HEADER MEMBRANE PROTEIN 02-FEB-09 3G3J TITLE CRYSTAL STRUCTURE OF THE GLUR6 LIGAND BINDING DOMAIN DIMER I442H K494E TITLE 2 K665R I749L Q753K MUTANT WITH GLUTAMATE AND NACL AT 1.32 ANGSTROM TITLE 3 RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: GLUTAMATE RECEPTOR, IONOTROPIC KAINATE 2; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: RESIDUES 429-544, 667-806; COMPND 5 SYNONYM: GLUTAMATE RECEPTOR 6, GLUR-6, GLUR6; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: RATTUS NORVEGICUS; SOURCE 3 ORGANISM_TAXID: 10116; SOURCE 4 GENE: GRIK2; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: ORIGAMIB (DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET22B MODIFIED KEYWDS MEMBRANE PROTEIN, CELL JUNCTION, CELL MEMBRANE, GLYCOPROTEIN, ION KEYWDS 2 TRANSPORT, IONIC CHANNEL, MEMBRANE, POSTSYNAPTIC CELL MEMBRANE, KEYWDS 3 RECEPTOR, RNA EDITING, SYNAPSE, TRANSMEMBRANE, TRANSPORT EXPDTA X-RAY DIFFRACTION AUTHOR C.CHAUDHRY,M.L.MAYER REVDAT 4 20-OCT-21 3G3J 1 REMARK SEQADV LINK REVDAT 3 01-NOV-17 3G3J 1 REMARK REVDAT 2 26-JUL-17 3G3J 1 SOURCE REMARK REVDAT 1 02-JUN-09 3G3J 0 JRNL AUTH C.CHAUDHRY,M.C.WESTON,P.SCHUCK,C.ROSENMUND,M.L.MAYER JRNL TITL STABILITY OF LIGAND-BINDING DOMAIN DIMER ASSEMBLY CONTROLS JRNL TITL 2 KAINATE RECEPTOR DESENSITIZATION. JRNL REF EMBO J. V. 28 1518 2009 JRNL REFN ISSN 0261-4189 JRNL PMID 19339989 JRNL DOI 10.1038/EMBOJ.2009.86 REMARK 2 REMARK 2 RESOLUTION. 1.32 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.32 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 34.52 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 124266 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.157 REMARK 3 R VALUE (WORKING SET) : 0.156 REMARK 3 FREE R VALUE : 0.179 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.010 REMARK 3 FREE R VALUE TEST SET COUNT : 6231 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 34.5283 - 4.1025 0.99 4013 197 0.1574 0.1792 REMARK 3 2 4.1025 - 3.2571 1.00 3942 225 0.1389 0.1509 REMARK 3 3 3.2571 - 2.8456 1.00 3961 213 0.1471 0.1713 REMARK 3 4 2.8456 - 2.5855 1.00 3949 227 0.1497 0.1840 REMARK 3 5 2.5855 - 2.4002 1.00 3940 214 0.1436 0.1728 REMARK 3 6 2.4002 - 2.2588 1.00 3935 220 0.1363 0.1595 REMARK 3 7 2.2588 - 2.1457 1.00 3951 207 0.1286 0.1457 REMARK 3 8 2.1457 - 2.0523 1.00 3945 205 0.1279 0.1602 REMARK 3 9 2.0523 - 1.9733 1.00 3920 216 0.1315 0.1544 REMARK 3 10 1.9733 - 1.9052 1.00 3967 208 0.1442 0.1712 REMARK 3 11 1.9052 - 1.8456 1.00 3926 212 0.1445 0.1600 REMARK 3 12 1.8456 - 1.7929 1.00 3939 213 0.1439 0.1733 REMARK 3 13 1.7929 - 1.7457 1.00 3929 210 0.1464 0.1779 REMARK 3 14 1.7457 - 1.7031 1.00 3946 204 0.1455 0.1754 REMARK 3 15 1.7031 - 1.6644 1.00 3955 195 0.1477 0.1662 REMARK 3 16 1.6644 - 1.6289 1.00 3937 202 0.1403 0.1836 REMARK 3 17 1.6289 - 1.5964 1.00 3937 202 0.1410 0.1664 REMARK 3 18 1.5964 - 1.5662 1.00 3955 203 0.1461 0.1662 REMARK 3 19 1.5662 - 1.5383 1.00 3897 188 0.1462 0.1788 REMARK 3 20 1.5383 - 1.5122 1.00 4006 203 0.1506 0.1733 REMARK 3 21 1.5122 - 1.4878 1.00 3898 196 0.1520 0.1774 REMARK 3 22 1.4878 - 1.4649 1.00 3935 227 0.1588 0.1736 REMARK 3 23 1.4649 - 1.4434 1.00 3947 181 0.1668 0.2095 REMARK 3 24 1.4434 - 1.4230 1.00 3941 204 0.1747 0.1964 REMARK 3 25 1.4230 - 1.4038 1.00 3894 206 0.1824 0.2093 REMARK 3 26 1.4038 - 1.3856 1.00 3980 196 0.1917 0.1855 REMARK 3 27 1.3856 - 1.3682 1.00 3903 204 0.1994 0.2443 REMARK 3 28 1.3682 - 1.3518 1.00 3962 206 0.2095 0.2251 REMARK 3 29 1.3518 - 1.3360 0.99 3858 233 0.2112 0.2330 REMARK 3 30 1.3360 - 1.3210 0.95 3767 214 0.2219 0.2291 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : 0.41 REMARK 3 B_SOL : 52.81 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.170 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : NULL REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 14.11 REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.010 8905 REMARK 3 ANGLE : 1.114 16188 REMARK 3 CHIRALITY : 0.089 677 REMARK 3 PLANARITY : 0.006 1368 REMARK 3 DIHEDRAL : 14.865 2307 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 6 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN A AND (RESID 3:86) REMARK 3 ORIGIN FOR THE GROUP (A): 14.7440 29.7692 -5.5416 REMARK 3 T TENSOR REMARK 3 T11: 0.1556 T22: 0.0971 REMARK 3 T33: 0.0984 T12: -0.0054 REMARK 3 T13: 0.0136 T23: 0.0284 REMARK 3 L TENSOR REMARK 3 L11: 0.7529 L22: 0.9700 REMARK 3 L33: 0.8205 L12: 0.4013 REMARK 3 L13: -0.0040 L23: -0.2205 REMARK 3 S TENSOR REMARK 3 S11: -0.0625 S12: 0.0961 S13: 0.1111 REMARK 3 S21: -0.2486 S22: 0.0565 S23: 0.0059 REMARK 3 S31: -0.0742 S32: 0.0152 S33: -0.0044 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN A AND (RESID 87:226) REMARK 3 ORIGIN FOR THE GROUP (A): 20.6280 31.2667 14.6013 REMARK 3 T TENSOR REMARK 3 T11: 0.0619 T22: 0.0481 REMARK 3 T33: 0.0612 T12: -0.0033 REMARK 3 T13: 0.0129 T23: 0.0000 REMARK 3 L TENSOR REMARK 3 L11: 0.6112 L22: 0.9629 REMARK 3 L33: 0.5364 L12: 0.2795 REMARK 3 L13: 0.3547 L23: 0.2723 REMARK 3 S TENSOR REMARK 3 S11: 0.0131 S12: -0.0052 S13: 0.0759 REMARK 3 S21: 0.0535 S22: -0.0095 S23: -0.0550 REMARK 3 S31: -0.0063 S32: 0.0265 S33: -0.0407 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN A AND (RESID 227:253) REMARK 3 ORIGIN FOR THE GROUP (A): 19.6622 14.1161 -1.5707 REMARK 3 T TENSOR REMARK 3 T11: 0.1323 T22: 0.1227 REMARK 3 T33: 0.1205 T12: 0.0080 REMARK 3 T13: 0.0254 T23: -0.0017 REMARK 3 L TENSOR REMARK 3 L11: 0.1079 L22: 0.6765 REMARK 3 L33: 0.3672 L12: 0.0379 REMARK 3 L13: -0.0754 L23: -0.1037 REMARK 3 S TENSOR REMARK 3 S11: -0.0116 S12: 0.1655 S13: -0.0439 REMARK 3 S21: -0.1237 S22: 0.0331 S23: -0.1353 REMARK 3 S31: 0.0769 S32: 0.0761 S33: -0.0284 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN B AND (RESID 2:108) REMARK 3 ORIGIN FOR THE GROUP (A): 4.9763 0.8793 16.6950 REMARK 3 T TENSOR REMARK 3 T11: 0.0660 T22: 0.0836 REMARK 3 T33: 0.0784 T12: -0.0073 REMARK 3 T13: -0.0087 T23: 0.0101 REMARK 3 L TENSOR REMARK 3 L11: 0.9294 L22: 0.7475 REMARK 3 L33: 0.7371 L12: -0.0826 REMARK 3 L13: -0.0259 L23: 0.0741 REMARK 3 S TENSOR REMARK 3 S11: 0.0208 S12: -0.0660 S13: -0.0579 REMARK 3 S21: 0.0139 S22: 0.0067 S23: 0.0734 REMARK 3 S31: 0.0226 S32: -0.0460 S33: -0.0275 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN B AND (RESID 109:216) REMARK 3 ORIGIN FOR THE GROUP (A): 27.4244 -4.8433 11.2925 REMARK 3 T TENSOR REMARK 3 T11: 0.0111 T22: 0.0296 REMARK 3 T33: 0.0307 T12: 0.0060 REMARK 3 T13: -0.0048 T23: -0.0010 REMARK 3 L TENSOR REMARK 3 L11: 1.1698 L22: 0.5402 REMARK 3 L33: 0.8043 L12: -0.3154 REMARK 3 L13: -0.0664 L23: -0.0152 REMARK 3 S TENSOR REMARK 3 S11: 0.0398 S12: -0.0564 S13: -0.0794 REMARK 3 S21: 0.0070 S22: -0.0265 S23: -0.0775 REMARK 3 S31: 0.0637 S32: 0.0783 S33: 0.0068 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN B AND (RESID 217:253) REMARK 3 ORIGIN FOR THE GROUP (A): 8.0508 13.1899 17.3180 REMARK 3 T TENSOR REMARK 3 T11: 0.0944 T22: 0.0929 REMARK 3 T33: 0.0903 T12: -0.0025 REMARK 3 T13: 0.0042 T23: -0.0127 REMARK 3 L TENSOR REMARK 3 L11: 0.2798 L22: 0.5236 REMARK 3 L33: 0.2704 L12: -0.0065 REMARK 3 L13: -0.1162 L23: -0.2452 REMARK 3 S TENSOR REMARK 3 S11: 0.0288 S12: -0.0572 S13: 0.0798 REMARK 3 S21: 0.0446 S22: 0.0270 S23: 0.0165 REMARK 3 S31: -0.0880 S32: 0.0160 S33: -0.0497 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REFINEMENT WAS STARTED WITH REFMAC_5.2. REMARK 3 THE FINAL ROUNDS OF REFINEMENT WERE PERFORMED WITH PHENIX AND REMARK 3 INCLUDED OCCUPANCY REFINEMENT FOR IONS, AND FOR RESIDUES WITH REMARK 3 ALTERNATIVE CONFORMATIONS. REMARK 4 REMARK 4 3G3J COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 18-FEB-09. REMARK 100 THE DEPOSITION ID IS D_1000051377. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-DEC-07 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 22-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.00000 REMARK 200 MONOCHROMATOR : SI(220) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 300 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 124517 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.320 REMARK 200 RESOLUTION RANGE LOW (A) : 35.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 3.700 REMARK 200 R MERGE (I) : 0.04400 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 19.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.32 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.37 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.2 REMARK 200 DATA REDUNDANCY IN SHELL : 3.40 REMARK 200 R MERGE FOR SHELL (I) : 0.36900 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.400 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: FOURIER SYNTHESIS REMARK 200 SOFTWARE USED: FOURIER DIFFERENCE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 46.74 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.31 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 15% PEG 4K, 15% ISOPROPANOL, 0.1 M REMARK 280 NACITRATE, PH 5.6, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE REMARK 280 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 56.85500 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 300 REMARK: THE NATIVE PROTEIN IS BELIEVED TO BE A DIMER OF DIMERS; REMARK 300 ONLY 1 COPY OF THE DIMER FORMED BY CHAINS A AND B IS PRESENT IN REMARK 300 THIS CRYSTAL FORM. 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: 2940 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 22840 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -70.0 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 GLY A 1 REMARK 465 SER A 2 REMARK 465 GLY A 254 REMARK 465 ASN A 255 REMARK 465 GLY B 1 REMARK 465 GLY B 254 REMARK 465 ASN B 255 REMARK 465 GLY B 256 REMARK 465 PRO B 258 REMARK 465 GLU B 259 REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 ARG A 253 CG CD NE CZ NH1 NH2 REMARK 480 GLU A 259 CG CD OE1 OE2 REMARK 480 ARG B 253 CG CD NE CZ NH1 NH2 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 HZ3 LYS A 117 OE2 GLU A 259 1.40 REMARK 500 NH2 ARG B 253 O HOH B 441 2.01 REMARK 500 O GLU B 249 CG ARG B 253 2.04 REMARK 500 NZ LYS A 117 OE2 GLU A 259 2.05 REMARK 500 O HOH A 613 O HOH B 522 2.13 REMARK 500 O HOH B 283 O HOH B 482 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 MET A 162 CG - SD - CE ANGL. DEV. = -11.3 DEGREES REMARK 500 MET B 162 CG - SD - CE ANGL. DEV. = -13.1 DEGREES REMARK 500 MET B 190 CG - SD - CE ANGL. DEV. = -9.7 DEGREES REMARK 500 ARG B 201 NE - CZ - NH1 ANGL. DEV. = 4.1 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 GLU A 13 107.76 -163.82 REMARK 500 GLU B 13 110.65 -164.30 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 NA A 264 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 LEU A 12 O REMARK 620 2 HOH A 353 O 152.0 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 263 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 97 O REMARK 620 2 GLU A 97 OE2 100.4 REMARK 620 3 ILE A 100 O 82.6 87.1 REMARK 620 4 ASP A 101 OD1 159.1 99.4 91.8 REMARK 620 5 HOH A 268 O 89.0 111.3 161.0 90.0 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA B 261 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B 97 O REMARK 620 2 GLU B 97 OE2 99.5 REMARK 620 3 ILE B 100 O 83.2 88.1 REMARK 620 4 ASP B 101 OD1 158.7 101.3 93.1 REMARK 620 5 HOH B 427 O 86.3 106.8 163.0 91.9 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 GLU A 260 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 261 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 262 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 263 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 264 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GLU B 260 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA B 261 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA B 262 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3G3F RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE GLUR6 WILD TYPE LIGAND BINDING DOMAIN DIMER REMARK 900 RELATED ID: 3G3G RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE GLUR6 K665R MUTANT LIGAND BINDING DOMAIN REMARK 900 DIMER REMARK 900 RELATED ID: 3G3H RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE GLUR6 K665R I749L Q753K MUTANT LIGAND REMARK 900 BINDING DOMAIN DIMER REMARK 900 RELATED ID: 3G3I RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE GLUR6 I442H K494E I749L Q753K MUTANT REMARK 900 LIGAND BINDING DOMAIN DIMER REMARK 900 RELATED ID: 3G3K RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE GLUR6 I442H K494E K665R I749L Q753K E757Q REMARK 900 MUTANT LIGAND BINDING DOMAIN DIMER DBREF 3G3J A 2 117 UNP P42260 GRIK2_RAT 429 544 DBREF 3G3J A 120 259 UNP P42260 GRIK2_RAT 667 806 DBREF 3G3J B 2 117 UNP P42260 GRIK2_RAT 429 544 DBREF 3G3J B 120 259 UNP P42260 GRIK2_RAT 667 806 SEQADV 3G3J GLY A 1 UNP P42260 EXPRESSION TAG SEQADV 3G3J HIS A 46 UNP P42260 ILE 473 ENGINEERED MUTATION SEQADV 3G3J GLU A 98 UNP P42260 LYS 525 ENGINEERED MUTATION SEQADV 3G3J GLY A 118 UNP P42260 LINKER SEQADV 3G3J THR A 119 UNP P42260 LINKER SEQADV 3G3J ARG A 149 UNP P42260 LYS 696 ENGINEERED MUTATION SEQADV 3G3J LEU A 233 UNP P42260 ILE 780 ENGINEERED MUTATION SEQADV 3G3J LYS A 237 UNP P42260 GLN 784 ENGINEERED MUTATION SEQADV 3G3J GLY B 1 UNP P42260 EXPRESSION TAG SEQADV 3G3J HIS B 46 UNP P42260 ILE 473 ENGINEERED MUTATION SEQADV 3G3J GLU B 98 UNP P42260 LYS 525 ENGINEERED MUTATION SEQADV 3G3J GLY B 118 UNP P42260 LINKER SEQADV 3G3J THR B 119 UNP P42260 LINKER SEQADV 3G3J ARG B 149 UNP P42260 LYS 696 ENGINEERED MUTATION SEQADV 3G3J LEU B 233 UNP P42260 ILE 780 ENGINEERED MUTATION SEQADV 3G3J LYS B 237 UNP P42260 GLN 784 ENGINEERED MUTATION SEQRES 1 A 259 GLY SER ASN ARG SER LEU ILE VAL THR THR ILE LEU GLU SEQRES 2 A 259 GLU PRO TYR VAL LEU PHE LYS LYS SER ASP LYS PRO LEU SEQRES 3 A 259 TYR GLY ASN ASP ARG PHE GLU GLY TYR CYS ILE ASP LEU SEQRES 4 A 259 LEU ARG GLU LEU SER THR HIS LEU GLY PHE THR TYR GLU SEQRES 5 A 259 ILE ARG LEU VAL GLU ASP GLY LYS TYR GLY ALA GLN ASP SEQRES 6 A 259 ASP VAL ASN GLY GLN TRP ASN GLY MET VAL ARG GLU LEU SEQRES 7 A 259 ILE ASP HIS LYS ALA ASP LEU ALA VAL ALA PRO LEU ALA SEQRES 8 A 259 ILE THR TYR VAL ARG GLU GLU VAL ILE ASP PHE SER LYS SEQRES 9 A 259 PRO PHE MET THR LEU GLY ILE SER ILE LEU TYR ARG LYS SEQRES 10 A 259 GLY THR PRO ILE ASP SER ALA ASP ASP LEU ALA LYS GLN SEQRES 11 A 259 THR LYS ILE GLU TYR GLY ALA VAL GLU ASP GLY ALA THR SEQRES 12 A 259 MET THR PHE PHE LYS ARG SER LYS ILE SER THR TYR ASP SEQRES 13 A 259 LYS MET TRP ALA PHE MET SER SER ARG ARG GLN SER VAL SEQRES 14 A 259 LEU VAL LYS SER ASN GLU GLU GLY ILE GLN ARG VAL LEU SEQRES 15 A 259 THR SER ASP TYR ALA PHE LEU MET GLU SER THR THR ILE SEQRES 16 A 259 GLU PHE VAL THR GLN ARG ASN CYS ASN LEU THR GLN ILE SEQRES 17 A 259 GLY GLY LEU ILE ASP SER LYS GLY TYR GLY VAL GLY THR SEQRES 18 A 259 PRO MET GLY SER PRO TYR ARG ASP LYS ILE THR LEU ALA SEQRES 19 A 259 ILE LEU LYS LEU GLN GLU GLU GLY LYS LEU HIS MET MET SEQRES 20 A 259 LYS GLU LYS TRP TRP ARG GLY ASN GLY CYS PRO GLU SEQRES 1 B 259 GLY SER ASN ARG SER LEU ILE VAL THR THR ILE LEU GLU SEQRES 2 B 259 GLU PRO TYR VAL LEU PHE LYS LYS SER ASP LYS PRO LEU SEQRES 3 B 259 TYR GLY ASN ASP ARG PHE GLU GLY TYR CYS ILE ASP LEU SEQRES 4 B 259 LEU ARG GLU LEU SER THR HIS LEU GLY PHE THR TYR GLU SEQRES 5 B 259 ILE ARG LEU VAL GLU ASP GLY LYS TYR GLY ALA GLN ASP SEQRES 6 B 259 ASP VAL ASN GLY GLN TRP ASN GLY MET VAL ARG GLU LEU SEQRES 7 B 259 ILE ASP HIS LYS ALA ASP LEU ALA VAL ALA PRO LEU ALA SEQRES 8 B 259 ILE THR TYR VAL ARG GLU GLU VAL ILE ASP PHE SER LYS SEQRES 9 B 259 PRO PHE MET THR LEU GLY ILE SER ILE LEU TYR ARG LYS SEQRES 10 B 259 GLY THR PRO ILE ASP SER ALA ASP ASP LEU ALA LYS GLN SEQRES 11 B 259 THR LYS ILE GLU TYR GLY ALA VAL GLU ASP GLY ALA THR SEQRES 12 B 259 MET THR PHE PHE LYS ARG SER LYS ILE SER THR TYR ASP SEQRES 13 B 259 LYS MET TRP ALA PHE MET SER SER ARG ARG GLN SER VAL SEQRES 14 B 259 LEU VAL LYS SER ASN GLU GLU GLY ILE GLN ARG VAL LEU SEQRES 15 B 259 THR SER ASP TYR ALA PHE LEU MET GLU SER THR THR ILE SEQRES 16 B 259 GLU PHE VAL THR GLN ARG ASN CYS ASN LEU THR GLN ILE SEQRES 17 B 259 GLY GLY LEU ILE ASP SER LYS GLY TYR GLY VAL GLY THR SEQRES 18 B 259 PRO MET GLY SER PRO TYR ARG ASP LYS ILE THR LEU ALA SEQRES 19 B 259 ILE LEU LYS LEU GLN GLU GLU GLY LYS LEU HIS MET MET SEQRES 20 B 259 LYS GLU LYS TRP TRP ARG GLY ASN GLY CYS PRO GLU HET GLU A 260 18 HET CL A 261 1 HET CL A 262 1 HET NA A 263 1 HET NA A 264 1 HET GLU B 260 15 HET NA B 261 1 HET NA B 262 1 HETNAM GLU GLUTAMIC ACID HETNAM CL CHLORIDE ION HETNAM NA SODIUM ION FORMUL 3 GLU 2(C5 H9 N O4) FORMUL 4 CL 2(CL 1-) FORMUL 6 NA 4(NA 1+) FORMUL 11 HOH *618(H2 O) HELIX 1 1 TYR A 27 ASP A 30 5 4 HELIX 2 2 GLY A 34 GLY A 48 1 15 HELIX 3 3 ASN A 72 ASP A 80 1 9 HELIX 4 4 THR A 93 GLU A 98 1 6 HELIX 5 5 SER A 123 LYS A 129 1 7 HELIX 6 6 GLY A 141 SER A 150 1 10 HELIX 7 7 ILE A 152 ARG A 165 1 14 HELIX 8 8 ARG A 165 VAL A 169 1 5 HELIX 9 9 SER A 173 SER A 184 1 12 HELIX 10 10 SER A 192 ASN A 202 1 11 HELIX 11 11 PRO A 226 GLU A 241 1 16 HELIX 12 12 GLY A 242 ARG A 253 1 12 HELIX 13 13 TYR B 27 ASP B 30 5 4 HELIX 14 14 GLY B 34 GLY B 48 1 15 HELIX 15 15 ASN B 72 ASP B 80 1 9 HELIX 16 16 THR B 93 GLU B 98 1 6 HELIX 17 17 SER B 123 LYS B 129 1 7 HELIX 18 18 GLY B 141 SER B 150 1 10 HELIX 19 19 ILE B 152 ARG B 165 1 14 HELIX 20 20 ARG B 165 VAL B 169 1 5 HELIX 21 21 SER B 173 SER B 184 1 12 HELIX 22 22 SER B 192 ASN B 202 1 11 HELIX 23 23 PRO B 226 GLU B 241 1 16 HELIX 24 24 GLY B 242 ARG B 253 1 12 SHEET 1 A 3 TYR A 51 LEU A 55 0 SHEET 2 A 3 LEU A 6 THR A 10 1 N VAL A 8 O ARG A 54 SHEET 3 A 3 LEU A 85 ALA A 86 1 O LEU A 85 N THR A 9 SHEET 1 B 2 LEU A 18 PHE A 19 0 SHEET 2 B 2 PHE A 32 GLU A 33 -1 O GLU A 33 N LEU A 18 SHEET 1 C 2 ILE A 100 PHE A 102 0 SHEET 2 C 2 GLY A 220 PRO A 222 -1 O THR A 221 N ASP A 101 SHEET 1 D 2 MET A 107 LEU A 109 0 SHEET 2 D 2 LYS A 215 TYR A 217 -1 O LYS A 215 N LEU A 109 SHEET 1 E 5 LEU A 170 VAL A 171 0 SHEET 2 E 5 GLU A 134 VAL A 138 1 N ALA A 137 O VAL A 171 SHEET 3 E 5 TYR A 186 GLU A 191 1 O LEU A 189 N GLY A 136 SHEET 4 E 5 ILE A 111 ARG A 116 -1 N LEU A 114 O PHE A 188 SHEET 5 E 5 LEU A 205 ILE A 208 -1 O THR A 206 N TYR A 115 SHEET 1 F 3 TYR B 51 LEU B 55 0 SHEET 2 F 3 LEU B 6 THR B 10 1 N VAL B 8 O ARG B 54 SHEET 3 F 3 LEU B 85 ALA B 86 1 O LEU B 85 N THR B 9 SHEET 1 G 2 LEU B 18 PHE B 19 0 SHEET 2 G 2 PHE B 32 GLU B 33 -1 O GLU B 33 N LEU B 18 SHEET 1 H 2 ILE B 100 PHE B 102 0 SHEET 2 H 2 GLY B 220 PRO B 222 -1 O THR B 221 N ASP B 101 SHEET 1 I 2 MET B 107 LEU B 109 0 SHEET 2 I 2 LYS B 215 TYR B 217 -1 O LYS B 215 N LEU B 109 SHEET 1 J 5 LEU B 170 VAL B 171 0 SHEET 2 J 5 GLU B 134 VAL B 138 1 N ALA B 137 O VAL B 171 SHEET 3 J 5 TYR B 186 GLU B 191 1 O LEU B 189 N GLY B 136 SHEET 4 J 5 ILE B 111 ARG B 116 -1 N LEU B 114 O PHE B 188 SHEET 5 J 5 LEU B 205 ILE B 208 -1 O THR B 206 N TYR B 115 SSBOND 1 CYS A 203 CYS A 257 1555 1555 2.04 SSBOND 2 CYS B 203 CYS B 257 1555 1555 2.02 LINK O LEU A 12 NA NA A 264 1555 1555 2.85 LINK O GLU A 97 NA NA A 263 1555 1555 2.38 LINK OE2 GLU A 97 NA NA A 263 1555 1555 2.46 LINK O ILE A 100 NA NA A 263 1555 1555 2.39 LINK OD1 ASP A 101 NA NA A 263 1555 1555 2.39 LINK NA NA A 263 O HOH A 268 1555 1555 2.37 LINK NA NA A 264 O HOH A 353 1555 1555 2.57 LINK O GLU B 97 NA NA B 261 1555 1555 2.36 LINK OE2 GLU B 97 NA NA B 261 1555 1555 2.51 LINK O ILE B 100 NA NA B 261 1555 1555 2.32 LINK OD1 ASP B 101 NA NA B 261 1555 1555 2.36 LINK NA NA B 261 O HOH B 427 1555 1555 2.32 CISPEP 1 GLU A 14 PRO A 15 0 -1.14 CISPEP 2 GLU B 14 PRO B 15 0 1.25 CISPEP 3 GLU B 14 PRO B 15 0 -1.59 SITE 1 AC1 13 TYR A 61 PRO A 89 LEU A 90 ALA A 91 SITE 2 AC1 13 ARG A 96 GLY A 141 ALA A 142 THR A 143 SITE 3 AC1 13 GLU A 191 HOH A 270 HOH A 278 HOH A 283 SITE 4 AC1 13 HOH A 293 SITE 1 AC2 4 LYS A 104 ARG A 228 LYS B 104 ARG B 228 SITE 1 AC3 4 GLN A 239 LEU A 244 HIS A 245 HOH A 413 SITE 1 AC4 5 GLU A 97 ILE A 100 ASP A 101 MET A 223 SITE 2 AC4 5 HOH A 268 SITE 1 AC5 5 ILE A 11 LEU A 12 HOH A 353 HOH A 383 SITE 2 AC5 5 HOH A 414 SITE 1 AC6 13 TYR B 61 PRO B 89 LEU B 90 ALA B 91 SITE 2 AC6 13 ARG B 96 GLY B 141 ALA B 142 THR B 143 SITE 3 AC6 13 GLU B 191 HOH B 269 HOH B 275 HOH B 277 SITE 4 AC6 13 HOH B 296 SITE 1 AC7 5 GLU B 97 ILE B 100 ASP B 101 MET B 223 SITE 2 AC7 5 HOH B 427 SITE 1 AC8 4 GLY B 118 HOH B 432 HOH B 529 HOH B 598 CRYST1 50.915 113.710 51.939 90.00 115.31 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 0.019641 0.000000 0.009287 0.00000 SCALE2 0.000000 0.008794 0.000000 0.00000 SCALE3 0.000000 0.000000 0.021297 0.00000