HEADER FLUORESCENT PROTEIN 18-JAN-17 5MWC TITLE CRYSTAL STRUCTURE OF THE GENETICALLY-ENCODED GREEN CALCIUM INDICATOR TITLE 2 NTNC IN ITS CALCIUM BOUND STATE COMPND MOL_ID: 1; COMPND 2 MOLECULE: GENETICALLY-ENCODED GREEN CALCIUM INDICATOR NTNC; COMPND 3 CHAIN: D, A; COMPND 4 ENGINEERED: YES; COMPND 5 OTHER_DETAILS: THREE RESIDUES GYG FORM CHROMOPHORE LIGAND NAMED CR2. SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 3 ORGANISM_TAXID: 32630; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 6 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 7 EXPRESSION_SYSTEM_PLASMID: PBAD/HIS KEYWDS GREEN FLUORESCENT PROTEIN, CALCIUM INDICATOR, CALCIUM BOUND, KEYWDS 2 GENETICALLY-ENCODED, FLUORESCENT PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR K.M.BOYKO,A.Y.NIKOLAEVA,D.A.KORZHENEVSKIY,T.V.RAKITINA,V.O.POPOV, AUTHOR 2 O.M.SUBACH,N.V.BARYKINA,F.V.SUBACH REVDAT 2 07-FEB-24 5MWC 1 LINK REVDAT 1 14-FEB-18 5MWC 0 JRNL AUTH O.M.SUBACH,N.V.BARYKINA,K.D.PIATKEVICH,V.P.SOTSKOV, JRNL AUTH 2 M.A.ROSHCHINA,T.A.KUNITSYNA,A.Y.MALYSHEV,A.M.VARIZHUK, JRNL AUTH 3 G.E.POZMOGOVA,K.V.ANOKHIN,G.N.ENIKOLOPOV,K.M.BOYKO, JRNL AUTH 4 A.Y.NIKOLAEVA,D.A.KORZHENEVSKIY,T.V.RAKITINA,V.O.POPOV, JRNL AUTH 5 F.V.SUBACH JRNL TITL ENCHANCED VARIANT OF GENETICALLY-ENCODED GREEN CALCIUM JRNL TITL 2 INDICATOR NTNC JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.45 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 : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.45 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 72.80 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 19409 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) : 0.243 REMARK 3 R VALUE (WORKING SET) : 0.239 REMARK 3 FREE R VALUE : 0.310 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.200 REMARK 3 FREE R VALUE TEST SET COUNT : 1063 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) : 2.45 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.51 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1419 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.87 REMARK 3 BIN R VALUE (WORKING SET) : 0.3730 REMARK 3 BIN FREE R VALUE SET COUNT : 64 REMARK 3 BIN FREE R VALUE : 0.4320 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4112 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 3 REMARK 3 SOLVENT ATOMS : 46 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 63.62 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 61.22 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.22000 REMARK 3 B22 (A**2) : 0.22000 REMARK 3 B33 (A**2) : -0.44000 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): 0.732 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.358 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.366 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 17.423 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.930 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.899 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4234 ; 0.011 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5712 ; 1.860 ; 1.947 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 518 ; 6.945 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 196 ;36.012 ;24.184 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 632 ;18.000 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 18 ;22.257 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 596 ; 0.125 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3282 ; 0.006 ; 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): 2105 ; 4.585 ; 6.302 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2610 ; 7.014 ; 9.434 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2128 ; 4.900 ; 6.268 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 17251 ;11.749 ; 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 NCS TYPE: LOCAL REMARK 3 NUMBER OF DIFFERENT NCS PAIRS : 1 REMARK 3 GROUP CHAIN1 RANGE CHAIN2 RANGE COUNT RMS WEIGHT REMARK 3 1 D 13 303 A 13 303 14588 0.12 0.05 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 : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: U VALUES REFINED INDIVIDUALLY REMARK 4 REMARK 4 5MWC COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 18-JAN-17. REMARK 100 THE DEPOSITION ID IS D_1200003100. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 26-SEP-16 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4.8 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : MASSIF-3 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9677 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER R 4M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 20432 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.450 REMARK 200 RESOLUTION RANGE LOW (A) : 72.800 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 200 DATA REDUNDANCY : 8.933 REMARK 200 R MERGE (I) : 0.06200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 23.8400 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.45 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.50 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 9.39 REMARK 200 R MERGE FOR SHELL (I) : 0.97300 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.300 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MORDA REMARK 200 STARTING MODEL: 4HVF REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 35.01 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.89 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M SODIUM ACETATE, 22.5% PEG3350, REMARK 280 10% PEG400, 5% DMSO., PH 4.8, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 286K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 21 2 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 -Y+1/2,X+1/2,Z+1/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+3/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+1/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+3/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 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 78.73500 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 41.05000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 41.05000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 39.36750 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 41.05000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 41.05000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 118.10250 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 41.05000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 41.05000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 39.36750 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 41.05000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 41.05000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 118.10250 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 78.73500 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 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: D REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 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 D 1 REMARK 465 VAL D 2 REMARK 465 SER D 3 REMARK 465 LYS D 4 REMARK 465 GLY D 5 REMARK 465 GLU D 6 REMARK 465 GLU D 7 REMARK 465 ASP D 8 REMARK 465 ASN D 9 REMARK 465 MET D 10 REMARK 465 ALA D 11 REMARK 465 LEU D 179 REMARK 465 THR D 180 REMARK 465 GLY D 181 REMARK 465 GLU D 182 REMARK 465 GLN D 183 REMARK 465 LEU D 184 REMARK 465 THR D 185 REMARK 465 ASP D 186 REMARK 465 GLU D 187 REMARK 465 GLU D 214 REMARK 465 ASN D 215 REMARK 465 VAL D 216 REMARK 465 GLN D 217 REMARK 465 LEU D 218 REMARK 465 MET D 304 REMARK 465 GLY D 305 REMARK 465 MET D 306 REMARK 465 ASP D 307 REMARK 465 GLU D 308 REMARK 465 LEU D 309 REMARK 465 TYR D 310 REMARK 465 LYS D 311 REMARK 465 MET A 1 REMARK 465 VAL A 2 REMARK 465 SER A 3 REMARK 465 LYS A 4 REMARK 465 GLY A 5 REMARK 465 GLU A 6 REMARK 465 GLU A 7 REMARK 465 ASP A 8 REMARK 465 ASN A 9 REMARK 465 MET A 10 REMARK 465 ALA A 11 REMARK 465 SER A 12 REMARK 465 PHE A 161 REMARK 465 ASP A 162 REMARK 465 LYS A 163 REMARK 465 ASP A 164 REMARK 465 GLY A 165 REMARK 465 ASP A 166 REMARK 465 GLY A 167 REMARK 465 GLY A 174A REMARK 465 GLY A 174B REMARK 465 ILE A 174C REMARK 465 ILE A 174D REMARK 465 ARG A 174E REMARK 465 LEU A 174F REMARK 465 THR A 174G REMARK 465 GLY A 174H REMARK 465 GLU A 174I REMARK 465 GLN A 174J REMARK 465 LEU A 174K REMARK 465 THR A 174L REMARK 465 ASP A 174M REMARK 465 ASP A 195 REMARK 465 SER A 196 REMARK 465 ASP A 197 REMARK 465 THR A 198 REMARK 465 ASP A 199 REMARK 465 LYS A 200 REMARK 465 ASN A 201 REMARK 465 GLY A 202 REMARK 465 ARG A 203 REMARK 465 ILE A 204 REMARK 465 ASP A 205 REMARK 465 VAL A 213 REMARK 465 GLU A 214 REMARK 465 ASN A 215 REMARK 465 VAL A 216 REMARK 465 GLN A 217 REMARK 465 LEU A 218 REMARK 465 SER A 219 REMARK 465 ASP A 307 REMARK 465 GLU A 308 REMARK 465 LEU A 309 REMARK 465 TYR A 310 REMARK 465 LYS A 311 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 LYS D 53 CG CD CE NZ REMARK 470 LYS D 122 CG CD CE NZ REMARK 470 LYS D 128 CG CD CE NZ REMARK 470 ASP D 188 CG OD1 OD2 REMARK 470 LYS D 200 CD CE NZ REMARK 470 ASN D 201 CG OD1 ND2 REMARK 470 LYS D 211 CD CE NZ REMARK 470 ASN D 248 CG OD1 ND2 REMARK 470 LYS D 272 CG CD CE NZ REMARK 470 LYS D 294 CE NZ REMARK 470 LYS D 298 CD CE NZ REMARK 470 ASP D 302 CG OD1 OD2 REMARK 470 LEU A 153 CG CD1 CD2 REMARK 470 ARG A 158 CG CD NE CZ NH1 NH2 REMARK 470 THR A 159 OG1 CG2 REMARK 470 PHE A 168 CG CD1 CD2 CE1 CE2 CZ REMARK 470 ARG A 171 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 172 CG CD OE1 OE2 REMARK 470 PHE A 174 CG CD1 CD2 CE1 CE2 CZ REMARK 470 GLU A 187 CG CD OE1 OE2 REMARK 470 ASP A 188 CG OD1 OD2 REMARK 470 ASP A 190 CG OD1 OD2 REMARK 470 GLU A 191 CG CD OE1 OE2 REMARK 470 PHE A 206 CG CD1 CD2 CE1 CE2 CZ REMARK 470 LEU A 210 CG CD1 CD2 REMARK 470 LYS A 211 CG CD CE NZ REMARK 470 MET A 220 CG SD CE REMARK 470 LYS A 227 CG CD CE NZ REMARK 470 ASN A 269 CG OD1 ND2 REMARK 470 LYS A 272 CG CD CE NZ REMARK 470 ASN A 273 CG OD1 ND2 REMARK 470 LYS A 288 CG CD CE NZ REMARK 470 THR A 289 OG1 CG2 REMARK 470 LYS A 298 CE NZ REMARK 470 VAL A 303 CG1 CG2 REMARK 470 MET A 304 CG SD CE REMARK 470 MET A 306 CG SD CE 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 N ASP D 205 OE1 GLU D 208 2.13 REMARK 500 O GLU A 151 OG SER A 154 2.14 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 LEU D 291 CA - CB - CG ANGL. DEV. = 17.2 DEGREES REMARK 500 LEU D 291 CB - CG - CD1 ANGL. DEV. = -11.3 DEGREES REMARK 500 LEU D 291 CB - CG - CD2 ANGL. DEV. = 11.3 DEGREES REMARK 500 LEU A 291 CA - CB - CG ANGL. DEV. = 14.8 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 ALA D 15 -33.25 -131.49 REMARK 500 ASP D 79 32.45 -98.91 REMARK 500 ILE D 176 -76.55 -79.68 REMARK 500 ILE D 177 -33.93 -32.56 REMARK 500 ASN D 273 68.42 -102.97 REMARK 500 SER D 287 -169.84 -106.17 REMARK 500 ALA A 15 -32.99 -131.30 REMARK 500 PHE A 157 12.56 144.13 REMARK 500 ILE A 169 143.82 75.74 REMARK 500 ASP A 188 72.30 52.20 REMARK 500 ASP A 207 54.32 -62.27 REMARK 500 PHE A 209 -43.31 -28.45 REMARK 500 LEU A 210 -108.98 48.82 REMARK 500 LYS A 211 25.09 80.31 REMARK 500 ASP A 222 30.29 -96.96 REMARK 500 ASN A 273 70.22 -103.23 REMARK 500 SER A 287 -169.76 -105.64 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 CA D 402 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP D 161 OD1 REMARK 620 2 ASP D 163 OD1 78.4 REMARK 620 3 ASP D 165 OD1 64.3 69.9 REMARK 620 4 ASP D 165 OD2 106.0 71.9 42.2 REMARK 620 5 PHE D 167 O 89.8 152.1 82.2 87.7 REMARK 620 6 GLU D 172 OE1 108.8 76.4 146.4 126.2 131.5 REMARK 620 7 GLU D 172 OE2 164.1 90.4 122.5 80.6 105.1 57.0 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA D 401 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP D 197 OD1 REMARK 620 2 ASP D 199 OD1 70.8 REMARK 620 3 ARG D 203 O 75.0 144.8 REMARK 620 4 GLU D 208 OE1 89.5 107.6 63.5 REMARK 620 5 GLU D 208 OE2 69.5 62.3 98.1 45.8 REMARK 620 6 HOH D 520 O 160.8 90.6 122.3 91.6 97.9 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA D 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA D 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for Di-peptide ILE A 67 and CR2 A REMARK 800 70 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for Di-peptide CR2 A 70 and PHE A REMARK 800 71 DBREF 5MWC D 1 311 PDB 5MWC 5MWC 1 311 DBREF 5MWC A 1 311 PDB 5MWC 5MWC 1 311 SEQRES 1 D 309 MET VAL SER LYS GLY GLU GLU ASP ASN MET ALA SER LEU SEQRES 2 D 309 PRO ALA THR HIS GLU LEU HIS ILE PHE GLY SER ILE ASN SEQRES 3 D 309 GLY VAL ASP PHE ASP MET VAL GLY GLN GLY SER GLY ASN SEQRES 4 D 309 PRO ASN VAL GLY TYR GLU GLU LEU ASN LEU LYS SER THR SEQRES 5 D 309 LYS GLY ASP LEU GLN PHE SER PRO TRP ILE LEU VAL PRO SEQRES 6 D 309 HIS ILE CR2 PHE HIS GLN TYR LEU PRO TYR PRO ASP GLY SEQRES 7 D 309 MET SER PRO PHE GLN ALA ALA MET VAL ASP GLY SER GLY SEQRES 8 D 309 TYR GLN VAL HIS ARG THR VAL GLN PHE GLU ASP GLY ALA SEQRES 9 D 309 SER LEU THR VAL ASN TYR ARG TYR THR TYR GLU GLY SER SEQRES 10 D 309 HIS ILE LYS GLY GLU ALA GLN VAL LYS GLY THR GLY PHE SEQRES 11 D 309 PRO ALA ASP GLY PRO VAL MET ALA ASN SER LEU THR ALA SEQRES 12 D 309 MET VAL PRO SER GLU GLU GLU LEU SER GLU CYS PHE ARG SEQRES 13 D 309 THR PHE ASP LYS ASP GLY ASP GLY PHE ILE ASP ARG GLU SEQRES 14 D 309 GLU PHE GLY GLY ILE ILE ARG LEU THR GLY GLU GLN LEU SEQRES 15 D 309 THR ASP GLU ASP PRO ASP GLU ILE PHE GLY ASP SER ASP SEQRES 16 D 309 THR ASP LYS ASN GLY ARG ILE ASP PHE ASP GLU PHE LEU SEQRES 17 D 309 LYS MET VAL GLU ASN VAL GLN LEU SER MET ALA ASP TRP SEQRES 18 D 309 CYS ARG SER LYS MET ALA CYS PRO ASN ASP LYS THR LEU SEQRES 19 D 309 ILE SER THR LEU LYS TRP SER TYR THR THR GLY ASN GLY SEQRES 20 D 309 LYS ARG TYR ARG SER THR ALA ARG THR THR TYR THR PHE SEQRES 21 D 309 ALA LYS PRO MET ALA ALA ASN TYR LEU LYS ASN GLN PRO SEQRES 22 D 309 MET TYR VAL PHE ARG LYS THR GLU LEU LYS HIS SER LYS SEQRES 23 D 309 THR GLU LEU ASN PHE LYS GLU TRP GLN LYS ALA PHE THR SEQRES 24 D 309 ASP VAL MET GLY MET ASP GLU LEU TYR LYS SEQRES 1 A 309 MET VAL SER LYS GLY GLU GLU ASP ASN MET ALA SER LEU SEQRES 2 A 309 PRO ALA THR HIS GLU LEU HIS ILE PHE GLY SER ILE ASN SEQRES 3 A 309 GLY VAL ASP PHE ASP MET VAL GLY GLN GLY SER GLY ASN SEQRES 4 A 309 PRO ASN VAL GLY TYR GLU GLU LEU ASN LEU LYS SER THR SEQRES 5 A 309 LYS GLY ASP LEU GLN PHE SER PRO TRP ILE LEU VAL PRO SEQRES 6 A 309 HIS ILE CR2 PHE HIS GLN TYR LEU PRO TYR PRO ASP GLY SEQRES 7 A 309 MET SER PRO PHE GLN ALA ALA MET VAL ASP GLY SER GLY SEQRES 8 A 309 TYR GLN VAL HIS ARG THR VAL GLN PHE GLU ASP GLY ALA SEQRES 9 A 309 SER LEU THR VAL ASN TYR ARG TYR THR TYR GLU GLY SER SEQRES 10 A 309 HIS ILE LYS GLY GLU ALA GLN VAL LYS GLY THR GLY PHE SEQRES 11 A 309 PRO ALA ASP GLY PRO VAL MET ALA ASN SER LEU THR ALA SEQRES 12 A 309 MET VAL PRO SER GLU GLU GLU LEU SER GLU CYS PHE ARG SEQRES 13 A 309 THR PHE ASP LYS ASP GLY ASP GLY PHE ILE ASP ARG GLU SEQRES 14 A 309 GLU PHE GLY GLY ILE ILE ARG LEU THR GLY GLU GLN LEU SEQRES 15 A 309 THR ASP GLU ASP PRO ASP GLU ILE PHE GLY ASP SER ASP SEQRES 16 A 309 THR ASP LYS ASN GLY ARG ILE ASP PHE ASP GLU PHE LEU SEQRES 17 A 309 LYS MET VAL GLU ASN VAL GLN LEU SER MET ALA ASP TRP SEQRES 18 A 309 CYS ARG SER LYS MET ALA CYS PRO ASN ASP LYS THR LEU SEQRES 19 A 309 ILE SER THR LEU LYS TRP SER TYR THR THR GLY ASN GLY SEQRES 20 A 309 LYS ARG TYR ARG SER THR ALA ARG THR THR TYR THR PHE SEQRES 21 A 309 ALA LYS PRO MET ALA ALA ASN TYR LEU LYS ASN GLN PRO SEQRES 22 A 309 MET TYR VAL PHE ARG LYS THR GLU LEU LYS HIS SER LYS SEQRES 23 A 309 THR GLU LEU ASN PHE LYS GLU TRP GLN LYS ALA PHE THR SEQRES 24 A 309 ASP VAL MET GLY MET ASP GLU LEU TYR LYS HET CR2 D 70 19 HET CR2 A 70 19 HET CA D 401 1 HET CA D 402 1 HET CA A 401 1 HETNAM CR2 {(4Z)-2-(AMINOMETHYL)-4-[(4-HYDROXYPHENYL)METHYLIDENE]- HETNAM 2 CR2 5-OXO-4,5-DIHYDRO-1H-IMIDAZOL-1-YL}ACETIC ACID HETNAM CA CALCIUM ION HETSYN CR2 CHROMOPHORE (GLY-TYR-GLY) FORMUL 1 CR2 2(C13 H13 N3 O4) FORMUL 3 CA 3(CA 2+) FORMUL 6 HOH *46(H2 O) HELIX 1 AA1 SER D 59 VAL D 64 5 6 HELIX 2 AA2 PHE D 71 TYR D 74 5 4 HELIX 3 AA3 SER D 82 ASP D 90 1 9 HELIX 4 AA4 SER D 149 ASP D 161 1 13 HELIX 5 AA5 PHE D 173 ARG D 178 1 6 HELIX 6 AA6 PRO D 189 ASP D 197 1 9 HELIX 7 AA7 PHE D 206 VAL D 213 1 8 HELIX 8 AA8 ALA D 267 ASN D 273 1 7 HELIX 9 AA9 SER A 59 VAL A 64 5 6 HELIX 10 AB1 PHE A 71 TYR A 74 5 4 HELIX 11 AB2 SER A 82 ASP A 90 1 9 HELIX 12 AB3 SER A 149 CYS A 156 1 8 HELIX 13 AB4 ASP A 188 GLY A 194 1 7 HELIX 14 AB5 PHE A 206 LEU A 210 5 5 HELIX 15 AB6 ALA A 267 ASN A 273 1 7 SHEET 1 AA113 LEU D 143 PRO D 148 0 SHEET 2 AA113 THR D 235 THR D 246 -1 O THR D 245 N THR D 144 SHEET 3 AA113 ARG D 251 PHE D 262 -1 O TYR D 260 N LEU D 236 SHEET 4 AA113 TYR D 94 PHE D 102 -1 N HIS D 97 O THR D 259 SHEET 5 AA113 SER D 107 GLU D 117 -1 O VAL D 110 N ARG D 98 SHEET 6 AA113 HIS D 120 THR D 130 -1 O GLN D 126 N ASN D 111 SHEET 7 AA113 THR D 16 ILE D 25 1 N PHE D 22 O VAL D 127 SHEET 8 AA113 VAL D 28 GLY D 38 -1 O GLY D 36 N HIS D 17 SHEET 9 AA113 GLU D 45 SER D 51 -1 O GLU D 46 N SER D 37 SHEET 10 AA113 GLU D 290 PHE D 300 -1 O PHE D 293 N LEU D 47 SHEET 11 AA113 MET D 276 HIS D 286 -1 N TYR D 277 O PHE D 300 SHEET 12 AA113 CYS D 224 ASN D 232 -1 N MET D 228 O MET D 276 SHEET 13 AA113 THR D 235 THR D 246 -1 O ILE D 237 N ALA D 229 SHEET 1 AA2 2 PRO D 76 TYR D 77 0 SHEET 2 AA2 2 GLY D 80 MET D 81 -1 O GLY D 80 N TYR D 77 SHEET 1 AA3 2 PHE D 167 ILE D 168 0 SHEET 2 AA3 2 ILE D 204 ASP D 205 -1 O ILE D 204 N ILE D 168 SHEET 1 AA413 LEU A 143 PRO A 148 0 SHEET 2 AA413 THR A 235 THR A 246 -1 O THR A 245 N THR A 144 SHEET 3 AA413 ARG A 251 PHE A 262 -1 O TYR A 260 N LEU A 236 SHEET 4 AA413 TYR A 94 PHE A 102 -1 N HIS A 97 O THR A 259 SHEET 5 AA413 SER A 107 GLU A 117 -1 O VAL A 110 N ARG A 98 SHEET 6 AA413 HIS A 120 THR A 130 -1 O GLU A 124 N ARG A 113 SHEET 7 AA413 THR A 16 ILE A 25 1 N PHE A 22 O VAL A 127 SHEET 8 AA413 VAL A 28 GLY A 38 -1 O GLY A 36 N HIS A 17 SHEET 9 AA413 GLU A 45 SER A 51 -1 O GLU A 46 N SER A 37 SHEET 10 AA413 GLU A 290 PHE A 300 -1 O PHE A 293 N LEU A 47 SHEET 11 AA413 MET A 276 HIS A 286 -1 N TYR A 277 O PHE A 300 SHEET 12 AA413 CYS A 224 ASN A 232 -1 N MET A 228 O MET A 276 SHEET 13 AA413 THR A 235 THR A 246 -1 O ILE A 237 N ALA A 229 SHEET 1 AA5 2 PRO A 76 TYR A 77 0 SHEET 2 AA5 2 GLY A 80 MET A 81 -1 O GLY A 80 N TYR A 77 LINK C ILE D 67 N1 CR2 D 70 1555 1555 1.28 LINK C3 CR2 D 70 N PHE D 71 1555 1555 1.26 LINK C ILE A 67 N1 CR2 A 70 1555 1555 1.28 LINK C3 CR2 A 70 N PHE A 71 1555 1555 1.27 LINK OD1 ASP D 161 CA CA D 402 1555 1555 2.33 LINK OD1 ASP D 163 CA CA D 402 1555 1555 2.31 LINK OD1 ASP D 165 CA CA D 402 1555 1555 2.28 LINK OD2 ASP D 165 CA CA D 402 1555 1555 3.20 LINK O PHE D 167 CA CA D 402 1555 1555 2.33 LINK OE1 GLU D 172 CA CA D 402 1555 1555 2.31 LINK OE2 GLU D 172 CA CA D 402 1555 1555 2.29 LINK OD1 ASP D 197 CA CA D 401 1555 1555 2.31 LINK OD1 ASP D 199 CA CA D 401 1555 1555 2.30 LINK O ARG D 203 CA CA D 401 1555 1555 2.32 LINK OE1 GLU D 208 CA CA D 401 1555 1555 3.04 LINK OE2 GLU D 208 CA CA D 401 1555 1555 2.29 LINK CA CA D 401 O HOH D 520 1555 1555 2.32 LINK OE1 GLU A 208 CA CA A 401 1555 1555 2.33 CISPEP 1 VAL D 64 PRO D 65 0 13.61 CISPEP 2 GLN D 274 PRO D 275 0 -2.03 CISPEP 3 VAL A 64 PRO A 65 0 14.73 CISPEP 4 LEU A 210 LYS A 211 0 -18.55 SITE 1 AC1 5 ASP D 197 ASP D 199 ARG D 203 GLU D 208 SITE 2 AC1 5 HOH D 520 SITE 1 AC2 5 ASP D 161 ASP D 163 ASP D 165 PHE D 167 SITE 2 AC2 5 GLU D 172 SITE 1 AC3 1 GLU A 208 SITE 1 AC4 16 GLU A 45 LEU A 47 LEU A 63 PRO A 65 SITE 2 AC4 16 HIS A 66 PHE A 71 HIS A 72 ARG A 98 SITE 3 AC4 16 TYR A 114 MET A 146 CYS A 224 LEU A 240 SITE 4 AC4 16 ARG A 280 PHE A 293 GLU A 295 HOH A 517 SITE 1 AC5 17 HIS A 17 GLU A 18 GLU A 45 PRO A 65 SITE 2 AC5 17 HIS A 66 ILE A 67 HIS A 72 GLN A 73 SITE 3 AC5 17 TYR A 74 ARG A 98 TYR A 114 MET A 146 SITE 4 AC5 17 CYS A 224 LEU A 240 ARG A 280 GLU A 295 SITE 5 AC5 17 HOH A 505 CRYST1 82.100 82.100 157.470 90.00 90.00 90.00 P 41 21 2 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 0.012180 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012180 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006350 0.00000