 137 LEU A 142 1 6 HELIX 6 6 GLY A 143 ALA A 145 5 3 HELIX 7 7 GLY A 147 PHE A 151 5 5 HELIX 8 8 ARG A 166 ASN A 171 1 6 HELIX 9 9 ASN A 175 GLN A 183 5 9 HELIX 10 10 ILE A 201 GLY A 209 1 9 HELIX 11 11 PHE B 18 VAL B 25 1 8 HELIX 12 12 ASN B 36 THR B 57 1 22 HELIX 13 13 THR B 92 LYS B 109 1 18 HELIX 14 14 SER B 111 ILE B 122 1 12 HELIX 15 15 MET B 124 VAL B 129 1 6 HELIX 16 16 THR B 133 ASP B 136 5 4 HELIX 17 17 GLY B 137 LEU B 142 1 6 HELIX 18 18 GLY B 143 ALA B 145 5 3 HELIX 19 19 GLY B 147 PHE B 151 5 5 HELIX 20 20 LEU B 152 ASP B 156 5 5 HELIX 21 21 PHE B 157 GLU B 163 1 7 HELIX 22 22 GLN B 196 ILE B 201 1 6 HELIX 23 23 ASN B 206 LEU B 211 1 6 HELIX 24 24 VAL C 22 PHE C 27 1 6 HELIX 25 25 ASN C 36 PHE C 44 1 9 HELIX 26 26 GLN C 47 MET C 52 1 6 HELIX 27 27 THR C 92 CYS C 108 1 17 HELIX 28 28 VAL C 112 ILE C 122 1 11 HELIX 29 29 MET C 124 LYS C 130 1 7 HELIX 30 30 THR C 133 ASP C 136 5 4 HELIX 31 31 GLY C 137 LEU C 142 1 6 HELIX 32 32 GLY C 143 ALA C 145 5 3 HELIX 33 33 GLY C 147 PHE C 151 5 5 HELIX 34 34 PHE C 157 ASP C 170 1 14 HELIX 35 35 ASP C 173 LYS C 179 5 7 HELIX 36 36 THR C 199 PHE C 205 1 7 HELIX 37 37 ASN D 19 ALA D 26 1 8 HELIX 38 38 PHE D 27 GLY D 29 5 3 HELIX 39 39 GLY D 38 LEU D 45 1 8 HELIX 40 40 ASN D 46 LEU D 54 1 9 HELIX 41 41 THR D 92 CYS D 108 1 17 HELIX 42 42 SER D 111 ILE D 122 1 12 HELIX 43 43 MET D 124 VAL D 129 1 6 HELIX 44 44 TYR D 141 ALA D 145 5 5 HELIX 45 45 GLY D 147 LEU D 152 5 6 HELIX 46 46 PHE D 157 GLU D 163 1 7 HELIX 47 47 GLU D 163 LYS D 169 1 7 HELIX 48 48 VAL D 174 LYS D 179 1 6 HELIX 49 49 VAL D 180 GLN D 183 5 4 SHEET 1 A 2 SER A 61 PHE A 66 0 SHEET 2 A 2 VAL A 69 VAL A 74 -1 O PHE A 71 N LEU A 64 SHEET 1 B 2 SER B 61 ASP B 63 0 SHEET 2 B 2 THR B 72 VAL B 74 -1 O VAL B 73 N VAL B 62 SHEET 1 C 2 ASP C 63 THR C 65 0 SHEET 2 C 2 LYS C 70 THR C 72 -1 O PHE C 71 N LEU C 64 SHEET 1 D 2 LEU D 64 THR D 65 0 SHEET 2 D 2 LYS D 70 PHE D 71 -1 O PHE D 71 N LEU D 64 LINK C ARG B 95 N MSE B 96 1555 1555 1.32 LINK C MSE B 96 N SER B 97 1555 1555 1.34 LINK C GLU B 149 N MSE B 150 1555 1555 1.33 LINK C MSE B 150 N PHE B 151 1555 1555 1.33 CISPEP 1 GLN A 12 ARG A 13 0 -14.38 CISPEP 2 THR A 187 MET A 188 0 1.36 CISPEP 3 ALA A 190 GLU A 191 0 -2.63 CISPEP 4 VAL B 10 PRO B 11 0 -8.90 CISPEP 5 MET C 188 THR C 189 0 -2.80 CISPEP 6 SER D 3 GLN D 4 0 1.34 CISPEP 7 ILE D 6 PHE D 7 0 1.25 CRYST1 76.320 86.440 77.400 90.00 101.26 90.00 P 1 21 1 6 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 0.013103 0.000000 0.002609 0.00000 SCALE2 0.000000 0.011569 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013173 0.00000