HEADER VIRAL PROTEIN 12-JAN-07 2OJ5 TITLE CRYSTAL STRUCTURE OF REOVIRUS T3D ATTACHMENT PROTEIN SIGMA1 HEAD TITLE 2 DOMAIN WILD-TYPE AT 1.75 A RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: VIRAL ATTACHMENT PROTEIN SIGMA 1; COMPND 3 CHAIN: A, B, C, D, E, F; COMPND 4 FRAGMENT: HEAD DOMAIN; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: REOVIRUS SP.; SOURCE 3 ORGANISM_TAXID: 10891; SOURCE 4 GENE: S1; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21 (DE3)PLYSS; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PGEX-4T-3 KEYWDS BETA-BARREL, BETA-SPIRAL REPEAT, ASPARTIC ACID CLUSTER, GREEK KEY KEYWDS 2 MOTIF, TRIMER, VIRAL PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR T.STEHLE,P.SCHELLING,E.KIRCHNER,T.S.DERMODY REVDAT 5 30-AUG-23 2OJ5 1 REMARK SEQADV LINK REVDAT 4 13-JUL-11 2OJ5 1 VERSN REVDAT 3 24-FEB-09 2OJ5 1 VERSN REVDAT 2 24-APR-07 2OJ5 1 JRNL REVDAT 1 13-FEB-07 2OJ5 0 JRNL AUTH P.SCHELLING,K.M.GUGLIELMI,E.KIRCHNER,B.PAETZOLD,T.S.DERMODY, JRNL AUTH 2 T.STEHLE JRNL TITL THE REOVIRUS SIGMA1 ASPARTIC ACID SANDWICH: A TRIMERIZATION JRNL TITL 2 MOTIF POISED FOR CONFORMATIONAL CHANGE. JRNL REF J.BIOL.CHEM. V. 282 11582 2007 JRNL REFN ISSN 0021-9258 JRNL PMID 17303562 JRNL DOI 10.1074/JBC.M610805200 REMARK 2 REMARK 2 RESOLUTION. 1.75 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 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) : 1.75 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 96.7 REMARK 3 NUMBER OF REFLECTIONS : 90462 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) : 0.232 REMARK 3 R VALUE (WORKING SET) : 0.228 REMARK 3 FREE R VALUE : 0.274 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.000 REMARK 3 FREE R VALUE TEST SET COUNT : 9050 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 15 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.75 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.81 REMARK 3 REFLECTION IN BIN (WORKING SET) : 7017 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 86.13 REMARK 3 BIN R VALUE (WORKING SET) : 0.3030 REMARK 3 BIN FREE R VALUE SET COUNT : 792 REMARK 3 BIN FREE R VALUE : 0.3810 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 7481 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 7 REMARK 3 SOLVENT ATOMS : 1166 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 15.73 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.96000 REMARK 3 B22 (A**2) : 1.29000 REMARK 3 B33 (A**2) : -0.31000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.09000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.945 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.165 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): NULL REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): NULL REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.913 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.880 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 7928 ; 0.008 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 10861 ; 0.963 ; 1.938 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 1019 ; 6.402 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 343 ;35.185 ;23.469 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1161 ;12.727 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 46 ;14.270 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 1165 ; 0.070 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 6252 ; 0.003 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 3946 ; 0.210 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 5329 ; 0.319 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 1017 ; 0.156 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 2 ; 0.189 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 113 ; 0.264 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 46 ; 0.186 ; 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): 4959 ; 0.842 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 8047 ; 1.378 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2969 ; 1.579 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 2813 ; 2.483 ; 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: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 2OJ5 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 15-JAN-07. REMARK 100 THE DEPOSITION ID IS D_1000041200. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-JAN-04 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.9 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X29A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.1 REMARK 200 MONOCHROMATOR : GRAPHITE REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 90611 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.750 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.7 REMARK 200 DATA REDUNDANCY : 3.300 REMARK 200 R MERGE (I) : 0.09300 REMARK 200 R SYM (I) : 9.30000 REMARK 200 FOR THE DATA SET : 15.7100 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.75 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.81 REMARK 200 COMPLETENESS FOR SHELL (%) : 86.7 REMARK 200 DATA REDUNDANCY IN SHELL : 2.60 REMARK 200 R MERGE FOR SHELL (I) : 0.42700 REMARK 200 R SYM FOR SHELL (I) : 0.42700 REMARK 200 FOR SHELL : 2.260 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: RESIDUES 293-455 OF 1KKE REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 43.80 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.19 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M SODIUM CACODYLATE, 0.2 M REMARK 280 MAGNESIUM SULFATE, 10-12% PEG 8000; PROTEIN CONCENTRATION 13.6 REMARK 280 MG/ML, PH 6.9, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 25.69050 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 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 300 REMARK: TWO COPIES OF BIOLOGICAL ASSEMBLY (TRIMER) ARE PRESENT IN REMARK 300 THE ASYMMETRIC UNIT 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 7030 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 18690 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -44.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, 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: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 6780 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 18590 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -42.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: D, E, F REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 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 291 REMARK 465 SER A 292 REMARK 465 SER A 293 REMARK 465 GLY B 291 REMARK 465 SER B 292 REMARK 465 GLY C 291 REMARK 465 SER C 292 REMARK 465 THR C 455 REMARK 465 GLY D 291 REMARK 465 SER D 292 REMARK 465 SER D 293 REMARK 465 PRO D 294 REMARK 465 THR D 455 REMARK 465 GLY E 291 REMARK 465 SER E 292 REMARK 465 SER E 293 REMARK 465 THR E 455 REMARK 465 GLY F 291 REMARK 465 SER F 292 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 GLY D 406 C GLY D 407 N 0.142 REMARK 500 GLY E 406 N GLY E 406 CA 0.126 REMARK 500 GLY F 305 N GLY F 305 CA 0.091 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 SER A 304 44.42 38.09 REMARK 500 ASP A 345 -132.45 50.26 REMARK 500 PHE A 358 -150.23 -110.36 REMARK 500 HIS A 388 -119.39 51.71 REMARK 500 SER B 304 46.76 36.80 REMARK 500 ASP B 345 -135.45 48.58 REMARK 500 PHE B 358 -150.96 -112.76 REMARK 500 HIS B 388 -124.45 51.14 REMARK 500 TYR C 298 134.51 -38.56 REMARK 500 SER C 304 59.62 37.06 REMARK 500 ASP C 345 -135.65 49.58 REMARK 500 PHE C 358 -146.69 -109.67 REMARK 500 HIS C 388 -120.57 52.34 REMARK 500 VAL D 303 -80.91 -120.37 REMARK 500 SER D 304 51.70 -102.60 REMARK 500 ASP D 345 -131.51 49.57 REMARK 500 PHE D 358 -148.08 -110.73 REMARK 500 HIS D 388 -118.86 50.91 REMARK 500 HIS D 388 -116.72 50.91 REMARK 500 ASP E 345 -134.75 51.64 REMARK 500 PHE E 358 -145.85 -111.65 REMARK 500 HIS E 388 -118.81 53.23 REMARK 500 PRO F 294 1.50 -68.20 REMARK 500 TYR F 298 136.56 -39.19 REMARK 500 ASP F 345 -133.88 48.62 REMARK 500 PHE F 358 -151.81 -110.74 REMARK 500 HIS F 388 -114.72 53.31 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 PHE A 454 THR A 455 140.22 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A2001 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A2146 O REMARK 620 2 HOH A2213 O 168.7 REMARK 620 3 HOH A2214 O 79.6 89.3 REMARK 620 4 HOH A2215 O 88.7 91.2 97.3 REMARK 620 5 HOH A2216 O 89.3 101.9 168.4 85.7 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 2001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 2500 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1KKE RELATED DB: PDB REMARK 900 THE SAME PROTEIN, LONGER VERSION, LOWER RESOLUTION. REMARK 900 RELATED ID: 2OJ6 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF REOVIRUS T3D ATTACHMENT PROTEIN SIGMA1 HEAD REMARK 900 DOMAIN D345N MUTANT DBREF 2OJ5 A 293 455 UNP Q86337 Q86337_9REOV 293 455 DBREF 2OJ5 B 293 455 UNP Q86337 Q86337_9REOV 293 455 DBREF 2OJ5 C 293 455 UNP Q86337 Q86337_9REOV 293 455 DBREF 2OJ5 D 293 455 UNP Q86337 Q86337_9REOV 293 455 DBREF 2OJ5 E 293 455 UNP Q86337 Q86337_9REOV 293 455 DBREF 2OJ5 F 293 455 UNP Q86337 Q86337_9REOV 293 455 SEQADV 2OJ5 GLY A 291 UNP Q86337 CLONING ARTIFACT SEQADV 2OJ5 SER A 292 UNP Q86337 CLONING ARTIFACT SEQADV 2OJ5 GLY B 291 UNP Q86337 CLONING ARTIFACT SEQADV 2OJ5 SER B 292 UNP Q86337 CLONING ARTIFACT SEQADV 2OJ5 GLY C 291 UNP Q86337 CLONING ARTIFACT SEQADV 2OJ5 SER C 292 UNP Q86337 CLONING ARTIFACT SEQADV 2OJ5 GLY D 291 UNP Q86337 CLONING ARTIFACT SEQADV 2OJ5 SER D 292 UNP Q86337 CLONING ARTIFACT SEQADV 2OJ5 GLY E 291 UNP Q86337 CLONING ARTIFACT SEQADV 2OJ5 SER E 292 UNP Q86337 CLONING ARTIFACT SEQADV 2OJ5 GLY F 291 UNP Q86337 CLONING ARTIFACT SEQADV 2OJ5 SER F 292 UNP Q86337 CLONING ARTIFACT SEQRES 1 A 165 GLY SER SER PRO ASN LEU ARG TYR PRO ILE ALA ASP VAL SEQRES 2 A 165 SER GLY GLY ILE GLY MET SER PRO ASN TYR ARG PHE ARG SEQRES 3 A 165 GLN SER MET TRP ILE GLY ILE VAL SER TYR SER GLY SER SEQRES 4 A 165 GLY LEU ASN TRP ARG VAL GLN VAL ASN SER ASP ILE PHE SEQRES 5 A 165 ILE VAL ASP ASP TYR ILE HIS ILE CYS LEU PRO ALA PHE SEQRES 6 A 165 ASP GLY PHE SER ILE ALA ASP GLY GLY ASP LEU SER LEU SEQRES 7 A 165 ASN PHE VAL THR GLY LEU LEU PRO PRO LEU LEU THR GLY SEQRES 8 A 165 ASP THR GLU PRO ALA PHE HIS ASN ASP VAL VAL THR TYR SEQRES 9 A 165 GLY ALA GLN THR VAL ALA ILE GLY LEU SER SER GLY GLY SEQRES 10 A 165 THR PRO GLN TYR MET SER LYS ASN LEU TRP VAL GLU GLN SEQRES 11 A 165 TRP GLN ASP GLY VAL LEU ARG LEU ARG VAL GLU GLY GLY SEQRES 12 A 165 GLY SER ILE THR HIS SER ASN SER LYS TRP PRO ALA MET SEQRES 13 A 165 THR VAL SER TYR PRO ARG SER PHE THR SEQRES 1 B 165 GLY SER SER PRO ASN LEU ARG TYR PRO ILE ALA ASP VAL SEQRES 2 B 165 SER GLY GLY ILE GLY MET SER PRO ASN TYR ARG PHE ARG SEQRES 3 B 165 GLN SER MET TRP ILE GLY ILE VAL SER TYR SER GLY SER SEQRES 4 B 165 GLY LEU ASN TRP ARG VAL GLN VAL ASN SER ASP ILE PHE SEQRES 5 B 165 ILE VAL ASP ASP TYR ILE HIS ILE CYS LEU PRO ALA PHE SEQRES 6 B 165 ASP GLY PHE SER ILE ALA ASP GLY GLY ASP LEU SER LEU SEQRES 7 B 165 ASN PHE VAL THR GLY LEU LEU PRO PRO LEU LEU THR GLY SEQRES 8 B 165 ASP THR GLU PRO ALA PHE HIS ASN ASP VAL VAL THR TYR SEQRES 9 B 165 GLY ALA GLN THR VAL ALA ILE GLY LEU SER SER GLY GLY SEQRES 10 B 165 THR PRO GLN TYR MET SER LYS ASN LEU TRP VAL GLU GLN SEQRES 11 B 165 TRP GLN ASP GLY VAL LEU ARG LEU ARG VAL GLU GLY GLY SEQRES 12 B 165 GLY SER ILE THR HIS SER ASN SER LYS TRP PRO ALA MET SEQRES 13 B 165 THR VAL SER TYR PRO ARG SER PHE THR SEQRES 1 C 165 GLY SER SER PRO ASN LEU ARG TYR PRO ILE ALA ASP VAL SEQRES 2 C 165 SER GLY GLY ILE GLY MET SER PRO ASN TYR ARG PHE ARG SEQRES 3 C 165 GLN SER MET TRP ILE GLY ILE VAL SER TYR SER GLY SER SEQRES 4 C 165 GLY LEU ASN TRP ARG VAL GLN VAL ASN SER ASP ILE PHE SEQRES 5 C 165 ILE VAL ASP ASP TYR ILE HIS ILE CYS LEU PRO ALA PHE SEQRES 6 C 165 ASP GLY PHE SER ILE ALA ASP GLY GLY ASP LEU SER LEU SEQRES 7 C 165 ASN PHE VAL THR GLY LEU LEU PRO PRO LEU LEU THR GLY SEQRES 8 C 165 ASP THR GLU PRO ALA PHE HIS ASN ASP VAL VAL THR TYR SEQRES 9 C 165 GLY ALA GLN THR VAL ALA ILE GLY LEU SER SER GLY GLY SEQRES 10 C 165 THR PRO GLN TYR MET SER LYS ASN LEU TRP VAL GLU GLN SEQRES 11 C 165 TRP GLN ASP GLY VAL LEU ARG LEU ARG VAL GLU GLY GLY SEQRES 12 C 165 GLY SER ILE THR HIS SER ASN SER LYS TRP PRO ALA MET SEQRES 13 C 165 THR VAL SER TYR PRO ARG SER PHE THR SEQRES 1 D 165 GLY SER SER PRO ASN LEU ARG TYR PRO ILE ALA ASP VAL SEQRES 2 D 165 SER GLY GLY ILE GLY MET SER PRO ASN TYR ARG PHE ARG SEQRES 3 D 165 GLN SER MET TRP ILE GLY ILE VAL SER TYR SER GLY SER SEQRES 4 D 165 GLY LEU ASN TRP ARG VAL GLN VAL ASN SER ASP ILE PHE SEQRES 5 D 165 ILE VAL ASP ASP TYR ILE HIS ILE CYS LEU PRO ALA PHE SEQRES 6 D 165 ASP GLY PHE SER ILE ALA ASP GLY GLY ASP LEU SER LEU SEQRES 7 D 165 ASN PHE VAL THR GLY LEU LEU PRO PRO LEU LEU THR GLY SEQRES 8 D 165 ASP THR GLU PRO ALA PHE HIS ASN ASP VAL VAL THR TYR SEQRES 9 D 165 GLY ALA GLN THR VAL ALA ILE GLY LEU SER SER GLY GLY SEQRES 10 D 165 THR PRO GLN TYR MET SER LYS ASN LEU TRP VAL GLU GLN SEQRES 11 D 165 TRP GLN ASP GLY VAL LEU ARG LEU ARG VAL GLU GLY GLY SEQRES 12 D 165 GLY SER ILE THR HIS SER ASN SER LYS TRP PRO ALA MET SEQRES 13 D 165 THR VAL SER TYR PRO ARG SER PHE THR SEQRES 1 E 165 GLY SER SER PRO ASN LEU ARG TYR PRO ILE ALA ASP VAL SEQRES 2 E 165 SER GLY GLY ILE GLY MET SER PRO ASN TYR ARG PHE ARG SEQRES 3 E 165 GLN SER MET TRP ILE GLY ILE VAL SER TYR SER GLY SER SEQRES 4 E 165 GLY LEU ASN TRP ARG VAL GLN VAL ASN SER ASP ILE PHE SEQRES 5 E 165 ILE VAL ASP ASP TYR ILE HIS ILE CYS LEU PRO ALA PHE SEQRES 6 E 165 ASP GLY PHE SER ILE ALA ASP GLY GLY ASP LEU SER LEU SEQRES 7 E 165 ASN PHE VAL THR GLY LEU LEU PRO PRO LEU LEU THR GLY SEQRES 8 E 165 ASP THR GLU PRO ALA PHE HIS ASN ASP VAL VAL THR TYR SEQRES 9 E 165 GLY ALA GLN THR VAL ALA ILE GLY LEU SER SER GLY GLY SEQRES 10 E 165 THR PRO GLN TYR MET SER LYS ASN LEU TRP VAL GLU GLN SEQRES 11 E 165 TRP GLN ASP GLY VAL LEU ARG LEU ARG VAL GLU GLY GLY SEQRES 12 E 165 GLY SER ILE THR HIS SER ASN SER LYS TRP PRO ALA MET SEQRES 13 E 165 THR VAL SER TYR PRO ARG SER PHE THR SEQRES 1 F 165 GLY SER SER PRO ASN LEU ARG TYR PRO ILE ALA ASP VAL SEQRES 2 F 165 SER GLY GLY ILE GLY MET SER PRO ASN TYR ARG PHE ARG SEQRES 3 F 165 GLN SER MET TRP ILE GLY ILE VAL SER TYR SER GLY SER SEQRES 4 F 165 GLY LEU ASN TRP ARG VAL GLN VAL ASN SER ASP ILE PHE SEQRES 5 F 165 ILE VAL ASP ASP TYR ILE HIS ILE CYS LEU PRO ALA PHE SEQRES 6 F 165 ASP GLY PHE SER ILE ALA ASP GLY GLY ASP LEU SER LEU SEQRES 7 F 165 ASN PHE VAL THR GLY LEU LEU PRO PRO LEU LEU THR GLY SEQRES 8 F 165 ASP THR GLU PRO ALA PHE HIS ASN ASP VAL VAL THR TYR SEQRES 9 F 165 GLY ALA GLN THR VAL ALA ILE GLY LEU SER SER GLY GLY SEQRES 10 F 165 THR PRO GLN TYR MET SER LYS ASN LEU TRP VAL GLU GLN SEQRES 11 F 165 TRP GLN ASP GLY VAL LEU ARG LEU ARG VAL GLU GLY GLY SEQRES 12 F 165 GLY SER ILE THR HIS SER ASN SER LYS TRP PRO ALA MET SEQRES 13 F 165 THR VAL SER TYR PRO ARG SER PHE THR HET MG A2001 1 HET GOL B2500 6 HETNAM MG MAGNESIUM ION HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 7 MG MG 2+ FORMUL 8 GOL C3 H8 O3 FORMUL 9 HOH *1166(H2 O) HELIX 1 1 SER A 310 PHE A 315 1 6 HELIX 2 2 LEU A 379 GLU A 384 5 6 HELIX 3 3 SER B 310 PHE B 315 1 6 HELIX 4 4 LEU B 379 GLU B 384 5 6 HELIX 5 5 SER C 310 PHE C 315 1 6 HELIX 6 6 LEU C 379 GLU C 384 5 6 HELIX 7 7 SER D 310 PHE D 315 1 6 HELIX 8 8 LEU D 379 GLU D 384 5 6 HELIX 9 9 SER E 310 PHE E 315 1 6 HELIX 10 10 LEU E 379 GLU E 384 5 6 HELIX 11 11 SER F 310 PHE F 315 1 6 HELIX 12 12 LEU F 379 GLU F 384 5 6 SHEET 1 A 2 ILE A 300 VAL A 303 0 SHEET 2 A 2 GLY A 306 MET A 309 -1 O GLY A 306 N VAL A 303 SHEET 1 B10 PHE A 355 PHE A 358 0 SHEET 2 B10 ASN A 440 TRP A 443 -1 O TRP A 443 N PHE A 355 SHEET 3 B10 TYR A 394 SER A 404 -1 N GLY A 402 O LYS A 442 SHEET 4 B10 GLN A 410 GLN A 422 -1 O LYS A 414 N VAL A 399 SHEET 5 B10 VAL A 425 GLU A 431 -1 O ARG A 427 N GLN A 420 SHEET 6 B10 GLY A 363 ASN A 369 -1 N LEU A 366 O LEU A 428 SHEET 7 B10 ARG A 316 GLY A 328 -1 N SER A 327 O ASP A 365 SHEET 8 B10 LEU A 331 VAL A 344 -1 O ILE A 341 N SER A 318 SHEET 9 B10 TYR A 347 LEU A 352 -1 O CYS A 351 N ASP A 340 SHEET 10 B10 MET A 446 PRO A 451 -1 O VAL A 448 N ILE A 350 SHEET 1 C 2 ILE B 300 VAL B 303 0 SHEET 2 C 2 GLY B 306 MET B 309 -1 O GLY B 308 N ALA B 301 SHEET 1 D10 PHE B 355 PHE B 358 0 SHEET 2 D10 ASN B 440 TRP B 443 -1 O TRP B 443 N PHE B 355 SHEET 3 D10 TYR B 394 SER B 404 -1 N GLY B 402 O LYS B 442 SHEET 4 D10 GLN B 410 GLN B 422 -1 O LYS B 414 N VAL B 399 SHEET 5 D10 VAL B 425 GLU B 431 -1 O ARG B 427 N GLN B 420 SHEET 6 D10 GLY B 363 ASN B 369 -1 N LEU B 366 O LEU B 428 SHEET 7 D10 ARG B 316 GLY B 328 -1 N SER B 327 O ASP B 365 SHEET 8 D10 LEU B 331 VAL B 344 -1 O TRP B 333 N TYR B 326 SHEET 9 D10 TYR B 347 LEU B 352 -1 O HIS B 349 N PHE B 342 SHEET 10 D10 MET B 446 PRO B 451 -1 O VAL B 448 N ILE B 350 SHEET 1 E 2 ILE C 300 VAL C 303 0 SHEET 2 E 2 GLY C 306 MET C 309 -1 O GLY C 308 N ALA C 301 SHEET 1 F10 PHE C 355 GLY C 357 0 SHEET 2 F10 ASN C 440 TRP C 443 -1 O TRP C 443 N PHE C 355 SHEET 3 F10 TYR C 394 SER C 404 -1 N GLY C 402 O LYS C 442 SHEET 4 F10 GLN C 410 GLN C 422 -1 O GLN C 410 N LEU C 403 SHEET 5 F10 VAL C 425 GLU C 431 -1 O ARG C 427 N GLN C 420 SHEET 6 F10 GLY C 363 ASN C 369 -1 N LEU C 366 O LEU C 428 SHEET 7 F10 ARG C 316 GLY C 328 -1 N SER C 327 O ASP C 365 SHEET 8 F10 LEU C 331 VAL C 344 -1 O ILE C 343 N ARG C 316 SHEET 9 F10 TYR C 347 LEU C 352 -1 O HIS C 349 N PHE C 342 SHEET 10 F10 MET C 446 PRO C 451 -1 O VAL C 448 N ILE C 350 SHEET 1 G 2 ILE D 300 ASP D 302 0 SHEET 2 G 2 ILE D 307 MET D 309 -1 O GLY D 308 N ALA D 301 SHEET 1 H10 PHE D 355 PHE D 358 0 SHEET 2 H10 ASN D 440 TRP D 443 -1 O SER D 441 N GLY D 357 SHEET 3 H10 TYR D 394 SER D 404 -1 N GLY D 402 O LYS D 442 SHEET 4 H10 GLN D 410 GLN D 422 -1 O LYS D 414 N VAL D 399 SHEET 5 H10 VAL D 425 GLU D 431 -1 O ARG D 427 N GLN D 420 SHEET 6 H10 GLY D 363 ASN D 369 -1 N LEU D 366 O LEU D 428 SHEET 7 H10 ARG D 316 GLY D 328 -1 N SER D 327 O ASP D 365 SHEET 8 H10 LEU D 331 VAL D 344 -1 O ILE D 341 N SER D 318 SHEET 9 H10 TYR D 347 LEU D 352 -1 O CYS D 351 N ASP D 340 SHEET 10 H10 MET D 446 PRO D 451 -1 O VAL D 448 N ILE D 350 SHEET 1 I 2 ILE E 300 VAL E 303 0 SHEET 2 I 2 GLY E 306 MET E 309 -1 O GLY E 308 N ALA E 301 SHEET 1 J10 PHE E 355 PHE E 358 0 SHEET 2 J10 ASN E 440 TRP E 443 -1 O TRP E 443 N PHE E 355 SHEET 3 J10 TYR E 394 SER E 404 -1 N SER E 404 O ASN E 440 SHEET 4 J10 GLN E 410 GLN E 422 -1 O VAL E 418 N TYR E 394 SHEET 5 J10 VAL E 425 GLU E 431 -1 O ARG E 427 N GLN E 420 SHEET 6 J10 GLY E 363 ASN E 369 -1 N LEU E 366 O LEU E 428 SHEET 7 J10 ARG E 316 GLY E 328 -1 N SER E 327 O ASP E 365 SHEET 8 J10 LEU E 331 VAL E 344 -1 O SER E 339 N TRP E 320 SHEET 9 J10 TYR E 347 LEU E 352 -1 O HIS E 349 N PHE E 342 SHEET 10 J10 MET E 446 PRO E 451 -1 O VAL E 448 N ILE E 350 SHEET 1 K 2 ILE F 300 VAL F 303 0 SHEET 2 K 2 GLY F 306 MET F 309 -1 O GLY F 306 N VAL F 303 SHEET 1 L10 PHE F 355 GLY F 357 0 SHEET 2 L10 ASN F 440 TRP F 443 -1 O SER F 441 N GLY F 357 SHEET 3 L10 TYR F 394 SER F 404 -1 N GLY F 402 O LYS F 442 SHEET 4 L10 GLN F 410 GLN F 422 -1 O VAL F 418 N TYR F 394 SHEET 5 L10 VAL F 425 GLU F 431 -1 O ARG F 427 N GLN F 420 SHEET 6 L10 GLY F 363 ASN F 369 -1 N LEU F 366 O LEU F 428 SHEET 7 L10 ARG F 316 GLY F 328 -1 N SER F 325 O SER F 367 SHEET 8 L10 LEU F 331 VAL F 344 -1 O ILE F 341 N SER F 318 SHEET 9 L10 TYR F 347 LEU F 352 -1 O HIS F 349 N PHE F 342 SHEET 10 L10 MET F 446 PRO F 451 -1 O VAL F 448 N ILE F 350 LINK MG MG A2001 O HOH A2146 1555 1555 2.16 LINK MG MG A2001 O HOH A2213 1555 1555 1.91 LINK MG MG A2001 O HOH A2214 1555 1555 2.38 LINK MG MG A2001 O HOH A2215 1555 1555 1.74 LINK MG MG A2001 O HOH A2216 1555 1555 2.14 CISPEP 1 TYR A 298 PRO A 299 0 10.88 CISPEP 2 PRO A 376 PRO A 377 0 8.26 CISPEP 3 TYR B 298 PRO B 299 0 10.45 CISPEP 4 PRO B 376 PRO B 377 0 5.70 CISPEP 5 TYR C 298 PRO C 299 0 3.85 CISPEP 6 PRO C 376 PRO C 377 0 8.48 CISPEP 7 TYR D 298 PRO D 299 0 5.96 CISPEP 8 PRO D 376 PRO D 377 0 7.35 CISPEP 9 TYR E 298 PRO E 299 0 12.59 CISPEP 10 PRO E 376 PRO E 377 0 4.47 CISPEP 11 TYR F 298 PRO F 299 0 6.55 CISPEP 12 PRO F 376 PRO F 377 0 6.46 SITE 1 AC1 5 HOH A2146 HOH A2213 HOH A2214 HOH A2215 SITE 2 AC1 5 HOH A2216 SITE 1 AC2 7 ASP B 365 GLU B 419 ARG B 427 ARG B 429 SITE 2 AC2 7 HOH B2615 GLY E 330 ASN E 332 CRYST1 83.927 51.381 108.870 90.00 95.66 90.00 P 1 21 1 12 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.011915 0.000000 0.001181 0.00000 SCALE2 0.000000 0.019462 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009230 0.00000