HEADER VIRAL PROTEIN,TRANSFERASE 22-SEP-10 3OY2 TITLE CRYSTAL STRUCTURE OF A PUTATIVE GLYCOSYLTRANSFERASE FROM PARAMECIUM TITLE 2 BURSARIA CHLORELLA VIRUS NY2A COMPND MOL_ID: 1; COMPND 2 MOLECULE: GLYCOSYLTRANSFERASE B736L; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PARAMECIUM BURSARIA CHLORELLA VIRUS NY2A; SOURCE 3 ORGANISM_COMMON: PBCV-NY2A; SOURCE 4 ORGANISM_TAXID: 46021; SOURCE 5 GENE: B736L, NY2A_B736L; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS ROSSMANN FOLD, GLYCOSYLTRANSFERASE, GDP-MANNOSE, SUGAR, VIRUS CAPSID KEYWDS 2 PROTEINS, VIRAL PROTEIN, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR Y.XIANG,M.G.ROSSMANN REVDAT 2 21-FEB-24 3OY2 1 SEQADV REVDAT 1 17-NOV-10 3OY2 0 JRNL AUTH Y.XIANG,U.BAXA,Y.ZHANG,A.C.STEVEN,G.L.LEWIS,J.L.VAN ETTEN, JRNL AUTH 2 M.G.ROSSMANN JRNL TITL CRYSTAL STRUCTURE OF A VIRUS-ENCODED PUTATIVE JRNL TITL 2 GLYCOSYLTRANSFERASE JRNL REF J.VIROL. V. 84 12265 2010 JRNL REFN ISSN 0022-538X JRNL PMID 20861263 JRNL DOI 10.1128/JVI.01303-10 REMARK 2 REMARK 2 RESOLUTION. 2.31 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0088 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD WITH PHASES REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.31 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 130.19 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 3 NUMBER OF REFLECTIONS : 53234 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) : 0.235 REMARK 3 R VALUE (WORKING SET) : 0.233 REMARK 3 FREE R VALUE : 0.268 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2843 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) : 2.31 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.37 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3558 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 91.78 REMARK 3 BIN R VALUE (WORKING SET) : 0.2950 REMARK 3 BIN FREE R VALUE SET COUNT : 204 REMARK 3 BIN FREE R VALUE : 0.3460 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6202 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 107 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 15.93 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.62000 REMARK 3 B22 (A**2) : -0.17000 REMARK 3 B33 (A**2) : -1.45000 REMARK 3 B12 (A**2) : 0.00000 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): 0.261 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.217 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.167 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 15.129 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.933 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.912 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 6338 ; 0.016 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 8572 ; 1.778 ; 1.942 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 782 ; 6.934 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 290 ;41.370 ;23.586 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1098 ;22.176 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 40 ;20.212 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 956 ; 0.152 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4768 ; 0.007 ; 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): 3886 ; 0.624 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 6294 ; 1.192 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2452 ; 1.971 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 2278 ; 2.985 ; 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 : 3 REMARK 3 REMARK 3 NCS GROUP NUMBER : 1 REMARK 3 CHAIN NAMES : A B REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 165 A 373 4 REMARK 3 1 B 165 B 373 4 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 MEDIUM POSITIONAL 1 A (A): 1643 ; 0.40 ; 0.50 REMARK 3 MEDIUM THERMAL 1 A (A**2): 1643 ; 1.08 ; 2.00 REMARK 3 REMARK 3 NCS GROUP NUMBER : 2 REMARK 3 CHAIN NAMES : A B REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 1 A 164 3 REMARK 3 1 B 1 B 164 3 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 TIGHT POSITIONAL 2 A (A): 656 ; 0.05 ; 0.05 REMARK 3 LOOSE POSITIONAL 2 A (A): 643 ; 0.06 ; 5.00 REMARK 3 TIGHT THERMAL 2 A (A**2): 656 ; 0.14 ; 0.50 REMARK 3 LOOSE THERMAL 2 A (A**2): 643 ; 0.20 ; 10.00 REMARK 3 REMARK 3 NCS GROUP NUMBER : 3 REMARK 3 CHAIN NAMES : A B REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 374 A 392 4 REMARK 3 1 B 374 B 392 4 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 MEDIUM POSITIONAL 3 A (A): 160 ; 0.33 ; 0.50 REMARK 3 MEDIUM THERMAL 3 A (A**2): 160 ; 0.75 ; 2.00 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 3 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 1 A 163 REMARK 3 ORIGIN FOR THE GROUP (A): -32.5001 -66.2523 -17.6425 REMARK 3 T TENSOR REMARK 3 T11: 0.1511 T22: 0.1844 REMARK 3 T33: 0.3062 T12: -0.0268 REMARK 3 T13: -0.0123 T23: -0.0200 REMARK 3 L TENSOR REMARK 3 L11: 2.8958 L22: 1.7514 REMARK 3 L33: 2.4854 L12: 1.2719 REMARK 3 L13: 1.6838 L23: 0.9295 REMARK 3 S TENSOR REMARK 3 S11: 0.0683 S12: 0.1365 S13: -0.3557 REMARK 3 S21: -0.0819 S22: 0.0322 S23: -0.0253 REMARK 3 S31: 0.2887 S32: 0.1306 S33: -0.1005 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 1 B 163 REMARK 3 ORIGIN FOR THE GROUP (A): -31.5908 -8.7671 -18.2983 REMARK 3 T TENSOR REMARK 3 T11: 1.4420 T22: 0.5886 REMARK 3 T33: 0.7396 T12: 0.3105 REMARK 3 T13: -0.2562 T23: -0.1166 REMARK 3 L TENSOR REMARK 3 L11: 1.1192 L22: 8.2240 REMARK 3 L33: 5.0625 L12: -0.1215 REMARK 3 L13: 0.9035 L23: 2.7366 REMARK 3 S TENSOR REMARK 3 S11: 0.0223 S12: -0.0037 S13: 0.5177 REMARK 3 S21: -1.0245 S22: -0.7885 S23: 1.4280 REMARK 3 S31: -1.6481 S32: -1.2358 S33: 0.7662 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 164 A 392 REMARK 3 RESIDUE RANGE : B 164 B 392 REMARK 3 ORIGIN FOR THE GROUP (A): -16.6324 -37.8979 -13.6403 REMARK 3 T TENSOR REMARK 3 T11: 0.2213 T22: 0.2565 REMARK 3 T33: 0.2146 T12: -0.1100 REMARK 3 T13: -0.0461 T23: 0.0214 REMARK 3 L TENSOR REMARK 3 L11: 1.0612 L22: 1.3826 REMARK 3 L33: 3.7691 L12: -0.0442 REMARK 3 L13: -0.4366 L23: 0.5252 REMARK 3 S TENSOR REMARK 3 S11: 0.0666 S12: 0.0717 S13: 0.0973 REMARK 3 S21: -0.2443 S22: -0.0802 S23: 0.1588 REMARK 3 S31: -0.8301 S32: 0.2185 S33: 0.0136 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 3OY2 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 24-SEP-10. REMARK 100 THE DEPOSITION ID IS D_1000061715. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-JAN-08 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 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) : 1.03 REMARK 200 MONOCHROMATOR : SI 111 REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARCCD 300 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 56045 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : 0.07400 REMARK 200 R SYM (I) : 0.07400 REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.38 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.6 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.49000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 4.200 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: SOLVE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 63.95 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.41 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 100MM TRIS-HCL PH7.0, 20% W/V PEG3350, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 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 33.58500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 33.58500 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 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 76.80750 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 123.47050 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 76.80750 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 123.47050 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 33.58500 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 76.80750 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 123.47050 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 33.58500 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 76.80750 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 123.47050 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2800 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 32700 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -11.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 VAL A 393 REMARK 465 GLU A 394 REMARK 465 SER A 395 REMARK 465 ARG A 396 REMARK 465 GLU A 397 REMARK 465 THR A 398 REMARK 465 PRO A 399 REMARK 465 GLY A 400 REMARK 465 ASN A 401 REMARK 465 GLU A 402 REMARK 465 GLU A 403 REMARK 465 HIS A 404 REMARK 465 PRO A 405 REMARK 465 LEU A 406 REMARK 465 GLU A 407 REMARK 465 HIS A 408 REMARK 465 HIS A 409 REMARK 465 HIS A 410 REMARK 465 HIS A 411 REMARK 465 HIS A 412 REMARK 465 HIS A 413 REMARK 465 VAL B 393 REMARK 465 GLU B 394 REMARK 465 SER B 395 REMARK 465 ARG B 396 REMARK 465 GLU B 397 REMARK 465 THR B 398 REMARK 465 PRO B 399 REMARK 465 GLY B 400 REMARK 465 ASN B 401 REMARK 465 GLU B 402 REMARK 465 GLU B 403 REMARK 465 HIS B 404 REMARK 465 PRO B 405 REMARK 465 LEU B 406 REMARK 465 GLU B 407 REMARK 465 HIS B 408 REMARK 465 HIS B 409 REMARK 465 HIS B 410 REMARK 465 HIS B 411 REMARK 465 HIS B 412 REMARK 465 HIS B 413 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 VAL A 328 CB VAL A 328 CG1 -0.138 REMARK 500 ASN B 388 CB ASN B 388 CG 0.286 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 ARG A 122 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 ARG A 196 NE - CZ - NH2 ANGL. DEV. = -3.7 DEGREES REMARK 500 ARG A 198 NE - CZ - NH2 ANGL. DEV. = -5.4 DEGREES REMARK 500 ASP A 332 CB - CG - OD1 ANGL. DEV. = -6.5 DEGREES REMARK 500 LEU B 3 CA - CB - CG ANGL. DEV. = 14.5 DEGREES REMARK 500 ARG B 198 NE - CZ - NH1 ANGL. DEV. = 4.5 DEGREES REMARK 500 ARG B 198 NE - CZ - NH2 ANGL. DEV. = -7.0 DEGREES REMARK 500 VAL B 203 CG1 - CB - CG2 ANGL. DEV. = 10.4 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 89 -170.03 -171.46 REMARK 500 LEU A 288 -71.28 -73.32 REMARK 500 CYS A 289 46.15 -74.79 REMARK 500 SER A 290 -49.96 -159.94 REMARK 500 ALA A 291 -34.86 -35.61 REMARK 500 ASN B 89 -166.64 -171.58 REMARK 500 SER B 161 -163.88 -78.81 REMARK 500 LEU B 288 -72.30 -86.06 REMARK 500 SER B 290 -65.99 177.23 REMARK 500 SER B 313 119.95 135.63 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 ARG A 331 ASP A 332 -143.47 REMARK 500 LEU B 262 THR B 263 149.16 REMARK 500 PHE B 312 SER B 313 123.15 REMARK 500 ARG B 331 ASP B 332 -146.31 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3OY7 RELATED DB: PDB DBREF 3OY2 A 1 405 UNP A7IXR1 A7IXR1_PBCVN 1 405 DBREF 3OY2 B 1 405 UNP A7IXR1 A7IXR1_PBCVN 1 405 SEQADV 3OY2 LEU A 406 UNP A7IXR1 EXPRESSION TAG SEQADV 3OY2 GLU A 407 UNP A7IXR1 EXPRESSION TAG SEQADV 3OY2 HIS A 408 UNP A7IXR1 EXPRESSION TAG SEQADV 3OY2 HIS A 409 UNP A7IXR1 EXPRESSION TAG SEQADV 3OY2 HIS A 410 UNP A7IXR1 EXPRESSION TAG SEQADV 3OY2 HIS A 411 UNP A7IXR1 EXPRESSION TAG SEQADV 3OY2 HIS A 412 UNP A7IXR1 EXPRESSION TAG SEQADV 3OY2 HIS A 413 UNP A7IXR1 EXPRESSION TAG SEQADV 3OY2 LEU B 406 UNP A7IXR1 EXPRESSION TAG SEQADV 3OY2 GLU B 407 UNP A7IXR1 EXPRESSION TAG SEQADV 3OY2 HIS B 408 UNP A7IXR1 EXPRESSION TAG SEQADV 3OY2 HIS B 409 UNP A7IXR1 EXPRESSION TAG SEQADV 3OY2 HIS B 410 UNP A7IXR1 EXPRESSION TAG SEQADV 3OY2 HIS B 411 UNP A7IXR1 EXPRESSION TAG SEQADV 3OY2 HIS B 412 UNP A7IXR1 EXPRESSION TAG SEQADV 3OY2 HIS B 413 UNP A7IXR1 EXPRESSION TAG SEQRES 1 A 413 MET LYS LEU ILE ILE VAL GLY ALA HIS SER SER VAL PRO SEQRES 2 A 413 SER GLY TYR GLY ARG VAL MET ARG ALA ILE VAL PRO ARG SEQRES 3 A 413 ILE SER LYS ALA HIS GLU VAL ILE VAL PHE GLY ILE HIS SEQRES 4 A 413 ALA PHE GLY ARG SER VAL HIS ALA ASN ILE GLU GLU PHE SEQRES 5 A 413 ASP ALA GLN THR ALA GLU HIS VAL ARG GLY LEU ASN GLU SEQRES 6 A 413 GLN GLY PHE TYR TYR SER GLY LEU SER GLU PHE ILE ASP SEQRES 7 A 413 VAL HIS LYS PRO ASP ILE VAL MET ILE TYR ASN ASP PRO SEQRES 8 A 413 ILE VAL ILE GLY ASN TYR LEU LEU ALA MET GLY LYS CYS SEQRES 9 A 413 SER HIS ARG THR LYS ILE VAL LEU TYR VAL ASP LEU VAL SEQRES 10 A 413 SER LYS ASN ILE ARG GLU ASN LEU TRP TRP ILE PHE SER SEQRES 11 A 413 HIS PRO LYS VAL VAL GLY VAL MET ALA MET SER LYS CYS SEQRES 12 A 413 TRP ILE SER ASP ILE CYS ASN TYR GLY CYS LYS VAL PRO SEQRES 13 A 413 ILE ASN ILE VAL SER HIS PHE VAL ASP THR LYS THR ILE SEQRES 14 A 413 TYR ASP ALA ARG LYS LEU VAL GLY LEU SER GLU TYR ASN SEQRES 15 A 413 ASP ASP VAL LEU PHE LEU ASN MET ASN ARG ASN THR ALA SEQRES 16 A 413 ARG LYS ARG LEU ASP ILE TYR VAL LEU ALA ALA ALA ARG SEQRES 17 A 413 PHE ILE SER LYS TYR PRO ASP ALA LYS VAL ARG PHE LEU SEQRES 18 A 413 CYS ASN SER HIS HIS GLU SER LYS PHE ASP LEU HIS SER SEQRES 19 A 413 ILE ALA LEU ARG GLU LEU VAL ALA SER GLY VAL ASP ASN SEQRES 20 A 413 VAL PHE THR HIS LEU ASN LYS ILE MET ILE ASN ARG THR SEQRES 21 A 413 VAL LEU THR ASP GLU ARG VAL ASP MET MET TYR ASN ALA SEQRES 22 A 413 CYS ASP VAL ILE VAL ASN CYS SER SER GLY GLU GLY PHE SEQRES 23 A 413 GLY LEU CYS SER ALA GLU GLY ALA VAL LEU GLY LYS PRO SEQRES 24 A 413 LEU ILE ILE SER ALA VAL GLY GLY ALA ASP ASP TYR PHE SEQRES 25 A 413 SER GLY ASP CYS VAL TYR LYS ILE LYS PRO SER ALA TRP SEQRES 26 A 413 ILE SER VAL ASP ASP ARG ASP GLY ILE GLY GLY ILE GLU SEQRES 27 A 413 GLY ILE ILE ASP VAL ASP ASP LEU VAL GLU ALA PHE THR SEQRES 28 A 413 PHE PHE LYS ASP GLU LYS ASN ARG LYS GLU TYR GLY LYS SEQRES 29 A 413 ARG VAL GLN ASP PHE VAL LYS THR LYS PRO THR TRP ASP SEQRES 30 A 413 ASP ILE SER SER ASP ILE ILE ASP PHE PHE ASN SER LEU SEQRES 31 A 413 LEU ARG VAL GLU SER ARG GLU THR PRO GLY ASN GLU GLU SEQRES 32 A 413 HIS PRO LEU GLU HIS HIS HIS HIS HIS HIS SEQRES 1 B 413 MET LYS LEU ILE ILE VAL GLY ALA HIS SER SER VAL PRO SEQRES 2 B 413 SER GLY TYR GLY ARG VAL MET ARG ALA ILE VAL PRO ARG SEQRES 3 B 413 ILE SER LYS ALA HIS GLU VAL ILE VAL PHE GLY ILE HIS SEQRES 4 B 413 ALA PHE GLY ARG SER VAL HIS ALA ASN ILE GLU GLU PHE SEQRES 5 B 413 ASP ALA GLN THR ALA GLU HIS VAL ARG GLY LEU ASN GLU SEQRES 6 B 413 GLN GLY PHE TYR TYR SER GLY LEU SER GLU PHE ILE ASP SEQRES 7 B 413 VAL HIS LYS PRO ASP ILE VAL MET ILE TYR ASN ASP PRO SEQRES 8 B 413 ILE VAL ILE GLY ASN TYR LEU LEU ALA MET GLY LYS CYS SEQRES 9 B 413 SER HIS ARG THR LYS ILE VAL LEU TYR VAL ASP LEU VAL SEQRES 10 B 413 SER LYS ASN ILE ARG GLU ASN LEU TRP TRP ILE PHE SER SEQRES 11 B 413 HIS PRO LYS VAL VAL GLY VAL MET ALA MET SER LYS CYS SEQRES 12 B 413 TRP ILE SER ASP ILE CYS ASN TYR GLY CYS LYS VAL PRO SEQRES 13 B 413 ILE ASN ILE VAL SER HIS PHE VAL ASP THR LYS THR ILE SEQRES 14 B 413 TYR ASP ALA ARG LYS LEU VAL GLY LEU SER GLU TYR ASN SEQRES 15 B 413 ASP ASP VAL LEU PHE LEU ASN MET ASN ARG ASN THR ALA SEQRES 16 B 413 ARG LYS ARG LEU ASP ILE TYR VAL LEU ALA ALA ALA ARG SEQRES 17 B 413 PHE ILE SER LYS TYR PRO ASP ALA LYS VAL ARG PHE LEU SEQRES 18 B 413 CYS ASN SER HIS HIS GLU SER LYS PHE ASP LEU HIS SER SEQRES 19 B 413 ILE ALA LEU ARG GLU LEU VAL ALA SER GLY VAL ASP ASN SEQRES 20 B 413 VAL PHE THR HIS LEU ASN LYS ILE MET ILE ASN ARG THR SEQRES 21 B 413 VAL LEU THR ASP GLU ARG VAL ASP MET MET TYR ASN ALA SEQRES 22 B 413 CYS ASP VAL ILE VAL ASN CYS SER SER GLY GLU GLY PHE SEQRES 23 B 413 GLY LEU CYS SER ALA GLU GLY ALA VAL LEU GLY LYS PRO SEQRES 24 B 413 LEU ILE ILE SER ALA VAL GLY GLY ALA ASP ASP TYR PHE SEQRES 25 B 413 SER GLY ASP CYS VAL TYR LYS ILE LYS PRO SER ALA TRP SEQRES 26 B 413 ILE SER VAL ASP ASP ARG ASP GLY ILE GLY GLY ILE GLU SEQRES 27 B 413 GLY ILE ILE ASP VAL ASP ASP LEU VAL GLU ALA PHE THR SEQRES 28 B 413 PHE PHE LYS ASP GLU LYS ASN ARG LYS GLU TYR GLY LYS SEQRES 29 B 413 ARG VAL GLN ASP PHE VAL LYS THR LYS PRO THR TRP ASP SEQRES 30 B 413 ASP ILE SER SER ASP ILE ILE ASP PHE PHE ASN SER LEU SEQRES 31 B 413 LEU ARG VAL GLU SER ARG GLU THR PRO GLY ASN GLU GLU SEQRES 32 B 413 HIS PRO LEU GLU HIS HIS HIS HIS HIS HIS FORMUL 3 HOH *107(H2 O) HELIX 1 1 SER A 14 SER A 28 1 15 HELIX 2 2 ALA A 54 ARG A 61 1 8 HELIX 3 3 GLY A 72 LYS A 81 1 10 HELIX 4 4 ASP A 90 MET A 101 1 12 HELIX 5 5 GLY A 102 CYS A 104 5 3 HELIX 6 6 ARG A 122 HIS A 131 5 10 HELIX 7 7 CYS A 143 TYR A 151 1 9 HELIX 8 8 ASP A 171 VAL A 176 1 6 HELIX 9 9 LEU A 178 ASN A 182 5 5 HELIX 10 10 THR A 194 LYS A 197 5 4 HELIX 11 11 ARG A 198 TYR A 213 1 16 HELIX 12 12 ASP A 231 GLY A 244 1 14 HELIX 13 13 ASN A 247 ASN A 253 1 7 HELIX 14 14 THR A 263 CYS A 274 1 12 HELIX 15 15 GLY A 287 VAL A 295 1 9 HELIX 16 16 VAL A 305 PHE A 312 1 8 HELIX 17 17 ASP A 342 PHE A 353 1 12 HELIX 18 18 ASP A 355 LYS A 371 1 17 HELIX 19 19 THR A 375 LEU A 391 1 17 HELIX 20 20 SER B 14 LYS B 29 1 16 HELIX 21 21 ALA B 54 ARG B 61 1 8 HELIX 22 22 GLY B 72 LYS B 81 1 10 HELIX 23 23 ASP B 90 MET B 101 1 12 HELIX 24 24 GLY B 102 CYS B 104 5 3 HELIX 25 25 ARG B 122 HIS B 131 5 10 HELIX 26 26 CYS B 143 TYR B 151 1 9 HELIX 27 27 ASP B 171 VAL B 176 1 6 HELIX 28 28 LEU B 178 ASP B 184 5 7 HELIX 29 29 THR B 194 LYS B 197 5 4 HELIX 30 30 ARG B 198 TYR B 213 1 16 HELIX 31 31 ASP B 231 GLY B 244 1 14 HELIX 32 32 ASN B 247 ASN B 253 1 7 HELIX 33 33 THR B 263 CYS B 274 1 12 HELIX 34 34 GLY B 287 VAL B 295 1 9 HELIX 35 35 VAL B 305 PHE B 312 1 8 HELIX 36 36 ASP B 342 LYS B 354 1 13 HELIX 37 37 ASP B 355 THR B 372 1 18 HELIX 38 38 THR B 375 LEU B 390 1 16 SHEET 1 A 7 GLU A 50 ASP A 53 0 SHEET 2 A 7 GLU A 32 ILE A 38 1 N VAL A 35 O PHE A 52 SHEET 3 A 7 LYS A 2 ALA A 8 1 N LEU A 3 O ILE A 34 SHEET 4 A 7 ILE A 84 ASN A 89 1 O MET A 86 N VAL A 6 SHEET 5 A 7 LYS A 109 VAL A 114 1 O TYR A 113 N ILE A 87 SHEET 6 A 7 VAL A 134 ALA A 139 1 O MET A 138 N LEU A 112 SHEET 7 A 7 ILE A 157 ILE A 159 1 O ASN A 158 N VAL A 137 SHEET 1 B 6 ILE A 255 ASN A 258 0 SHEET 2 B 6 VAL A 218 ASN A 223 1 N CYS A 222 O ASN A 258 SHEET 3 B 6 VAL A 185 LEU A 188 1 N PHE A 187 O LEU A 221 SHEET 4 B 6 VAL A 276 ASN A 279 1 O VAL A 278 N LEU A 188 SHEET 5 B 6 LEU A 300 SER A 303 1 O ILE A 301 N ILE A 277 SHEET 6 B 6 TYR A 318 ILE A 320 1 O TYR A 318 N LEU A 300 SHEET 1 C 2 ALA A 324 SER A 327 0 SHEET 2 C 2 ILE A 337 ILE A 340 -1 O ILE A 340 N ALA A 324 SHEET 1 D 7 GLU B 50 ASP B 53 0 SHEET 2 D 7 GLU B 32 ILE B 38 1 N VAL B 35 O PHE B 52 SHEET 3 D 7 LYS B 2 ALA B 8 1 N LEU B 3 O ILE B 34 SHEET 4 D 7 ILE B 84 ASN B 89 1 O MET B 86 N VAL B 6 SHEET 5 D 7 LYS B 109 VAL B 114 1 O VAL B 111 N VAL B 85 SHEET 6 D 7 VAL B 134 ALA B 139 1 O VAL B 135 N ILE B 110 SHEET 7 D 7 ILE B 157 ILE B 159 1 O ASN B 158 N VAL B 137 SHEET 1 E 6 ILE B 255 ASN B 258 0 SHEET 2 E 6 VAL B 218 ASN B 223 1 N CYS B 222 O ASN B 258 SHEET 3 E 6 VAL B 185 LEU B 188 1 N PHE B 187 O LEU B 221 SHEET 4 E 6 VAL B 276 ASN B 279 1 O VAL B 278 N LEU B 188 SHEET 5 E 6 LEU B 300 SER B 303 1 O ILE B 301 N ILE B 277 SHEET 6 E 6 TYR B 318 ILE B 320 1 O TYR B 318 N ILE B 302 SHEET 1 F 2 ALA B 324 SER B 327 0 SHEET 2 F 2 ILE B 337 ILE B 340 -1 O ILE B 340 N ALA B 324 CRYST1 153.615 246.941 67.170 90.00 90.00 90.00 C 2 2 21 16 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 0.006510 0.000000 0.000000 0.00000 SCALE2 0.000000 0.004050 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014888 0.00000