HEADER IMMUNE SYSTEM 06-APR-17 5VF2 TITLE SCFV 2D10 RE-REFINED AS A COMPLEX WITH TREHALOSE REPLACING THE TITLE 2 ORIGINAL ALPHA-1,6-MANNOBIOSE COMPND MOL_ID: 1; COMPND 2 MOLECULE: SCFV 2D10; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_TAXID: 10090; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 5 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: BL21(DE3) KEYWDS IMMUNE SYSTEM RE-REFINEMENT, IMMUNE SYSTEM EXPDTA X-RAY DIFFRACTION AUTHOR P.J.POREBSKI,A.WLODAWER,Z.DAUTER,W.MINOR,R.STANFIELD,M.JASKOLSKI, AUTHOR 2 E.POZHARSKI,C.X.WEICHENBERGER,B.RUPP REVDAT 8 23-OCT-24 5VF2 1 REMARK REVDAT 7 04-OCT-23 5VF2 1 REMARK REVDAT 6 13-APR-22 5VF2 1 AUTHOR JRNL HETSYN REVDAT 5 29-JUL-20 5VF2 1 COMPND REMARK HET HETNAM REVDAT 5 2 1 HETSYN FORMUL LINK SITE REVDAT 5 3 1 ATOM REVDAT 4 01-JAN-20 5VF2 1 REMARK REVDAT 3 21-MAR-18 5VF2 1 TITLE REVDAT 2 14-FEB-18 5VF2 1 JRNL REVDAT 1 06-DEC-17 5VF2 0 JRNL AUTH A.WLODAWER,Z.DAUTER,P.J.POREBSKI,W.MINOR,R.STANFIELD, JRNL AUTH 2 M.JASKOLSKI,E.POZHARSKI,C.X.WEICHENBERGER,B.RUPP JRNL TITL DETECT, CORRECT, RETRACT: HOW TO MANAGE INCORRECT STRUCTURAL JRNL TITL 2 MODELS. JRNL REF FEBS J. V. 285 444 2018 JRNL REFN ISSN 1742-4658 JRNL PMID 29113027 JRNL DOI 10.1111/FEBS.14320 REMARK 0 REMARK 0 THIS ENTRY 5VF2 REFLECTS AN ALTERNATIVE MODELING OF THE ORIGINAL REMARK 0 DATA IN 5I4F, DETERMINED BY S.VASHISHT,A.KUMAR,K.J.KAUR, REMARK 0 D.M.SALUNKE REMARK 0 ORIGINAL DATA REFERENCE 1 REMARK 0 PDB ID: 5I4F REMARK 0 AUTH S.VASHISHT,A.KUMAR,K.J.KAUR,D.M.SALUNKE REMARK 0 TITL ANTIBODIES CAN EXPLOIT MOLECULAR CROWDING TO BIND NEW REMARK 0 TITL 2 ANTIGENS AT NONCANONICAL PARATOPE POSITIONS REMARK 0 REF CHEMISTRYSELECT V. 1 6287 2016 REMARK 0 REFN ESSN 2365-6549 REMARK 0 DOI 10.1002/SLCT.201600945 REMARK 2 REMARK 2 RESOLUTION. 1.55 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0158 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.55 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 35.11 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 3 NUMBER OF REFLECTIONS : 37096 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) : 0.156 REMARK 3 R VALUE (WORKING SET) : 0.153 REMARK 3 FREE R VALUE : 0.180 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.000 REMARK 3 FREE R VALUE TEST SET COUNT : 4100 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) : 1.55 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.59 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2722 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.11 REMARK 3 BIN R VALUE (WORKING SET) : 0.2300 REMARK 3 BIN FREE R VALUE SET COUNT : 291 REMARK 3 BIN FREE R VALUE : 0.2400 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1818 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 100 REMARK 3 SOLVENT ATOMS : 280 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 26.12 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.46000 REMARK 3 B22 (A**2) : 0.46000 REMARK 3 B33 (A**2) : -1.48000 REMARK 3 B12 (A**2) : 0.23000 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): 0.070 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.072 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.046 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.486 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.974 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.965 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2029 ; 0.015 ; 0.020 REMARK 3 BOND LENGTHS OTHERS (A): 1791 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2775 ; 1.714 ; 1.982 REMARK 3 BOND ANGLES OTHERS (DEGREES): 4219 ; 0.954 ; 3.001 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 265 ; 9.220 ; 5.038 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 79 ;34.530 ;24.430 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 331 ;11.220 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 6 ;13.792 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 318 ; 0.104 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2229 ; 0.009 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 405 ; 0.002 ; 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): 991 ; 1.047 ; 1.540 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 990 ; 1.047 ; 1.541 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1246 ; 1.766 ; 2.303 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 1247 ; 1.766 ; 2.303 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1038 ; 1.449 ; 1.744 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1038 ; 1.449 ; 1.744 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 1519 ; 2.263 ; 2.557 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 2288 ; 6.527 ;20.791 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 2237 ; 6.245 ;19.718 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 1 A 41 REMARK 3 ORIGIN FOR THE GROUP (A): 25.5870 13.6540 8.9820 REMARK 3 T TENSOR REMARK 3 T11: 0.0751 T22: 0.0441 REMARK 3 T33: 0.0677 T12: 0.0164 REMARK 3 T13: 0.0173 T23: 0.0179 REMARK 3 L TENSOR REMARK 3 L11: 0.8018 L22: 0.8388 REMARK 3 L33: 4.5913 L12: -0.3218 REMARK 3 L13: 0.7959 L23: -0.1377 REMARK 3 S TENSOR REMARK 3 S11: 0.0103 S12: -0.0421 S13: 0.0668 REMARK 3 S21: 0.1073 S22: 0.0188 S23: 0.0606 REMARK 3 S31: -0.4106 S32: -0.2053 S33: -0.0292 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 : A 42 A 82 REMARK 3 ORIGIN FOR THE GROUP (A): 26.3180 4.2150 9.8340 REMARK 3 T TENSOR REMARK 3 T11: 0.0608 T22: 0.0332 REMARK 3 T33: 0.0493 T12: -0.0132 REMARK 3 T13: 0.0139 T23: 0.0212 REMARK 3 L TENSOR REMARK 3 L11: 3.6579 L22: 2.6749 REMARK 3 L33: 3.2200 L12: -0.5935 REMARK 3 L13: 0.4345 L23: -0.7594 REMARK 3 S TENSOR REMARK 3 S11: -0.0039 S12: -0.1935 S13: -0.2208 REMARK 3 S21: 0.0864 S22: 0.0964 S23: 0.0377 REMARK 3 S31: 0.0993 S32: -0.1857 S33: -0.0924 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 : A 83 A 123 REMARK 3 ORIGIN FOR THE GROUP (A): 30.4650 9.6570 13.5080 REMARK 3 T TENSOR REMARK 3 T11: 0.0486 T22: 0.0505 REMARK 3 T33: 0.0412 T12: 0.0083 REMARK 3 T13: -0.0023 T23: 0.0161 REMARK 3 L TENSOR REMARK 3 L11: 1.4467 L22: 0.9722 REMARK 3 L33: 5.0284 L12: 0.2947 REMARK 3 L13: -0.5609 L23: -0.1741 REMARK 3 S TENSOR REMARK 3 S11: 0.0652 S12: -0.2412 S13: -0.0404 REMARK 3 S21: 0.1755 S22: 0.0395 S23: 0.0783 REMARK 3 S31: -0.1771 S32: -0.0019 S33: -0.1046 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 : A 138 A 251 REMARK 3 ORIGIN FOR THE GROUP (A): 47.9730 9.1400 3.8140 REMARK 3 T TENSOR REMARK 3 T11: 0.0282 T22: 0.0099 REMARK 3 T33: 0.0212 T12: -0.0068 REMARK 3 T13: -0.0099 T23: 0.0013 REMARK 3 L TENSOR REMARK 3 L11: 1.6204 L22: 2.1529 REMARK 3 L33: 1.2626 L12: 1.3092 REMARK 3 L13: 0.9124 L23: 1.2450 REMARK 3 S TENSOR REMARK 3 S11: 0.0317 S12: 0.0305 S13: -0.0585 REMARK 3 S21: 0.0165 S22: 0.0050 S23: -0.0406 REMARK 3 S31: -0.0026 S32: 0.0709 S33: -0.0367 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 5VF2 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 18-APR-17. REMARK 100 THE DEPOSITION ID IS D_1000227324. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 20-FEB-14 REMARK 200 TEMPERATURE (KELVIN) : 173.15 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : BM14 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97856 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 41534 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.549 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 (%) : 99.4 REMARK 200 DATA REDUNDANCY : 5.500 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 39.6700 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: FOURIER SYNTHESIS REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: 5I4F REMARK 200 REMARK 200 REMARK: AUTHOR USED THE SF DATA FROM ENTRY 5I4F REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.72 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.72 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: MES 6.5, MAGNESIUM SULPHATE (1.5 M), REMARK 280 POTASSIUM SODIUM TARTRATE TETRAHYDRATE (0.1M)., PH 6.5, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 277.15K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 31 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+2/3 REMARK 290 6555 -X,-X+Y,-Z+1/3 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 24.79600 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 49.59200 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 49.59200 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 24.79600 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: MONOMERIC 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 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 O1 GLC B 2 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 569 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 THR A 124 REMARK 465 GLY A 125 REMARK 465 GLY A 126 REMARK 465 GLY A 127 REMARK 465 GLY A 128 REMARK 465 SER A 129 REMARK 465 GLY A 130 REMARK 465 GLY A 131 REMARK 465 GLY A 132 REMARK 465 GLY A 133 REMARK 465 SER A 134 REMARK 465 GLY A 135 REMARK 465 GLY A 136 REMARK 465 GLY A 137 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 MET A 1 CG SD CE REMARK 470 LYS A 44 CG CD CE NZ REMARK 470 LYS A 122 CG CD CE NZ 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 UNK UNX A 305 UNK UNX A 315 1.49 REMARK 500 UNK UNX A 309 UNK UNX A 324 1.51 REMARK 500 UNK UNX A 321 UNK UNX A 322 1.58 REMARK 500 UNK UNX A 304 UNK UNX A 305 1.86 REMARK 500 UNK UNX A 322 UNK UNX A 323 1.87 REMARK 500 UNK UNX A 344 O HOH A 647 1.96 REMARK 500 UNK UNX A 318 UNK UNX A 341 2.13 REMARK 500 UNK UNX A 329 UNK UNX A 331 2.18 REMARK 500 OD1 ASP A 156 O HOH A 401 2.18 REMARK 500 UNK UNX A 311 UNK UNX A 316 2.19 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 ASP A 108 CB - CG - OD1 ANGL. DEV. = 5.4 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 HIS A 42 107.32 -45.90 REMARK 500 SER A 45 104.44 -163.03 REMARK 500 VAL A 195 -51.09 74.75 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 A 345 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 422 O REMARK 620 2 HOH A 442 O 119.1 REMARK 620 3 HOH A 448 O 91.9 91.2 REMARK 620 4 HOH A 663 O 83.6 157.3 85.8 REMARK 620 5 HOH A 673 O 167.9 73.0 88.4 84.4 REMARK 620 6 HOH A 678 O 95.8 94.9 166.3 83.8 81.8 REMARK 620 N 1 2 3 4 5 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5I4F RELATED DB: PDB REMARK 900 THIS ENTRY 5VF2 REFLECTS AN ALTERNATIVE MODELING OF THE ORIGINAL REMARK 900 DATA IN 5I4F. DBREF 5VF2 A 1 251 PDB 5VF2 5VF2 1 251 SEQRES 1 A 251 MET GLU ILE GLN LEU GLN GLN SER GLY PRO GLU LEU VAL SEQRES 2 A 251 LYS PRO GLY ALA SER VAL LYS ILE SER CYS LYS ALA SER SEQRES 3 A 251 GLY TYR SER PHE THR ASP TYR ILE MET LEU TRP VAL LYS SEQRES 4 A 251 GLN SER HIS GLY LYS SER LEU GLU TRP ILE GLY ASN ILE SEQRES 5 A 251 ASN PRO TYR TYR GLY SER THR SER TYR ASN LEU LYS PHE SEQRES 6 A 251 LYS GLY LYS ALA THR LEU THR VAL ASP LYS SER SER SER SEQRES 7 A 251 THR ALA TYR MET GLN LEU ASN SER LEU THR SER GLU ASP SEQRES 8 A 251 SER ALA VAL TYR TYR CYS ALA ARG LYS ASN TYR TYR GLY SEQRES 9 A 251 SER SER LEU ASP TYR TRP GLY GLN GLY THR THR LEU THR SEQRES 10 A 251 VAL SER SER ALA LYS THR THR GLY GLY GLY GLY SER GLY SEQRES 11 A 251 GLY GLY GLY SER GLY GLY GLY GLY SER ASP VAL VAL MET SEQRES 12 A 251 THR GLN THR PRO PHE SER LEU PRO VAL SER LEU GLY ASP SEQRES 13 A 251 GLN ALA SER ILE SER CYS ARG SER SER GLN SER LEU VAL SEQRES 14 A 251 HIS SER ASN GLY ASN THR TYR LEU HIS TRP TYR LEU GLN SEQRES 15 A 251 LYS PRO GLY GLN SER PRO LYS LEU LEU ILE TYR LYS VAL SEQRES 16 A 251 SER ASN ARG PHE SER GLY VAL PRO ASP ARG PHE SER GLY SEQRES 17 A 251 SER GLY SER GLY THR ASP PHE THR LEU LYS ILE SER ARG SEQRES 18 A 251 VAL GLU ALA GLU ASP LEU GLY VAL TYR PHE CYS SER GLN SEQRES 19 A 251 SER THR HIS VAL PRO TYR THR PHE GLY GLY GLY THR LYS SEQRES 20 A 251 LEU GLU ILE LYS HET GLC B 1 11 HET GLC B 2 12 HET GLC C 1 11 HET GLC C 2 12 HET MES A 303 12 HET UNX A 304 1 HET UNX A 305 1 HET UNX A 306 1 HET UNX A 307 1 HET UNX A 308 1 HET UNX A 309 1 HET UNX A 310 1 HET UNX A 311 1 HET UNX A 312 1 HET UNX A 313 1 HET UNX A 314 1 HET UNX A 315 1 HET UNX A 316 1 HET UNX A 317 1 HET UNX A 318 1 HET UNX A 319 1 HET UNX A 320 1 HET UNX A 321 1 HET UNX A 322 1 HET UNX A 323 1 HET UNX A 324 1 HET UNX A 325 1 HET UNX A 326 1 HET UNX A 327 1 HET UNX A 328 1 HET UNX A 329 1 HET UNX A 330 1 HET UNX A 331 1 HET UNX A 332 1 HET UNX A 333 1 HET UNX A 334 1 HET UNX A 335 1 HET UNX A 336 1 HET UNX A 337 1 HET UNX A 338 1 HET UNX A 339 1 HET UNX A 340 1 HET UNX A 341 1 HET UNX A 342 1 HET UNX A 343 1 HET UNX A 344 1 HET MG A 345 1 HETNAM GLC ALPHA-D-GLUCOPYRANOSE HETNAM MES 2-(N-MORPHOLINO)-ETHANESULFONIC ACID HETNAM UNX UNKNOWN ATOM OR ION HETNAM MG MAGNESIUM ION HETSYN GLC ALPHA-D-GLUCOSE; D-GLUCOSE; GLUCOSE FORMUL 2 GLC 4(C6 H12 O6) FORMUL 4 MES C6 H13 N O4 S FORMUL 5 UNX 41(X) FORMUL 46 MG MG 2+ FORMUL 47 HOH *280(H2 O) HELIX 1 AA1 SER A 29 TYR A 33 5 5 HELIX 2 AA2 LEU A 63 LYS A 66 5 4 HELIX 3 AA3 LYS A 75 SER A 77 5 3 HELIX 4 AA4 THR A 88 SER A 92 5 5 HELIX 5 AA5 GLU A 223 LEU A 227 5 5 SHEET 1 AA1 4 GLN A 4 GLN A 7 0 SHEET 2 AA1 4 VAL A 19 SER A 26 -1 O LYS A 24 N GLN A 6 SHEET 3 AA1 4 THR A 79 LEU A 84 -1 O MET A 82 N ILE A 21 SHEET 4 AA1 4 ALA A 69 ASP A 74 -1 N THR A 70 O GLN A 83 SHEET 1 AA2 6 GLU A 11 VAL A 13 0 SHEET 2 AA2 6 THR A 114 VAL A 118 1 O THR A 117 N GLU A 11 SHEET 3 AA2 6 ALA A 93 LYS A 100 -1 N ALA A 93 O LEU A 116 SHEET 4 AA2 6 ILE A 34 GLN A 40 -1 N LEU A 36 O ALA A 98 SHEET 5 AA2 6 LEU A 46 ILE A 52 -1 O ILE A 49 N TRP A 37 SHEET 6 AA2 6 THR A 59 TYR A 61 -1 O SER A 60 N ASN A 51 SHEET 1 AA3 4 GLU A 11 VAL A 13 0 SHEET 2 AA3 4 THR A 114 VAL A 118 1 O THR A 117 N GLU A 11 SHEET 3 AA3 4 ALA A 93 LYS A 100 -1 N ALA A 93 O LEU A 116 SHEET 4 AA3 4 LEU A 107 TRP A 110 -1 O TYR A 109 N ARG A 99 SHEET 1 AA4 4 MET A 143 THR A 146 0 SHEET 2 AA4 4 ALA A 158 SER A 164 -1 O SER A 161 N THR A 146 SHEET 3 AA4 4 ASP A 214 ILE A 219 -1 O ILE A 219 N ALA A 158 SHEET 4 AA4 4 PHE A 206 SER A 211 -1 N SER A 207 O LYS A 218 SHEET 1 AA5 6 SER A 149 VAL A 152 0 SHEET 2 AA5 6 THR A 246 ILE A 250 1 O LYS A 247 N LEU A 150 SHEET 3 AA5 6 GLY A 228 GLN A 234 -1 N GLY A 228 O LEU A 248 SHEET 4 AA5 6 LEU A 177 GLN A 182 -1 N TYR A 180 O PHE A 231 SHEET 5 AA5 6 PRO A 188 TYR A 193 -1 O LEU A 191 N TRP A 179 SHEET 6 AA5 6 ASN A 197 ARG A 198 -1 O ASN A 197 N TYR A 193 SHEET 1 AA6 4 SER A 149 VAL A 152 0 SHEET 2 AA6 4 THR A 246 ILE A 250 1 O LYS A 247 N LEU A 150 SHEET 3 AA6 4 GLY A 228 GLN A 234 -1 N GLY A 228 O LEU A 248 SHEET 4 AA6 4 THR A 241 PHE A 242 -1 O THR A 241 N GLN A 234 SSBOND 1 CYS A 23 CYS A 97 1555 1555 2.05 SSBOND 2 CYS A 162 CYS A 232 1555 1555 2.21 LINK C1 GLC B 1 O1 GLC B 2 1555 1555 1.44 LINK C1 GLC C 1 O1 GLC C 2 1555 1555 1.45 LINK MG MG A 345 O HOH A 422 1555 3664 2.01 LINK MG MG A 345 O HOH A 442 1555 1555 2.41 LINK MG MG A 345 O HOH A 448 1555 1555 2.12 LINK MG MG A 345 O HOH A 663 1555 3664 2.36 LINK MG MG A 345 O HOH A 673 1555 1555 2.16 LINK MG MG A 345 O HOH A 678 1555 3664 2.14 CISPEP 1 THR A 146 PRO A 147 0 -5.07 CISPEP 2 VAL A 238 PRO A 239 0 0.31 CRYST1 81.093 81.093 74.388 90.00 90.00 120.00 P 31 2 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 0.012332 0.007120 0.000000 0.00000 SCALE2 0.000000 0.014239 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013443 0.00000