HEADER MEMBRANE PROTEIN 02-FEB-09 3G3I TITLE CRYSTAL STRUCTURE OF THE GLUR6 LIGAND BINDING DOMAIN DIMER I442H K494E TITLE 2 I749L Q753K MUTANT WITH GLUTAMATE AND NACL AT 1.37 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 3G3I 1 REMARK SEQADV LINK REVDAT 3 01-NOV-17 3G3I 1 REMARK REVDAT 2 26-JUL-17 3G3I 1 SOURCE REVDAT 1 02-JUN-09 3G3I 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. 1.37 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) : 1.37 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 28.69 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 95.9 REMARK 3 NUMBER OF REFLECTIONS : 109022 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.151 REMARK 3 R VALUE (WORKING SET) : 0.149 REMARK 3 FREE R VALUE : 0.176 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.990 REMARK 3 FREE R VALUE TEST SET COUNT : 5438 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 28.6928 - 4.2543 0.90 3315 161 0.1478 0.1669 REMARK 3 2 4.2543 - 3.3785 0.94 3428 188 0.1346 0.1587 REMARK 3 3 3.3785 - 2.9519 0.96 3457 195 0.1439 0.1681 REMARK 3 4 2.9519 - 2.6822 0.96 3479 187 0.1551 0.2037 REMARK 3 5 2.6822 - 2.4901 0.97 3479 184 0.1495 0.1690 REMARK 3 6 2.4901 - 2.3434 0.97 3505 211 0.1421 0.1738 REMARK 3 7 2.3434 - 2.2260 0.98 3499 180 0.1352 0.1736 REMARK 3 8 2.2260 - 2.1292 0.98 3522 184 0.1301 0.1535 REMARK 3 9 2.1292 - 2.0472 0.98 3533 188 0.1284 0.1530 REMARK 3 10 2.0472 - 1.9766 0.98 3534 180 0.1289 0.1525 REMARK 3 11 1.9766 - 1.9148 0.98 3510 190 0.1375 0.1549 REMARK 3 12 1.9148 - 1.8601 0.98 3495 192 0.1416 0.1747 REMARK 3 13 1.8601 - 1.8111 0.98 3510 199 0.1427 0.1630 REMARK 3 14 1.8111 - 1.7670 0.97 3490 184 0.1397 0.1718 REMARK 3 15 1.7670 - 1.7268 0.97 3515 190 0.1373 0.1709 REMARK 3 16 1.7268 - 1.6900 0.97 3474 159 0.1359 0.1803 REMARK 3 17 1.6900 - 1.6562 0.97 3496 196 0.1371 0.1585 REMARK 3 18 1.6562 - 1.6250 0.97 3484 172 0.1331 0.1608 REMARK 3 19 1.6250 - 1.5960 0.97 3462 172 0.1313 0.1698 REMARK 3 20 1.5960 - 1.5689 0.97 3514 179 0.1382 0.1667 REMARK 3 21 1.5689 - 1.5436 0.96 3425 168 0.1376 0.1665 REMARK 3 22 1.5436 - 1.5199 0.96 3498 180 0.1390 0.1785 REMARK 3 23 1.5199 - 1.4975 0.96 3391 179 0.1467 0.2149 REMARK 3 24 1.4975 - 1.4764 0.96 3456 201 0.1582 0.1857 REMARK 3 25 1.4764 - 1.4565 0.96 3437 160 0.1618 0.2086 REMARK 3 26 1.4565 - 1.4376 0.96 3469 174 0.1727 0.2178 REMARK 3 27 1.4376 - 1.4196 0.95 3374 178 0.1702 0.1924 REMARK 3 28 1.4196 - 1.4025 0.95 3487 186 0.1801 0.2058 REMARK 3 29 1.4025 - 1.3862 0.94 3314 176 0.1850 0.1958 REMARK 3 30 1.3862 - 1.3706 0.83 3032 145 0.2061 0.2315 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 : 43.24 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.160 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : NULL REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 13.93 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 9029 REMARK 3 ANGLE : 1.138 16439 REMARK 3 CHIRALITY : 0.096 676 REMARK 3 PLANARITY : 0.006 1373 REMARK 3 DIHEDRAL : 14.980 2347 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 3:108) REMARK 3 ORIGIN FOR THE GROUP (A): 14.1127 28.2022 -2.8847 REMARK 3 T TENSOR REMARK 3 T11: 0.0909 T22: 0.0496 REMARK 3 T33: 0.0744 T12: 0.0012 REMARK 3 T13: 0.0057 T23: 0.0411 REMARK 3 L TENSOR REMARK 3 L11: 0.9229 L22: 1.6367 REMARK 3 L33: 0.8255 L12: 0.2205 REMARK 3 L13: -0.0872 L23: -0.1953 REMARK 3 S TENSOR REMARK 3 S11: -0.0208 S12: 0.1236 S13: 0.1588 REMARK 3 S21: -0.1695 S22: 0.0999 S23: 0.1100 REMARK 3 S31: -0.0668 S32: -0.0356 S33: -0.0699 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN A AND (RESID 109:214) REMARK 3 ORIGIN FOR THE GROUP (A): 24.4090 34.1929 17.8033 REMARK 3 T TENSOR REMARK 3 T11: 0.1124 T22: 0.0897 REMARK 3 T33: 0.1083 T12: -0.0017 REMARK 3 T13: 0.0029 T23: -0.0024 REMARK 3 L TENSOR REMARK 3 L11: 1.2081 L22: 2.3053 REMARK 3 L33: 0.9805 L12: -0.0556 REMARK 3 L13: 0.1471 L23: 0.5120 REMARK 3 S TENSOR REMARK 3 S11: 0.0039 S12: -0.0642 S13: 0.1061 REMARK 3 S21: 0.0955 S22: -0.0085 S23: -0.1719 REMARK 3 S31: -0.0133 S32: 0.0665 S33: 0.0091 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN A AND (RESID 215:258) REMARK 3 ORIGIN FOR THE GROUP (A): 19.3436 16.9265 -0.0911 REMARK 3 T TENSOR REMARK 3 T11: 0.1104 T22: 0.0949 REMARK 3 T33: 0.0880 T12: 0.0018 REMARK 3 T13: 0.0170 T23: 0.0087 REMARK 3 L TENSOR REMARK 3 L11: 0.4230 L22: 1.5094 REMARK 3 L33: 0.7101 L12: 0.1350 REMARK 3 L13: -0.2350 L23: -0.4361 REMARK 3 S TENSOR REMARK 3 S11: -0.0066 S12: 0.0047 S13: -0.0433 REMARK 3 S21: -0.1417 S22: 0.0271 S23: -0.1196 REMARK 3 S31: 0.0834 S32: 0.0570 S33: -0.0030 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN B AND (RESID 2:108) REMARK 3 ORIGIN FOR THE GROUP (A): 5.1773 0.5706 16.5126 REMARK 3 T TENSOR REMARK 3 T11: 0.0405 T22: 0.0637 REMARK 3 T33: 0.0472 T12: -0.0060 REMARK 3 T13: -0.0130 T23: 0.0121 REMARK 3 L TENSOR REMARK 3 L11: 1.3549 L22: 1.0364 REMARK 3 L33: 0.7946 L12: 0.0486 REMARK 3 L13: -0.1901 L23: 0.1875 REMARK 3 S TENSOR REMARK 3 S11: 0.0052 S12: -0.0900 S13: -0.0565 REMARK 3 S21: 0.0318 S22: 0.0287 S23: 0.0792 REMARK 3 S31: 0.0183 S32: -0.0609 S33: -0.0372 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN B AND (RESID 109:216) REMARK 3 ORIGIN FOR THE GROUP (A): 27.5251 -4.8602 11.1531 REMARK 3 T TENSOR REMARK 3 T11: 0.0526 T22: 0.0709 REMARK 3 T33: 0.0624 T12: 0.0059 REMARK 3 T13: -0.0077 T23: 0.0002 REMARK 3 L TENSOR REMARK 3 L11: 1.5065 L22: 1.0860 REMARK 3 L33: 0.9543 L12: -0.1113 REMARK 3 L13: 0.0581 L23: -0.0765 REMARK 3 S TENSOR REMARK 3 S11: 0.0395 S12: -0.0418 S13: -0.0989 REMARK 3 S21: -0.0108 S22: -0.0286 S23: -0.0751 REMARK 3 S31: 0.0513 S32: 0.0753 S33: -0.0078 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN B AND (RESID 217:254) REMARK 3 ORIGIN FOR THE GROUP (A): 8.6567 12.9017 17.9254 REMARK 3 T TENSOR REMARK 3 T11: 0.0862 T22: 0.0808 REMARK 3 T33: 0.0912 T12: -0.0052 REMARK 3 T13: 0.0150 T23: -0.0166 REMARK 3 L TENSOR REMARK 3 L11: 0.7101 L22: 0.9609 REMARK 3 L33: 1.1884 L12: -0.0180 REMARK 3 L13: -0.3517 L23: -0.2519 REMARK 3 S TENSOR REMARK 3 S11: 0.0856 S12: -0.0832 S13: 0.1548 REMARK 3 S21: 0.0666 S22: 0.0325 S23: 0.0326 REMARK 3 S31: -0.1546 S32: 0.0505 S33: -0.0840 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 3G3I 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_1000051376. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 16-FEB-08 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 : 113524 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.370 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.3 REMARK 200 DATA REDUNDANCY : 1.700 REMARK 200 R MERGE (I) : 0.03800 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 16.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.37 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.42 REMARK 200 COMPLETENESS FOR SHELL (%) : 89.3 REMARK 200 DATA REDUNDANCY IN SHELL : 1.60 REMARK 200 R MERGE FOR SHELL (I) : 0.24100 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.900 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 (%): 47.77 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.35 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 18% PEG 4K, 13% 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 57.15000 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: 2740 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 22840 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -54.0 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 GLU A 259 REMARK 465 GLY B 1 REMARK 465 ASN B 255 REMARK 465 PRO B 258 REMARK 465 GLU B 259 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 TYR B 61 CE1 TYR B 61 CZ -0.114 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 B 162 CG - SD - CE ANGL. DEV. = -16.0 DEGREES REMARK 500 GLU B 191 OE1 - CD - OE2 ANGL. DEV. = 7.3 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 13 109.42 -162.52 REMARK 500 GLU B 13 107.75 -163.41 REMARK 500 GLU B 13 110.58 -165.15 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 263 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 LEU A 12 O REMARK 620 2 HOH A 274 O 100.6 REMARK 620 3 HOH A 597 O 110.7 107.2 REMARK 620 4 HOH A 618 O 147.7 80.2 99.6 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 262 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 97 O REMARK 620 2 GLU A 97 OE2 98.8 REMARK 620 3 ILE A 100 O 81.5 86.7 REMARK 620 4 ASP A 101 OD1 159.7 100.1 92.2 REMARK 620 5 HOH A 390 O 88.5 110.8 161.1 91.7 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 96.8 REMARK 620 3 ILE B 100 O 81.5 86.1 REMARK 620 4 ASP B 101 OD1 159.3 102.0 91.3 REMARK 620 5 HOH B 433 O 87.5 107.9 163.1 94.7 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 NA 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 GLU B 260 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA B 261 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: 3G3J RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE GLUR6 I442H K494E K665R 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 3G3I A 2 117 UNP P42260 GRIK2_RAT 429 544 DBREF 3G3I A 120 259 UNP P42260 GRIK2_RAT 667 806 DBREF 3G3I B 2 117 UNP P42260 GRIK2_RAT 429 544 DBREF 3G3I B 120 259 UNP P42260 GRIK2_RAT 667 806 SEQADV 3G3I GLY A 1 UNP P42260 EXPRESSION TAG SEQADV 3G3I HIS A 46 UNP P42260 ILE 473 ENGINEERED MUTATION SEQADV 3G3I GLU A 98 UNP P42260 LYS 525 ENGINEERED MUTATION SEQADV 3G3I GLY A 118 UNP P42260 LINKER SEQADV 3G3I THR A 119 UNP P42260 LINKER SEQADV 3G3I LEU A 233 UNP P42260 ILE 780 ENGINEERED MUTATION SEQADV 3G3I LYS A 237 UNP P42260 GLN 784 ENGINEERED MUTATION SEQADV 3G3I GLY B 1 UNP P42260 EXPRESSION TAG SEQADV 3G3I HIS B 46 UNP P42260 ILE 473 ENGINEERED MUTATION SEQADV 3G3I GLU B 98 UNP P42260 LYS 525 ENGINEERED MUTATION SEQADV 3G3I GLY B 118 UNP P42260 LINKER SEQADV 3G3I THR B 119 UNP P42260 LINKER SEQADV 3G3I LEU B 233 UNP P42260 ILE 780 ENGINEERED MUTATION SEQADV 3G3I 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 LYS 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 LYS 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 NA A 262 1 HET NA A 263 1 HET GLU B 260 15 HET NA B 261 1 HETNAM GLU GLUTAMIC ACID HETNAM CL CHLORIDE ION HETNAM NA SODIUM ION FORMUL 3 GLU 2(C5 H9 N O4) FORMUL 4 CL CL 1- FORMUL 5 NA 3(NA 1+) FORMUL 9 HOH *692(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 2.04 LINK O LEU A 12 NA NA A 263 1555 1555 2.77 LINK O GLU A 97 NA NA A 262 1555 1555 2.41 LINK OE2 GLU A 97 NA NA A 262 1555 1555 2.51 LINK O ILE A 100 NA NA A 262 1555 1555 2.39 LINK OD1 ASP A 101 NA NA A 262 1555 1555 2.41 LINK NA NA A 262 O HOH A 390 1555 1555 2.33 LINK NA NA A 263 O HOH A 274 1555 1555 3.00 LINK NA NA A 263 O HOH A 597 1555 1555 2.86 LINK NA NA A 263 O HOH A 618 1555 1555 2.63 LINK O GLU B 97 NA NA B 261 1555 1555 2.40 LINK OE2 GLU B 97 NA NA B 261 1555 1555 2.54 LINK O ILE B 100 NA NA B 261 1555 1555 2.37 LINK OD1 ASP B 101 NA NA B 261 1555 1555 2.35 LINK NA NA B 261 O HOH B 433 1555 1555 2.30 CISPEP 1 GLU A 14 PRO A 15 0 1.29 CISPEP 2 GLU B 14 PRO B 15 0 0.47 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 272 HOH A 277 HOH A 303 SITE 4 AC1 13 HOH A 314 SITE 1 AC2 4 LYS A 104 ARG A 228 LYS B 104 ARG B 228 SITE 1 AC3 5 GLU A 97 ILE A 100 ASP A 101 MET A 223 SITE 2 AC3 5 HOH A 390 SITE 1 AC4 6 ILE A 11 LEU A 12 HOH A 274 HOH A 304 SITE 2 AC4 6 HOH A 597 HOH A 618 SITE 1 AC5 13 TYR B 61 PRO B 89 LEU B 90 ALA B 91 SITE 2 AC5 13 ARG B 96 GLY B 141 ALA B 142 THR B 143 SITE 3 AC5 13 GLU B 191 HOH B 268 HOH B 280 HOH B 284 SITE 4 AC5 13 HOH B 317 SITE 1 AC6 5 GLU B 97 ILE B 100 ASP B 101 MET B 223 SITE 2 AC6 5 HOH B 433 CRYST1 51.087 114.300 52.319 90.00 114.99 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 0.019574 0.000000 0.009124 0.00000 SCALE2 0.000000 0.008749 0.000000 0.00000 SCALE3 0.000000 0.000000 0.021088 0.00000