HEADER ENDOCYTOSIS 19-JAN-11 3QE6 TITLE MOUSE PACSIN 3 F-BAR DOMAIN STRUCTURE COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROTEIN KINASE C AND CASEIN KINASE II SUBSTRATE PROTEIN 3; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: F-BAR DOMAIN, UNP RESIDUES 1-304; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_COMMON: MOUSE; SOURCE 4 ORGANISM_TAXID: 10090; SOURCE 5 GENE: PACSIN3; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID KEYWDS F-BAR DOMAIN, ENDOCYTOSIS EXPDTA X-RAY DIFFRACTION AUTHOR G.MENG,X.BAI,X.ZHENG REVDAT 3 01-NOV-23 3QE6 1 REMARK LINK REVDAT 2 03-JUL-13 3QE6 1 JRNL REVDAT 1 25-JAN-12 3QE6 0 JRNL AUTH X.BAI,G.MENG,M.LUO,X.ZHENG JRNL TITL RIGIDITY OF WEDGE LOOP IN PACSIN 3 PROTEIN IS A KEY FACTOR JRNL TITL 2 IN DICTATING DIAMETERS OF TUBULES JRNL REF J.BIOL.CHEM. V. 287 22387 2012 JRNL REFN ISSN 0021-9258 JRNL PMID 22573331 JRNL DOI 10.1074/JBC.M112.358960 REMARK 2 REMARK 2 RESOLUTION. 2.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0110 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 28.01 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 97.8 REMARK 3 NUMBER OF REFLECTIONS : 28175 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) : 0.230 REMARK 3 R VALUE (WORKING SET) : 0.227 REMARK 3 FREE R VALUE : 0.274 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1492 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) : 2.60 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.67 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1873 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 90.09 REMARK 3 BIN R VALUE (WORKING SET) : 0.3290 REMARK 3 BIN FREE R VALUE SET COUNT : 90 REMARK 3 BIN FREE R VALUE : 0.3920 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4599 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 2 REMARK 3 SOLVENT ATOMS : 34 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 84.28 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.28000 REMARK 3 B22 (A**2) : 0.86000 REMARK 3 B33 (A**2) : -1.71000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 1.80000 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): 0.297 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.187 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 18.892 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.933 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.905 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4710 ; 0.022 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6341 ; 2.041 ; 1.920 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 564 ; 7.340 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 259 ;38.687 ;22.819 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 805 ;23.332 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 53 ;24.083 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 632 ; 0.159 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3697 ; 0.009 ; 0.020 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): 2825 ; 0.923 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4447 ; 1.683 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1885 ; 3.022 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1894 ; 4.875 ; 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): 4710 ; 1.954 ; 3.000 REMARK 3 SPHERICITY; FREE ATOMS (A**2): 46 ; 8.549 ; 3.000 REMARK 3 SPHERICITY; BONDED ATOMS (A**2): 4602 ; 2.683 ; 3.000 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 : 2 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 17 A 306 REMARK 3 ORIGIN FOR THE GROUP (A): -10.2151 -0.1537 101.8231 REMARK 3 T TENSOR REMARK 3 T11: 0.3064 T22: 0.2176 REMARK 3 T33: 0.4052 T12: 0.0828 REMARK 3 T13: -0.0909 T23: -0.0684 REMARK 3 L TENSOR REMARK 3 L11: 4.1223 L22: 1.1772 REMARK 3 L33: 5.7095 L12: 0.4075 REMARK 3 L13: -4.2694 L23: -0.3769 REMARK 3 S TENSOR REMARK 3 S11: 0.1400 S12: 0.2941 S13: -0.1758 REMARK 3 S21: 0.2640 S22: -0.2233 S23: 0.3088 REMARK 3 S31: -0.3152 S32: -0.4439 S33: 0.0833 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 15 B 305 REMARK 3 ORIGIN FOR THE GROUP (A): 20.8306 2.5695 68.9535 REMARK 3 T TENSOR REMARK 3 T11: 0.4197 T22: 0.4165 REMARK 3 T33: 0.3522 T12: 0.0994 REMARK 3 T13: -0.0568 T23: -0.0445 REMARK 3 L TENSOR REMARK 3 L11: 4.3660 L22: 1.1865 REMARK 3 L33: 5.0132 L12: 0.7106 REMARK 3 L13: -4.2258 L23: -0.6221 REMARK 3 S TENSOR REMARK 3 S11: -0.0543 S12: 0.5752 S13: -0.2674 REMARK 3 S21: -0.4210 S22: -0.0695 S23: -0.2834 REMARK 3 S31: -0.1367 S32: -0.1510 S33: 0.1238 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 3QE6 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 28-JAN-11. REMARK 100 THE DEPOSITION ID IS D_1000063531. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 09-FEB-10 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRF REMARK 200 BEAMLINE : BL17U REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9800 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MAR CCD 165 MM REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 28175 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.500 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.0 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.77 REMARK 200 COMPLETENESS FOR SHELL (%) : 92.0 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 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: PDB ENTRY 3Q84 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 64.38 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.45 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 3350, MGCL2, HEPES, PH 7.5, VAPOR REMARK 280 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 27.32650 REMARK 290 SMTRY3 2 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: 9010 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 31130 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -66.0 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 MET A 4 REMARK 465 ALA A 5 REMARK 465 PRO A 6 REMARK 465 GLU A 7 REMARK 465 GLU A 8 REMARK 465 ASP A 9 REMARK 465 ALA A 10 REMARK 465 GLY A 11 REMARK 465 GLY A 12 REMARK 465 GLU A 13 REMARK 465 VAL A 14 REMARK 465 LEU A 15 REMARK 465 GLY A 16 REMARK 465 LYS A 178 REMARK 465 ALA A 179 REMARK 465 ASP A 180 REMARK 465 SER A 181 REMARK 465 SER A 182 REMARK 465 MET A 183 REMARK 465 SER A 184 REMARK 465 LEU A 307 REMARK 465 MET B 4 REMARK 465 ALA B 5 REMARK 465 PRO B 6 REMARK 465 GLU B 7 REMARK 465 GLU B 8 REMARK 465 ASP B 9 REMARK 465 ALA B 10 REMARK 465 GLY B 11 REMARK 465 GLY B 12 REMARK 465 GLU B 13 REMARK 465 VAL B 14 REMARK 465 ALA B 177 REMARK 465 LYS B 178 REMARK 465 ALA B 179 REMARK 465 ASP B 180 REMARK 465 SER B 181 REMARK 465 SER B 306 REMARK 465 LEU B 307 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 GLN A 185 CG CD OE1 NE2 REMARK 470 GLU A 186 CG CD OE1 OE2 REMARK 470 GLN A 187 CG CD OE1 NE2 REMARK 470 LEU A 188 CG CD1 CD2 REMARK 470 ARG A 189 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 190 CG CD CE NZ REMARK 470 LEU A 191 CG CD1 CD2 REMARK 470 GLN A 192 CD OE1 NE2 REMARK 470 GLU A 193 CG CD OE1 OE2 REMARK 470 ARG A 194 CG CD NE CZ NH1 NH2 REMARK 470 TRP A 305 CG CD1 CD2 NE1 CE2 CE3 CZ2 REMARK 470 TRP A 305 CZ3 CH2 REMARK 470 SER A 306 OG REMARK 470 ARG B 164 CD NE CZ NH1 NH2 REMARK 470 LYS B 165 CG CD CE NZ REMARK 470 THR B 172 OG1 CG2 REMARK 470 ARG B 173 CG CD NE CZ NH1 NH2 REMARK 470 GLU B 174 CG CD OE1 OE2 REMARK 470 SER B 175 OG REMARK 470 HIS B 176 CG ND1 CD2 CE1 NE2 REMARK 470 SER B 182 OG REMARK 470 MET B 183 CG SD CE REMARK 470 SER B 184 OG REMARK 470 GLN B 185 CG CD OE1 NE2 REMARK 470 GLU B 186 CG CD OE1 OE2 REMARK 470 GLN B 187 CG CD OE1 NE2 REMARK 470 LEU B 188 CG CD1 CD2 REMARK 470 ARG B 189 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 190 CG CD CE NZ REMARK 470 LEU B 191 CG CD1 CD2 REMARK 470 GLN B 192 CG CD OE1 NE2 REMARK 470 GLU B 193 CG CD OE1 OE2 REMARK 470 ARG B 194 CG CD NE CZ NH1 NH2 REMARK 470 VAL B 195 CG1 CG2 REMARK 470 ARG B 197 CG CD NE CZ NH1 NH2 REMARK 470 CYS B 198 SG REMARK 470 THR B 199 OG1 CG2 REMARK 470 LYS B 200 CG CD CE NZ REMARK 470 GLU B 201 CG CD OE1 OE2 REMARK 470 LYS B 204 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 O LEU B 191 N ARG B 194 1.57 REMARK 500 O LEU B 191 CA ARG B 194 1.94 REMARK 500 NH2 ARG A 93 O HOH A 319 1.99 REMARK 500 O LEU B 191 CB ARG B 194 2.07 REMARK 500 OE2 GLU B 238 NH2 ARG B 241 2.15 REMARK 500 O GLN B 171 CB HIS B 176 2.18 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O VAL B 125 O PRO B 293 2656 1.34 REMARK 500 O LEU B 126 O GLY B 294 2656 2.03 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 GLU A 232 CG GLU A 232 CD 0.093 REMARK 500 GLU B 92 CD GLU B 92 OE2 0.069 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 194 N - CA - C ANGL. DEV. = -18.8 DEGREES REMARK 500 ARG A 222 N - CA - C ANGL. DEV. = -16.5 DEGREES REMARK 500 ASP A 247 CB - CG - OD1 ANGL. DEV. = -7.8 DEGREES REMARK 500 ASP A 270 CB - CG - OD1 ANGL. DEV. = -10.8 DEGREES REMARK 500 GLY B 16 N - CA - C ANGL. DEV. = -21.1 DEGREES REMARK 500 GLY B 17 N - CA - C ANGL. DEV. = -18.8 DEGREES REMARK 500 ARG B 37 NE - CZ - NH2 ANGL. DEV. = -3.2 DEGREES REMARK 500 ARG B 49 NE - CZ - NH1 ANGL. DEV. = -4.1 DEGREES REMARK 500 ILE B 52 CG1 - CB - CG2 ANGL. DEV. = -13.2 DEGREES REMARK 500 ARG B 68 NE - CZ - NH1 ANGL. DEV. = -5.4 DEGREES REMARK 500 GLY B 127 N - CA - C ANGL. DEV. = -23.4 DEGREES REMARK 500 GLN B 171 CB - CA - C ANGL. DEV. = -20.6 DEGREES REMARK 500 ARG B 189 N - CA - C ANGL. DEV. = -16.8 DEGREES REMARK 500 GLN B 192 N - CA - C ANGL. DEV. = -17.5 DEGREES REMARK 500 LEU B 267 CA - CB - CG ANGL. DEV. = 14.6 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 THR A 169 15.59 -67.74 REMARK 500 ALA A 170 3.13 -57.68 REMARK 500 LEU A 188 109.45 -53.52 REMARK 500 ARG A 189 77.74 -156.82 REMARK 500 LEU A 191 -6.98 84.48 REMARK 500 GLU A 193 1.36 81.12 REMARK 500 TYR A 223 -57.98 70.93 REMARK 500 PHE B 121 66.19 -119.24 REMARK 500 LEU B 126 -81.11 -105.67 REMARK 500 ALA B 163 -62.93 -91.17 REMARK 500 ARG B 189 70.32 -107.22 REMARK 500 GLU B 193 56.96 -91.52 REMARK 500 CYS B 198 49.04 -78.72 REMARK 500 ALA B 296 154.95 -48.91 REMARK 500 GLU B 304 -79.96 -102.52 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 GLU B 304 TRP B 305 -145.30 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 2 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 VAL A 71 O REMARK 620 2 GLU A 72 O 71.4 REMARK 620 3 GLY A 74 O 83.0 83.3 REMARK 620 4 GLN A 76 O 106.6 176.4 93.6 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 1 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 VAL B 71 O REMARK 620 2 GLU B 72 O 80.1 REMARK 620 3 GLY B 74 O 84.7 83.8 REMARK 620 4 GLN B 76 O 104.7 174.9 95.0 REMARK 620 5 GLU B 81 OE1 79.6 95.4 164.2 87.1 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 2 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 1 DBREF 3QE6 A 4 307 UNP Q99JB8 PACN3_MOUSE 1 304 DBREF 3QE6 B 4 307 UNP Q99JB8 PACN3_MOUSE 1 304 SEQRES 1 A 304 MET ALA PRO GLU GLU ASP ALA GLY GLY GLU VAL LEU GLY SEQRES 2 A 304 GLY SER PHE TRP GLU ALA GLY ASN TYR ARG ARG THR VAL SEQRES 3 A 304 GLN ARG VAL GLU ASP GLY HIS ARG LEU CYS GLY ASP LEU SEQRES 4 A 304 VAL SER CYS PHE GLN GLU ARG ALA ARG ILE GLU LYS ALA SEQRES 5 A 304 TYR ALA GLN GLN LEU ALA ASP TRP ALA ARG LYS TRP ARG SEQRES 6 A 304 GLY ALA VAL GLU LYS GLY PRO GLN TYR GLY THR LEU GLU SEQRES 7 A 304 LYS ALA TRP HIS ALA PHE PHE THR ALA ALA GLU ARG LEU SEQRES 8 A 304 SER GLU LEU HIS LEU GLU VAL ARG GLU LYS LEU HIS GLY SEQRES 9 A 304 PRO ASP SER GLU ARG VAL ARG THR TRP GLN ARG GLY ALA SEQRES 10 A 304 PHE HIS ARG PRO VAL LEU GLY GLY PHE ARG GLU SER ARG SEQRES 11 A 304 ALA ALA GLU ASP GLY PHE ARG LYS ALA GLN LYS PRO TRP SEQRES 12 A 304 LEU LYS ARG LEU LYS GLU VAL GLU ALA SER LYS LYS SER SEQRES 13 A 304 TYR HIS THR ALA ARG LYS ASP GLU LYS THR ALA GLN THR SEQRES 14 A 304 ARG GLU SER HIS ALA LYS ALA ASP SER SER MET SER GLN SEQRES 15 A 304 GLU GLN LEU ARG LYS LEU GLN GLU ARG VAL GLY ARG CYS SEQRES 16 A 304 THR LYS GLU ALA GLU LYS MET LYS THR GLN TYR GLU GLN SEQRES 17 A 304 THR LEU ALA GLU LEU ASN ARG TYR THR PRO ARG TYR MET SEQRES 18 A 304 GLU ASP MET GLU GLN ALA PHE GLU SER CYS GLN ALA ALA SEQRES 19 A 304 GLU ARG GLN ARG LEU LEU PHE PHE LYS ASP VAL LEU LEU SEQRES 20 A 304 THR LEU HIS GLN HIS LEU ASP LEU SER SER SER ASP LYS SEQRES 21 A 304 PHE HIS GLU LEU HIS ARG ASP LEU GLN GLN SER ILE GLU SEQRES 22 A 304 ALA ALA SER ASP GLU GLU ASP LEU ARG TRP TRP ARG SER SEQRES 23 A 304 THR HIS GLY PRO GLY MET ALA MET ASN TRP PRO GLN PHE SEQRES 24 A 304 GLU GLU TRP SER LEU SEQRES 1 B 304 MET ALA PRO GLU GLU ASP ALA GLY GLY GLU VAL LEU GLY SEQRES 2 B 304 GLY SER PHE TRP GLU ALA GLY ASN TYR ARG ARG THR VAL SEQRES 3 B 304 GLN ARG VAL GLU ASP GLY HIS ARG LEU CYS GLY ASP LEU SEQRES 4 B 304 VAL SER CYS PHE GLN GLU ARG ALA ARG ILE GLU LYS ALA SEQRES 5 B 304 TYR ALA GLN GLN LEU ALA ASP TRP ALA ARG LYS TRP ARG SEQRES 6 B 304 GLY ALA VAL GLU LYS GLY PRO GLN TYR GLY THR LEU GLU SEQRES 7 B 304 LYS ALA TRP HIS ALA PHE PHE THR ALA ALA GLU ARG LEU SEQRES 8 B 304 SER GLU LEU HIS LEU GLU VAL ARG GLU LYS LEU HIS GLY SEQRES 9 B 304 PRO ASP SER GLU ARG VAL ARG THR TRP GLN ARG GLY ALA SEQRES 10 B 304 PHE HIS ARG PRO VAL LEU GLY GLY PHE ARG GLU SER ARG SEQRES 11 B 304 ALA ALA GLU ASP GLY PHE ARG LYS ALA GLN LYS PRO TRP SEQRES 12 B 304 LEU LYS ARG LEU LYS GLU VAL GLU ALA SER LYS LYS SER SEQRES 13 B 304 TYR HIS THR ALA ARG LYS ASP GLU LYS THR ALA GLN THR SEQRES 14 B 304 ARG GLU SER HIS ALA LYS ALA ASP SER SER MET SER GLN SEQRES 15 B 304 GLU GLN LEU ARG LYS LEU GLN GLU ARG VAL GLY ARG CYS SEQRES 16 B 304 THR LYS GLU ALA GLU LYS MET LYS THR GLN TYR GLU GLN SEQRES 17 B 304 THR LEU ALA GLU LEU ASN ARG TYR THR PRO ARG TYR MET SEQRES 18 B 304 GLU ASP MET GLU GLN ALA PHE GLU SER CYS GLN ALA ALA SEQRES 19 B 304 GLU ARG GLN ARG LEU LEU PHE PHE LYS ASP VAL LEU LEU SEQRES 20 B 304 THR LEU HIS GLN HIS LEU ASP LEU SER SER SER ASP LYS SEQRES 21 B 304 PHE HIS GLU LEU HIS ARG ASP LEU GLN GLN SER ILE GLU SEQRES 22 B 304 ALA ALA SER ASP GLU GLU ASP LEU ARG TRP TRP ARG SER SEQRES 23 B 304 THR HIS GLY PRO GLY MET ALA MET ASN TRP PRO GLN PHE SEQRES 24 B 304 GLU GLU TRP SER LEU HET MG A 2 1 HET MG B 1 1 HETNAM MG MAGNESIUM ION FORMUL 3 MG 2(MG 2+) FORMUL 5 HOH *34(H2 O) HELIX 1 1 TYR A 25 GLY A 74 1 50 HELIX 2 2 TYR A 77 GLY A 107 1 31 HELIX 3 3 GLY A 107 PHE A 121 1 15 HELIX 4 4 PHE A 129 ARG A 164 1 36 HELIX 5 5 ASP A 166 ALA A 170 5 5 HELIX 6 6 GLN A 171 SER A 175 5 5 HELIX 7 7 ARG A 194 THR A 220 1 27 HELIX 8 8 THR A 220 ASP A 257 1 38 HELIX 9 9 LEU A 258 SER A 260 5 3 HELIX 10 10 SER A 261 ALA A 277 1 17 HELIX 11 11 SER A 279 GLY A 292 1 14 HELIX 12 12 TYR B 25 GLY B 74 1 50 HELIX 13 13 TYR B 77 GLY B 107 1 31 HELIX 14 14 GLY B 107 PHE B 121 1 15 HELIX 15 15 PHE B 129 LYS B 168 1 40 HELIX 16 16 THR B 169 THR B 172 5 4 HELIX 17 17 ARG B 194 CYS B 198 5 5 HELIX 18 18 THR B 199 ASP B 257 1 59 HELIX 19 19 LEU B 258 SER B 260 5 3 HELIX 20 20 SER B 261 ALA B 277 1 17 HELIX 21 21 SER B 279 GLY B 292 1 14 LINK MG MG A 2 O VAL A 71 1555 1555 2.75 LINK MG MG A 2 O GLU A 72 1555 1555 2.64 LINK MG MG A 2 O GLY A 74 1555 1555 2.52 LINK MG MG A 2 O GLN A 76 1555 1555 2.54 LINK MG MG B 1 O VAL B 71 1555 1555 2.76 LINK MG MG B 1 O GLU B 72 1555 1555 2.77 LINK MG MG B 1 O GLY B 74 1555 1555 2.72 LINK MG MG B 1 O GLN B 76 1555 1555 2.53 LINK MG MG B 1 OE1 GLU B 81 1555 1555 2.66 CISPEP 1 LYS A 190 LEU A 191 0 -0.16 CISPEP 2 GLN B 185 GLU B 186 0 -7.08 CISPEP 3 GLN B 192 GLU B 193 0 3.23 SITE 1 AC1 6 VAL A 71 GLU A 72 GLY A 74 GLN A 76 SITE 2 AC1 6 GLU A 81 HOH A 312 SITE 1 AC2 5 VAL B 71 GLU B 72 GLY B 74 GLN B 76 SITE 2 AC2 5 GLU B 81 CRYST1 46.849 54.653 193.655 90.00 96.92 90.00 P 1 21 1 4 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 0.021345 0.000000 0.002592 0.00000 SCALE2 0.000000 0.018297 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005202 0.00000