HEADER MEMBRANE PROTEIN 18-NOV-16 5MFQ TITLE CRYSTAL STRUCTURE OF THE GLUK1 LIGAND-BINDING DOMAIN IN COMPLEX WITH TITLE 2 KAINATE AND BPAM-344 AT 1.90 A RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: GLUTAMATE RECEPTOR IONOTROPIC, KAINATE 1,GLUTAMATE RECEPTOR COMPND 3 IONOTROPIC, KAINATE 1; COMPND 4 CHAIN: A, B; COMPND 5 FRAGMENT: UNP RESIDUES 445-559,UNP RESIDUES 682-820,UNP RESIDUES 445- COMPND 6 559,UNP RESIDUES 682-820; COMPND 7 SYNONYM: GLUK1,GLUTAMATE RECEPTOR 5,GLUR5,GLUK1,GLUTAMATE RECEPTOR 5, COMPND 8 GLUR5; COMPND 9 ENGINEERED: YES; COMPND 10 OTHER_DETAILS: THE PROTEIN CRYSTALLIZED IS THE EXTRACELLULAR LIGAND COMPND 11 BINDING DOMAIN OF GLUK1. TRANSMEMBRANE REGIONS WERE GENETICALLY COMPND 12 REMOVED AND REPLACED WITH A GLY-THR LINKER (RESIDUES 545 AND 546 OF COMPND 13 THE STRUCTURE). THEREFORE, THE SEQUENCE MATCHES DISCONTINUOUSLY WITH COMPND 14 THE REFERENCE DATABASE (430-544, 667-805). RESIDUE 429 IS A REMNANT COMPND 15 FROM CLONING.,THE PROTEIN CRYSTALLIZED IS THE EXTRACELLULAR LIGAND COMPND 16 BINDING DOMAIN OF GLUK1. TRANSMEMBRANE REGIONS WERE GENETICALLY COMPND 17 REMOVED AND REPLACED WITH A GLY-THR LINKER (RESIDUES 545 AND 546 OF COMPND 18 THE STRUCTURE). THEREFORE, THE SEQUENCE MATCHES DISCONTINUOUSLY WITH COMPND 19 THE REFERENCE DATABASE (430-544, 667-805). RESIDUE 429 IS A REMNANT COMPND 20 FROM CLONING. SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: RATTUS NORVEGICUS; SOURCE 3 ORGANISM_COMMON: RAT; SOURCE 4 ORGANISM_TAXID: 10116; SOURCE 5 GENE: GRIK1, GLUR5; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_VARIANT: ORIGAMI 2; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET28A KEYWDS IONOTROPIC GLUTAMATE RECEPTOR, GLUK1 LIGAND-BINDING DOMAIN, MEMBRANE KEYWDS 2 PROTEIN, POSITIVE ALLOSTERIC MODULATOR EXPDTA X-RAY DIFFRACTION AUTHOR A.P.LARSEN,K.FRYDENVANG,J.S.KASTRUP REVDAT 5 17-JAN-24 5MFQ 1 REMARK REVDAT 4 27-JUN-18 5MFQ 1 COMPND SOURCE DBREF SEQADV REVDAT 4 2 1 ATOM REVDAT 3 17-JAN-18 5MFQ 1 REMARK REVDAT 2 10-MAY-17 5MFQ 1 JRNL REVDAT 1 12-APR-17 5MFQ 0 JRNL AUTH A.P.LARSEN,S.FIEVRE,K.FRYDENVANG,P.FRANCOTTE,B.PIROTTE, JRNL AUTH 2 J.S.KASTRUP,C.MULLE JRNL TITL IDENTIFICATION AND STRUCTURE-FUNCTION STUDY OF POSITIVE JRNL TITL 2 ALLOSTERIC MODULATORS OF KAINATE RECEPTORS. JRNL REF MOL. PHARMACOL. V. 91 576 2017 JRNL REFN ESSN 1521-0111 JRNL PMID 28360094 JRNL DOI 10.1124/MOL.116.107599 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH P.NAUR,B.VESTERGAARD,L.K.SKOV,J.EGEBJERG,M.GAJHEDE, REMARK 1 AUTH 2 J.S.KASTRUP REMARK 1 TITL CRYSTAL STRUCTURE OF THE KAINATE RECEPTOR GLUR5 REMARK 1 TITL 2 LIGAND-BINDING CORE IN COMPLEX WITH (S)-GLUTAMATE. REMARK 1 REF FEBS LETT. V. 579 1154 2005 REMARK 1 REFN ISSN 0014-5793 REMARK 1 PMID 15710405 REMARK 1 DOI 10.1016/J.FEBSLET.2005.01.012 REMARK 2 REMARK 2 RESOLUTION. 1.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.8.2 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.43 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 48489 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) : 0.155 REMARK 3 FREE R VALUE : 0.195 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.060 REMARK 3 FREE R VALUE TEST SET COUNT : 2452 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 29.4321 - 4.9719 0.99 2822 129 0.1639 0.1694 REMARK 3 2 4.9719 - 3.9494 1.00 2647 138 0.1252 0.1406 REMARK 3 3 3.9494 - 3.4510 1.00 2600 154 0.1413 0.1667 REMARK 3 4 3.4510 - 3.1359 1.00 2604 123 0.1549 0.1917 REMARK 3 5 3.1359 - 2.9113 1.00 2573 141 0.1690 0.2040 REMARK 3 6 2.9113 - 2.7398 1.00 2518 156 0.1682 0.2388 REMARK 3 7 2.7398 - 2.6027 1.00 2562 132 0.1648 0.2051 REMARK 3 8 2.6027 - 2.4894 1.00 2568 124 0.1642 0.2374 REMARK 3 9 2.4894 - 2.3937 1.00 2531 122 0.1647 0.2322 REMARK 3 10 2.3937 - 2.3111 1.00 2540 136 0.1564 0.2064 REMARK 3 11 2.3111 - 2.2389 1.00 2516 130 0.1547 0.2146 REMARK 3 12 2.2389 - 2.1749 1.00 2522 136 0.1567 0.2113 REMARK 3 13 2.1749 - 2.1176 1.00 2510 136 0.1552 0.1819 REMARK 3 14 2.1176 - 2.0660 1.00 2521 133 0.1524 0.2050 REMARK 3 15 2.0660 - 2.0190 1.00 2505 135 0.1524 0.2134 REMARK 3 16 2.0190 - 1.9761 1.00 2496 144 0.1565 0.2111 REMARK 3 17 1.9761 - 1.9366 1.00 2484 130 0.1749 0.2563 REMARK 3 18 1.9366 - 1.9000 1.00 2518 153 0.1809 0.2418 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.150 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 17.720 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 18.22 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 23.11 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 : 0.006 4297 REMARK 3 ANGLE : 1.053 5820 REMARK 3 CHIRALITY : 0.075 640 REMARK 3 PLANARITY : 0.005 730 REMARK 3 DIHEDRAL : 13.799 1666 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 4 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 432 THROUGH 520 ) REMARK 3 ORIGIN FOR THE GROUP (A): -6.0201 23.5493 -15.6649 REMARK 3 T TENSOR REMARK 3 T11: 0.2176 T22: 0.0708 REMARK 3 T33: 0.0882 T12: 0.0361 REMARK 3 T13: 0.0269 T23: -0.0307 REMARK 3 L TENSOR REMARK 3 L11: 0.0476 L22: 0.1925 REMARK 3 L33: 0.0884 L12: 0.0108 REMARK 3 L13: 0.0166 L23: -0.0842 REMARK 3 S TENSOR REMARK 3 S11: 0.0490 S12: 0.0337 S13: -0.0043 REMARK 3 S21: -0.2926 S22: -0.0330 S23: -0.0226 REMARK 3 S31: 0.1640 S32: 0.0084 S33: 0.0940 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 521 THROUGH 804 ) REMARK 3 ORIGIN FOR THE GROUP (A): 1.9193 40.2373 -10.6528 REMARK 3 T TENSOR REMARK 3 T11: 0.0752 T22: 0.0596 REMARK 3 T33: 0.0837 T12: -0.0117 REMARK 3 T13: 0.0193 T23: -0.0010 REMARK 3 L TENSOR REMARK 3 L11: 0.1227 L22: 0.0926 REMARK 3 L33: 0.3632 L12: 0.0962 REMARK 3 L13: -0.1171 L23: -0.0404 REMARK 3 S TENSOR REMARK 3 S11: -0.0198 S12: 0.0050 S13: 0.0139 REMARK 3 S21: 0.0004 S22: -0.0000 S23: 0.0087 REMARK 3 S31: 0.0063 S32: 0.0470 S33: -0.0160 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 432 THROUGH 520 ) REMARK 3 ORIGIN FOR THE GROUP (A): -13.1925 38.5584 20.0453 REMARK 3 T TENSOR REMARK 3 T11: 0.0874 T22: 0.0903 REMARK 3 T33: 0.0872 T12: -0.0060 REMARK 3 T13: 0.0119 T23: -0.0065 REMARK 3 L TENSOR REMARK 3 L11: 0.0673 L22: 0.0585 REMARK 3 L33: 0.1513 L12: -0.0305 REMARK 3 L13: -0.0929 L23: 0.0727 REMARK 3 S TENSOR REMARK 3 S11: 0.0028 S12: -0.0978 S13: -0.0193 REMARK 3 S21: 0.0105 S22: -0.0024 S23: -0.0258 REMARK 3 S31: -0.0509 S32: -0.0726 S33: -0.0000 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 521 THROUGH 805 ) REMARK 3 ORIGIN FOR THE GROUP (A): 4.9969 34.0364 15.2633 REMARK 3 T TENSOR REMARK 3 T11: 0.0579 T22: 0.0755 REMARK 3 T33: 0.0627 T12: -0.0022 REMARK 3 T13: 0.0264 T23: 0.0090 REMARK 3 L TENSOR REMARK 3 L11: 0.1550 L22: 0.0418 REMARK 3 L33: 0.4012 L12: -0.0383 REMARK 3 L13: 0.0189 L23: 0.1136 REMARK 3 S TENSOR REMARK 3 S11: 0.0341 S12: 0.0030 S13: 0.0232 REMARK 3 S21: -0.0392 S22: -0.0227 S23: 0.0045 REMARK 3 S31: 0.0941 S32: 0.1317 S33: 0.0228 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 5MFQ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 18-NOV-16. REMARK 100 THE DEPOSITION ID IS D_1200002411. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 28-FEB-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : MAX II REMARK 200 BEAMLINE : I911-3 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97916 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS, XSCALE REMARK 200 DATA SCALING SOFTWARE : SCALA 3.3.16, XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 48600 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.900 REMARK 200 RESOLUTION RANGE LOW (A) : 29.429 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 8.100 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.07200 REMARK 200 FOR THE DATA SET : 18.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.00 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 8.20 REMARK 200 R MERGE FOR SHELL (I) : 0.31600 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.200 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER 2.1.4 REMARK 200 STARTING MODEL: PDB ENTRY 4E0X REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.03 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.56 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 15.2 % PEG4000, 0.3 M LITHIUM-SULFATE, REMARK 280 0.1 M SODIUM-ACETATE PH 5.5, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 279K 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 117.42700 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 35.50650 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 35.50650 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 58.71350 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 35.50650 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 35.50650 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 176.14050 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 35.50650 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 35.50650 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 58.71350 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 35.50650 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 35.50650 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 176.14050 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 117.42700 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: 3390 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 23350 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -26.0 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 429 REMARK 465 ALA A 430 REMARK 465 ASN A 431 REMARK 465 PRO A 805 REMARK 465 GLY B 429 REMARK 465 ALA B 430 REMARK 465 ASN B 431 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 441 119.18 -165.70 REMARK 500 LYS A 762 -158.72 -156.36 REMARK 500 ASP B 687 -1.88 71.99 REMARK 500 ASP B 687 -6.21 75.91 REMARK 500 LYS B 762 -157.44 -155.21 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 2J9 A 901 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 2J9 A 902 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue KAI A 903 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 904 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 905 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 906 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 907 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue KAI B 901 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL B 902 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 B 903 REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE SEQUENCE DATABASE IS P22756-2, ISOFORM GLUR5-2.THE PROTEIN REMARK 999 CRYSTALLIZED IS THE EXTRACELLULAR LIGAND-BINDING DOMAIN OF GLUK1. REMARK 999 TRANSMEMBRANE REGIONS WERE GENETICALLY REMOVED AND REPLACED WITH A REMARK 999 GLY-THR LINKER. THERE IS A SEQUENCE CONFLICT AT RESIDUE 462 OF THE REMARK 999 CRYSTALLIZED PROTEIN DUE TO DIFFERENCES IN DATABASE SEQUENCE (SEE REMARK 999 GENBANK ACCESION NO.AAA02874). DBREF 5MFQ A 430 544 UNP P22756 GRIK1_RAT 430 544 DBREF 5MFQ A 667 805 UNP P22756 GRIK1_RAT 667 805 DBREF 5MFQ B 430 544 UNP P22756 GRIK1_RAT 430 544 DBREF 5MFQ B 667 805 UNP P22756 GRIK1_RAT 667 805 SEQADV 5MFQ GLY A 429 UNP P22756 CLONING ARTIFACT SEQADV 5MFQ GLY A 462 UNP P22756 ALA 462 CONFLICT SEQADV 5MFQ GLY A 545 UNP P22756 LINKER SEQADV 5MFQ THR A 546 UNP P22756 LINKER SEQADV 5MFQ GLY B 429 UNP P22756 CLONING ARTIFACT SEQADV 5MFQ GLY B 462 UNP P22756 ALA 462 CONFLICT SEQADV 5MFQ GLY B 545 UNP P22756 LINKER SEQADV 5MFQ THR B 546 UNP P22756 LINKER SEQRES 1 A 257 GLY ALA ASN ARG THR LEU ILE VAL THR THR ILE LEU GLU SEQRES 2 A 257 GLU PRO TYR VAL MET TYR ARG LYS SER ASP LYS PRO LEU SEQRES 3 A 257 TYR GLY ASN ASP ARG PHE GLU GLY TYR CYS LEU ASP LEU SEQRES 4 A 257 LEU LYS GLU LEU SER ASN ILE LEU GLY PHE LEU TYR ASP SEQRES 5 A 257 VAL LYS LEU VAL PRO ASP GLY LYS TYR GLY ALA GLN ASN SEQRES 6 A 257 ASP LYS GLY GLU TRP ASN GLY MET VAL LYS GLU LEU ILE SEQRES 7 A 257 ASP HIS ARG ALA ASP LEU ALA VAL ALA PRO LEU THR ILE SEQRES 8 A 257 THR TYR VAL ARG GLU LYS VAL ILE ASP PHE SER LYS PRO SEQRES 9 A 257 PHE MET THR LEU GLY ILE SER ILE LEU TYR ARG LYS GLY SEQRES 10 A 257 THR PRO ILE ASP SER ALA ASP ASP LEU ALA LYS GLN THR SEQRES 11 A 257 LYS ILE GLU TYR GLY ALA VAL ARG ASP GLY SER THR MET SEQRES 12 A 257 THR PHE PHE LYS LYS SER LYS ILE SER THR TYR GLU LYS SEQRES 13 A 257 MET TRP ALA PHE MET SER SER ARG GLN GLN SER ALA LEU SEQRES 14 A 257 VAL LYS ASN SER ASP GLU GLY ILE GLN ARG VAL LEU THR SEQRES 15 A 257 THR ASP TYR ALA LEU LEU MET GLU SER THR SER ILE GLU SEQRES 16 A 257 TYR VAL THR GLN ARG ASN CYS ASN LEU THR GLN ILE GLY SEQRES 17 A 257 GLY LEU ILE ASP SER LYS GLY TYR GLY VAL GLY THR PRO SEQRES 18 A 257 ILE GLY SER PRO TYR ARG ASP LYS ILE THR ILE ALA ILE SEQRES 19 A 257 LEU GLN LEU GLN GLU GLU GLY LYS LEU HIS MET MET LYS SEQRES 20 A 257 GLU LYS TRP TRP ARG GLY ASN GLY CYS PRO SEQRES 1 B 257 GLY ALA ASN ARG THR LEU ILE VAL THR THR ILE LEU GLU SEQRES 2 B 257 GLU PRO TYR VAL MET TYR ARG LYS SER ASP LYS PRO LEU SEQRES 3 B 257 TYR GLY ASN ASP ARG PHE GLU GLY TYR CYS LEU ASP LEU SEQRES 4 B 257 LEU LYS GLU LEU SER ASN ILE LEU GLY PHE LEU TYR ASP SEQRES 5 B 257 VAL LYS LEU VAL PRO ASP GLY LYS TYR GLY ALA GLN ASN SEQRES 6 B 257 ASP LYS GLY GLU TRP ASN GLY MET VAL LYS GLU LEU ILE SEQRES 7 B 257 ASP HIS ARG ALA ASP LEU ALA VAL ALA PRO LEU THR ILE SEQRES 8 B 257 THR TYR VAL ARG GLU LYS VAL ILE ASP PHE SER LYS PRO SEQRES 9 B 257 PHE MET THR LEU GLY ILE SER ILE LEU TYR ARG LYS GLY SEQRES 10 B 257 THR PRO ILE ASP SER ALA ASP ASP LEU ALA LYS GLN THR SEQRES 11 B 257 LYS ILE GLU TYR GLY ALA VAL ARG ASP GLY SER THR MET SEQRES 12 B 257 THR PHE PHE LYS LYS SER LYS ILE SER THR TYR GLU LYS SEQRES 13 B 257 MET TRP ALA PHE MET SER SER ARG GLN GLN SER ALA LEU SEQRES 14 B 257 VAL LYS ASN SER ASP GLU GLY ILE GLN ARG VAL LEU THR SEQRES 15 B 257 THR ASP TYR ALA LEU LEU MET GLU SER THR SER ILE GLU SEQRES 16 B 257 TYR VAL THR GLN ARG ASN CYS ASN LEU THR GLN ILE GLY SEQRES 17 B 257 GLY LEU ILE ASP SER LYS GLY TYR GLY VAL GLY THR PRO SEQRES 18 B 257 ILE GLY SER PRO TYR ARG ASP LYS ILE THR ILE ALA ILE SEQRES 19 B 257 LEU GLN LEU GLN GLU GLU GLY LYS LEU HIS MET MET LYS SEQRES 20 B 257 GLU LYS TRP TRP ARG GLY ASN GLY CYS PRO HET 2J9 A 901 16 HET 2J9 A 902 16 HET KAI A 903 15 HET CL A 904 1 HET GOL A 905 6 HET GOL A 906 6 HET SO4 A 907 5 HET KAI B 901 15 HET GOL B 902 6 HET SO4 B 903 5 HETNAM 2J9 4-CYCLOPROPYL-7-FLUORO-3,4-DIHYDRO-2H-1,2,4- HETNAM 2 2J9 BENZOTHIADIAZINE 1,1-DIOXIDE HETNAM KAI 3-(CARBOXYMETHYL)-4-ISOPROPENYLPROLINE HETNAM CL CHLORIDE ION HETNAM GOL GLYCEROL HETNAM SO4 SULFATE ION HETSYN KAI KAINATE HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 2J9 2(C10 H11 F N2 O2 S) FORMUL 5 KAI 2(C10 H15 N O4) FORMUL 6 CL CL 1- FORMUL 7 GOL 3(C3 H8 O3) FORMUL 9 SO4 2(O4 S 2-) FORMUL 13 HOH *582(H2 O) HELIX 1 AA1 TYR A 455 ASP A 458 5 4 HELIX 2 AA2 GLY A 462 GLY A 476 1 15 HELIX 3 AA3 ASN A 499 ASP A 507 1 9 HELIX 4 AA4 THR A 520 LYS A 525 1 6 HELIX 5 AA5 SER A 670 LYS A 676 1 7 HELIX 6 AA6 GLY A 688 SER A 697 1 10 HELIX 7 AA7 ILE A 699 SER A 715 1 17 HELIX 8 AA8 ASN A 720 THR A 731 1 12 HELIX 9 AA9 SER A 739 ASN A 749 1 11 HELIX 10 AB1 PRO A 773 GLU A 788 1 16 HELIX 11 AB2 GLY A 789 ARG A 800 1 12 HELIX 12 AB3 TYR B 455 ASP B 458 5 4 HELIX 13 AB4 GLY B 462 GLY B 476 1 15 HELIX 14 AB5 ASN B 499 ASP B 507 1 9 HELIX 15 AB6 THR B 520 LYS B 525 1 6 HELIX 16 AB7 SER B 670 LYS B 676 1 7 HELIX 17 AB8 GLY B 688 SER B 697 1 10 HELIX 18 AB9 ILE B 699 SER B 715 1 17 HELIX 19 AC1 ASN B 720 THR B 731 1 12 HELIX 20 AC2 SER B 739 GLN B 747 1 9 HELIX 21 AC3 PRO B 773 GLU B 788 1 16 HELIX 22 AC4 GLY B 789 ARG B 800 1 12 SHEET 1 AA1 3 LEU A 478 LEU A 483 0 SHEET 2 AA1 3 THR A 433 THR A 438 1 N VAL A 436 O LYS A 482 SHEET 3 AA1 3 LEU A 512 ALA A 513 1 O LEU A 512 N THR A 437 SHEET 1 AA2 2 MET A 446 TYR A 447 0 SHEET 2 AA2 2 PHE A 460 GLU A 461 -1 O GLU A 461 N MET A 446 SHEET 1 AA3 2 ILE A 527 LEU A 536 0 SHEET 2 AA3 2 LYS A 762 PRO A 769 -1 O THR A 768 N ASP A 528 SHEET 1 AA4 4 GLU A 681 GLY A 683 0 SHEET 2 AA4 4 TYR A 733 GLU A 738 1 O LEU A 736 N GLY A 683 SHEET 3 AA4 4 ILE A 538 ARG A 543 -1 N LEU A 541 O LEU A 735 SHEET 4 AA4 4 LEU A 752 ILE A 755 -1 O ILE A 755 N ILE A 540 SHEET 1 AA5 3 TYR B 479 LEU B 483 0 SHEET 2 AA5 3 LEU B 434 THR B 438 1 N VAL B 436 O ASP B 480 SHEET 3 AA5 3 LEU B 512 ALA B 513 1 O LEU B 512 N THR B 437 SHEET 1 AA6 2 MET B 446 TYR B 447 0 SHEET 2 AA6 2 PHE B 460 GLU B 461 -1 O GLU B 461 N MET B 446 SHEET 1 AA7 2 ILE B 527 LEU B 536 0 SHEET 2 AA7 2 LYS B 762 PRO B 769 -1 O THR B 768 N ASP B 528 SHEET 1 AA8 4 GLU B 681 GLY B 683 0 SHEET 2 AA8 4 TYR B 733 GLU B 738 1 O LEU B 736 N GLY B 683 SHEET 3 AA8 4 ILE B 538 ARG B 543 -1 N LEU B 541 O LEU B 735 SHEET 4 AA8 4 LEU B 752 ILE B 755 -1 O ILE B 755 N ILE B 540 SSBOND 1 CYS A 750 CYS A 804 1555 1555 2.04 SSBOND 2 CYS B 750 CYS B 804 1555 1555 2.04 CISPEP 1 GLU A 442 PRO A 443 0 -4.68 CISPEP 2 GLU B 442 PRO B 443 0 -0.43 SITE 1 AC1 12 PRO A 532 THR A 535 SER A 761 LYS A 762 SITE 2 AC1 12 GLY A 763 LYS B 531 PRO B 532 PHE B 533 SITE 3 AC1 12 MET B 534 THR B 535 LEU B 783 LEU B 791 SITE 1 AC2 13 LYS A 531 PRO A 532 PHE A 533 MET A 534 SITE 2 AC2 13 THR A 535 LEU A 783 LEU A 791 ILE B 519 SITE 3 AC2 13 PRO B 532 THR B 535 SER B 761 LYS B 762 SITE 4 AC2 13 GLY B 763 SITE 1 AC3 12 GLU A 441 TYR A 489 PRO A 516 THR A 518 SITE 2 AC3 12 ARG A 523 GLY A 688 SER A 689 THR A 690 SITE 3 AC3 12 GLU A 738 HOH A1024 HOH A1060 HOH A1077 SITE 1 AC4 4 LYS A 531 HOH A1083 LYS B 531 HOH B1116 SITE 1 AC5 9 LYS A 488 TYR A 489 GLY A 490 ALA A 491 SITE 2 AC5 9 ARG A 686 ASP A 687 HOH A1069 HOH A1145 SITE 3 AC5 9 HOH A1167 SITE 1 AC6 6 GLU A 442 SER A 721 ASP A 722 MET A 737 SITE 2 AC6 6 SER A 741 HOH A1014 SITE 1 AC7 4 HOH A1132 ARG B 448 SER B 450 LYS B 452 SITE 1 AC8 12 GLU B 441 TYR B 489 PRO B 516 THR B 518 SITE 2 AC8 12 ARG B 523 GLY B 688 SER B 689 THR B 690 SITE 3 AC8 12 GLU B 738 HOH B1016 HOH B1056 HOH B1099 SITE 1 AC9 7 HOH A1085 ARG B 459 LYS B 482 HOH B1006 SITE 2 AC9 7 HOH B1007 HOH B1058 HOH B1235 SITE 1 AD1 5 ARG A 459 LYS A 482 HOH A1040 HOH B1066 SITE 2 AD1 5 HOH B1206 CRYST1 71.013 71.013 234.854 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 0.014082 0.000000 0.000000 0.00000 SCALE2 0.000000 0.014082 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004258 0.00000