HEADER SIGNALING PROTEIN 07-JUL-08 3DP6 TITLE CRYSTAL STRUCTURE OF THE BINDING DOMAIN OF THE AMPA SUBUNIT GLUR2 TITLE 2 BOUND TO GLUTAMATE COMPND MOL_ID: 1; COMPND 2 MOLECULE: GLUTAMATE RECEPTOR 2; COMPND 3 CHAIN: A, B, C; COMPND 4 FRAGMENT: S1S2 BINDING DOMAIN; COMPND 5 SYNONYM: GLUR-2, GLUR-B, GLUR-K2, GLUTAMATE RECEPTOR IONOTROPIC, AMPA COMPND 6 2, AMPA-SELECTIVE GLUTAMATE RECEPTOR 2; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: RATTUS NORVEGICUS; SOURCE 3 ORGANISM_TAXID: 10116; SOURCE 4 GENE: GRIA2, GLUR2; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: ORIGAMI B (DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET22B(+) KEYWDS GLUTAMATE RECEPTOR, GLUR2, AMPA RECEPTOR, NEUROTRANSMITTER RECEPTOR, KEYWDS 2 S1S2, ALTERNATIVE SPLICING, CELL JUNCTION, ENDOPLASMIC RETICULUM, KEYWDS 3 GLYCOPROTEIN, ION TRANSPORT, IONIC CHANNEL, LIPOPROTEIN, MEMBRANE, KEYWDS 4 PALMITATE, PHOSPHOPROTEIN, POSTSYNAPTIC CELL MEMBRANE, RNA EDITING, KEYWDS 5 SYNAPSE, TRANSMEMBRANE, TRANSPORT, SIGNALING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR A.H.AHMED,Q.WANG,H.SONDERMANN,R.E.OSWALD REVDAT 7 30-OCT-24 3DP6 1 REMARK REVDAT 6 30-AUG-23 3DP6 1 REMARK SEQADV LINK REVDAT 5 02-AUG-17 3DP6 1 SOURCE REVDAT 4 07-APR-09 3DP6 1 AUTHOR JRNL REVDAT 3 17-MAR-09 3DP6 1 HELIX REVDAT 2 24-FEB-09 3DP6 1 VERSN REVDAT 1 25-NOV-08 3DP6 0 JRNL AUTH A.H.AHMED,Q.WANG,H.SONDERMANN,R.E.OSWALD JRNL TITL STRUCTURE OF THE S1S2 GLUTAMATE BINDING DOMAIN OF GLUR3. JRNL REF PROTEINS V. 75 628 2008 JRNL REFN ISSN 0887-3585 JRNL PMID 19003990 JRNL DOI 10.1002/PROT.22274 REMARK 2 REMARK 2 RESOLUTION. 1.55 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : MLF REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.55 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 106939.070 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 93.1 REMARK 3 NUMBER OF REFLECTIONS : 119263 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 SET) : 0.222 REMARK 3 FREE R VALUE : 0.244 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 9.300 REMARK 3 FREE R VALUE TEST SET COUNT : 11864 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.002 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 6 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.55 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.65 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 82.50 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 15681 REMARK 3 BIN R VALUE (WORKING SET) : 0.2720 REMARK 3 BIN FREE R VALUE : 0.2920 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 9.80 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 1695 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.007 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6054 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 36 REMARK 3 SOLVENT ATOMS : 673 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 18.10 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 16.06 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.02500 REMARK 3 B22 (A**2) : 0.46000 REMARK 3 B33 (A**2) : -0.48400 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 COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.20 REMARK 3 ESD FROM SIGMAA (A) : 0.13 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.22 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.13 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.005 REMARK 3 BOND ANGLES (DEGREES) : 1.210 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 21.60 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.750 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : RESTRAINED REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : NULL REMARK 3 KSOL : NULL REMARK 3 BSOL : 33.11 REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : CNS_TOPPAR:PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : CNS_TOPPAR:WATER_REP.PARAM REMARK 3 PARAMETER FILE 3 : CNS_TOPPAR:ION.PARAM REMARK 3 PARAMETER FILE 4 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 TOPOLOGY FILE 2 : NULL REMARK 3 TOPOLOGY FILE 3 : NULL REMARK 3 TOPOLOGY FILE 4 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 3DP6 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 09-JUL-08. REMARK 100 THE DEPOSITION ID IS D_1000048316. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 17-MAY-07 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 6.50 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : CHESS REMARK 200 BEAMLINE : A1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97700 REMARK 200 MONOCHROMATOR : RH COATED SI REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 210 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 126527 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.550 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.2 REMARK 200 DATA REDUNDANCY : 4.200 REMARK 200 R MERGE (I) : 0.10200 REMARK 200 R SYM (I) : 0.09600 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 13.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.55 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.61 REMARK 200 COMPLETENESS FOR SHELL (%) : 83.7 REMARK 200 DATA REDUNDANCY IN SHELL : 2.40 REMARK 200 R MERGE FOR SHELL (I) : 0.46200 REMARK 200 R SYM FOR SHELL (I) : 0.41600 REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.000 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHENIX REMARK 200 STARTING MODEL: PDB ENTRY 3DLN REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 51.34 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.53 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 14-17% PEG 8000, 0.1-0.2 M ZN ACETATE, REMARK 280 0.1 M NA CACODYLATE, PH 6.5, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 277K, PH 6.50 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X+1/2,Y+1/2,-Z REMARK 290 4555 X+1/2,-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 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 56.92000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 81.59200 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 56.92000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 81.59200 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 350 REMARK 350 BIOMOLECULE: 3 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: C 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 LEU A -15 REMARK 465 VAL A -14 REMARK 465 PRO A -13 REMARK 465 ARG A -12 REMARK 465 GLY A -11 REMARK 465 SER A -10 REMARK 465 ALA A -9 REMARK 465 MET A -8 REMARK 465 GLY A -7 REMARK 465 SER A -6 REMARK 465 GLY A -5 REMARK 465 ASN A -4 REMARK 465 ASP A -3 REMARK 465 THR A -2 REMARK 465 SER A -1 REMARK 465 ARG A 0 REMARK 465 GLY A 1 REMARK 465 ALA A 2 REMARK 465 ASN A 3 REMARK 465 GLY A 262 REMARK 465 SER A 263 REMARK 465 LEU B -15 REMARK 465 VAL B -14 REMARK 465 PRO B -13 REMARK 465 ARG B -12 REMARK 465 GLY B -11 REMARK 465 SER B -10 REMARK 465 ALA B -9 REMARK 465 MET B -8 REMARK 465 GLY B -7 REMARK 465 SER B -6 REMARK 465 GLY B -5 REMARK 465 ASN B -4 REMARK 465 ASP B -3 REMARK 465 THR B -2 REMARK 465 SER B -1 REMARK 465 ARG B 0 REMARK 465 GLY B 1 REMARK 465 ALA B 2 REMARK 465 ASN B 3 REMARK 465 GLY B 262 REMARK 465 SER B 263 REMARK 465 LEU C -15 REMARK 465 VAL C -14 REMARK 465 PRO C -13 REMARK 465 ARG C -12 REMARK 465 GLY C -11 REMARK 465 SER C -10 REMARK 465 ALA C -9 REMARK 465 MET C -8 REMARK 465 GLY C -7 REMARK 465 SER C -6 REMARK 465 GLY C -5 REMARK 465 ASN C -4 REMARK 465 ASP C -3 REMARK 465 THR C -2 REMARK 465 SER C -1 REMARK 465 ARG C 0 REMARK 465 GLY C 1 REMARK 465 ALA C 2 REMARK 465 ASN C 3 REMARK 465 GLY C 262 REMARK 465 SER C 263 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 TRP C 255 -64.12 -108.65 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 ZN A 302 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 42 OE1 REMARK 620 2 LYS A 45 NZ 107.4 REMARK 620 3 HIS A 46 NE2 92.1 109.3 REMARK 620 4 GLU C 166 OE2 99.6 120.0 122.3 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN C 302 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU C 42 OE1 REMARK 620 2 HIS C 46 NE2 97.4 REMARK 620 N 1 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN C 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN C 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GLU A 374 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GLU B 374 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GLU C 374 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3DLN RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE BINDING DOMAIN OF THE AMPA SUBUNIT GLUR3 REMARK 900 BOUND TO GLUTAMATE REMARK 900 RELATED ID: 3DP4 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE BINDING DOMAIN OF THE AMPA SUBUNIT GLUR3 REMARK 900 BOUND TO AMPA DBREF 3DP6 A 3 117 UNP P19491 GRIA2_RAT 413 527 DBREF 3DP6 A 120 263 UNP P19491 GRIA2_RAT 653 796 DBREF 3DP6 B 3 117 UNP P19491 GRIA2_RAT 413 527 DBREF 3DP6 B 120 263 UNP P19491 GRIA2_RAT 653 796 DBREF 3DP6 C 3 117 UNP P19491 GRIA2_RAT 413 527 DBREF 3DP6 C 120 263 UNP P19491 GRIA2_RAT 653 796 SEQADV 3DP6 LEU A -15 UNP P19491 EXPRESSION TAG SEQADV 3DP6 VAL A -14 UNP P19491 EXPRESSION TAG SEQADV 3DP6 PRO A -13 UNP P19491 EXPRESSION TAG SEQADV 3DP6 ARG A -12 UNP P19491 EXPRESSION TAG SEQADV 3DP6 GLY A -11 UNP P19491 EXPRESSION TAG SEQADV 3DP6 SER A -10 UNP P19491 EXPRESSION TAG SEQADV 3DP6 ALA A -9 UNP P19491 EXPRESSION TAG SEQADV 3DP6 MET A -8 UNP P19491 EXPRESSION TAG SEQADV 3DP6 GLY A -7 UNP P19491 EXPRESSION TAG SEQADV 3DP6 SER A -6 UNP P19491 EXPRESSION TAG SEQADV 3DP6 GLY A -5 UNP P19491 EXPRESSION TAG SEQADV 3DP6 ASN A -4 UNP P19491 EXPRESSION TAG SEQADV 3DP6 ASP A -3 UNP P19491 EXPRESSION TAG SEQADV 3DP6 THR A -2 UNP P19491 EXPRESSION TAG SEQADV 3DP6 SER A -1 UNP P19491 EXPRESSION TAG SEQADV 3DP6 ARG A 0 UNP P19491 EXPRESSION TAG SEQADV 3DP6 GLY A 1 UNP P19491 EXPRESSION TAG SEQADV 3DP6 ALA A 2 UNP P19491 EXPRESSION TAG SEQADV 3DP6 GLY A 118 UNP P19491 LINKER SEQADV 3DP6 THR A 119 UNP P19491 LINKER SEQADV 3DP6 GLY A 262 UNP P19491 EXPRESSION TAG SEQADV 3DP6 SER A 263 UNP P19491 EXPRESSION TAG SEQADV 3DP6 LEU B -15 UNP P19491 EXPRESSION TAG SEQADV 3DP6 VAL B -14 UNP P19491 EXPRESSION TAG SEQADV 3DP6 PRO B -13 UNP P19491 EXPRESSION TAG SEQADV 3DP6 ARG B -12 UNP P19491 EXPRESSION TAG SEQADV 3DP6 GLY B -11 UNP P19491 EXPRESSION TAG SEQADV 3DP6 SER B -10 UNP P19491 EXPRESSION TAG SEQADV 3DP6 ALA B -9 UNP P19491 EXPRESSION TAG SEQADV 3DP6 MET B -8 UNP P19491 EXPRESSION TAG SEQADV 3DP6 GLY B -7 UNP P19491 EXPRESSION TAG SEQADV 3DP6 SER B -6 UNP P19491 EXPRESSION TAG SEQADV 3DP6 GLY B -5 UNP P19491 EXPRESSION TAG SEQADV 3DP6 ASN B -4 UNP P19491 EXPRESSION TAG SEQADV 3DP6 ASP B -3 UNP P19491 EXPRESSION TAG SEQADV 3DP6 THR B -2 UNP P19491 EXPRESSION TAG SEQADV 3DP6 SER B -1 UNP P19491 EXPRESSION TAG SEQADV 3DP6 ARG B 0 UNP P19491 EXPRESSION TAG SEQADV 3DP6 GLY B 1 UNP P19491 EXPRESSION TAG SEQADV 3DP6 ALA B 2 UNP P19491 EXPRESSION TAG SEQADV 3DP6 GLY B 118 UNP P19491 LINKER SEQADV 3DP6 THR B 119 UNP P19491 LINKER SEQADV 3DP6 GLY B 262 UNP P19491 EXPRESSION TAG SEQADV 3DP6 SER B 263 UNP P19491 EXPRESSION TAG SEQADV 3DP6 LEU C -15 UNP P19491 EXPRESSION TAG SEQADV 3DP6 VAL C -14 UNP P19491 EXPRESSION TAG SEQADV 3DP6 PRO C -13 UNP P19491 EXPRESSION TAG SEQADV 3DP6 ARG C -12 UNP P19491 EXPRESSION TAG SEQADV 3DP6 GLY C -11 UNP P19491 EXPRESSION TAG SEQADV 3DP6 SER C -10 UNP P19491 EXPRESSION TAG SEQADV 3DP6 ALA C -9 UNP P19491 EXPRESSION TAG SEQADV 3DP6 MET C -8 UNP P19491 EXPRESSION TAG SEQADV 3DP6 GLY C -7 UNP P19491 EXPRESSION TAG SEQADV 3DP6 SER C -6 UNP P19491 EXPRESSION TAG SEQADV 3DP6 GLY C -5 UNP P19491 EXPRESSION TAG SEQADV 3DP6 ASN C -4 UNP P19491 EXPRESSION TAG SEQADV 3DP6 ASP C -3 UNP P19491 EXPRESSION TAG SEQADV 3DP6 THR C -2 UNP P19491 EXPRESSION TAG SEQADV 3DP6 SER C -1 UNP P19491 EXPRESSION TAG SEQADV 3DP6 ARG C 0 UNP P19491 EXPRESSION TAG SEQADV 3DP6 GLY C 1 UNP P19491 EXPRESSION TAG SEQADV 3DP6 ALA C 2 UNP P19491 EXPRESSION TAG SEQADV 3DP6 GLY C 118 UNP P19491 LINKER SEQADV 3DP6 THR C 119 UNP P19491 LINKER SEQADV 3DP6 GLY C 262 UNP P19491 EXPRESSION TAG SEQADV 3DP6 SER C 263 UNP P19491 EXPRESSION TAG SEQRES 1 A 279 LEU VAL PRO ARG GLY SER ALA MET GLY SER GLY ASN ASP SEQRES 2 A 279 THR SER ARG GLY ALA ASN LYS THR VAL VAL VAL THR THR SEQRES 3 A 279 ILE LEU GLU SER PRO TYR VAL MET MET LYS LYS ASN HIS SEQRES 4 A 279 GLU MET LEU GLU GLY ASN GLU ARG TYR GLU GLY TYR CYS SEQRES 5 A 279 VAL ASP LEU ALA ALA GLU ILE ALA LYS HIS CYS GLY PHE SEQRES 6 A 279 LYS TYR LYS LEU THR ILE VAL GLY ASP GLY LYS TYR GLY SEQRES 7 A 279 ALA ARG ASP ALA ASP THR LYS ILE TRP ASN GLY MET VAL SEQRES 8 A 279 GLY GLU LEU VAL TYR GLY LYS ALA ASP ILE ALA ILE ALA SEQRES 9 A 279 PRO LEU THR ILE THR LEU VAL ARG GLU GLU VAL ILE ASP SEQRES 10 A 279 PHE SER LYS PRO PHE MET SER LEU GLY ILE SER ILE MET SEQRES 11 A 279 ILE LYS LYS GLY THR PRO ILE GLU SER ALA GLU ASP LEU SEQRES 12 A 279 SER LYS GLN THR GLU ILE ALA TYR GLY THR LEU ASP SER SEQRES 13 A 279 GLY SER THR LYS GLU PHE PHE ARG ARG SER LYS ILE ALA SEQRES 14 A 279 VAL PHE ASP LYS MET TRP THR TYR MET ARG SER ALA GLU SEQRES 15 A 279 PRO SER VAL PHE VAL ARG THR THR ALA GLU GLY VAL ALA SEQRES 16 A 279 ARG VAL ARG LYS SER LYS GLY LYS TYR ALA TYR LEU LEU SEQRES 17 A 279 GLU SER THR MET ASN GLU TYR ILE GLU GLN ARG LYS PRO SEQRES 18 A 279 CYS ASP THR MET LYS VAL GLY GLY ASN LEU ASP SER LYS SEQRES 19 A 279 GLY TYR GLY ILE ALA THR PRO LYS GLY SER SER LEU GLY SEQRES 20 A 279 ASN ALA VAL ASN LEU ALA VAL LEU LYS LEU ASN GLU GLN SEQRES 21 A 279 GLY LEU LEU ASP LYS LEU LYS ASN LYS TRP TRP TYR ASP SEQRES 22 A 279 LYS GLY GLU CYS GLY SER SEQRES 1 B 279 LEU VAL PRO ARG GLY SER ALA MET GLY SER GLY ASN ASP SEQRES 2 B 279 THR SER ARG GLY ALA ASN LYS THR VAL VAL VAL THR THR SEQRES 3 B 279 ILE LEU GLU SER PRO TYR VAL MET MET LYS LYS ASN HIS SEQRES 4 B 279 GLU MET LEU GLU GLY ASN GLU ARG TYR GLU GLY TYR CYS SEQRES 5 B 279 VAL ASP LEU ALA ALA GLU ILE ALA LYS HIS CYS GLY PHE SEQRES 6 B 279 LYS TYR LYS LEU THR ILE VAL GLY ASP GLY LYS TYR GLY SEQRES 7 B 279 ALA ARG ASP ALA ASP THR LYS ILE TRP ASN GLY MET VAL SEQRES 8 B 279 GLY GLU LEU VAL TYR GLY LYS ALA ASP ILE ALA ILE ALA SEQRES 9 B 279 PRO LEU THR ILE THR LEU VAL ARG GLU GLU VAL ILE ASP SEQRES 10 B 279 PHE SER LYS PRO PHE MET SER LEU GLY ILE SER ILE MET SEQRES 11 B 279 ILE LYS LYS GLY THR PRO ILE GLU SER ALA GLU ASP LEU SEQRES 12 B 279 SER LYS GLN THR GLU ILE ALA TYR GLY THR LEU ASP SER SEQRES 13 B 279 GLY SER THR LYS GLU PHE PHE ARG ARG SER LYS ILE ALA SEQRES 14 B 279 VAL PHE ASP LYS MET TRP THR TYR MET ARG SER ALA GLU SEQRES 15 B 279 PRO SER VAL PHE VAL ARG THR THR ALA GLU GLY VAL ALA SEQRES 16 B 279 ARG VAL ARG LYS SER LYS GLY LYS TYR ALA TYR LEU LEU SEQRES 17 B 279 GLU SER THR MET ASN GLU TYR ILE GLU GLN ARG LYS PRO SEQRES 18 B 279 CYS ASP THR MET LYS VAL GLY GLY ASN LEU ASP SER LYS SEQRES 19 B 279 GLY TYR GLY ILE ALA THR PRO LYS GLY SER SER LEU GLY SEQRES 20 B 279 ASN ALA VAL ASN LEU ALA VAL LEU LYS LEU ASN GLU GLN SEQRES 21 B 279 GLY LEU LEU ASP LYS LEU LYS ASN LYS TRP TRP TYR ASP SEQRES 22 B 279 LYS GLY GLU CYS GLY SER SEQRES 1 C 279 LEU VAL PRO ARG GLY SER ALA MET GLY SER GLY ASN ASP SEQRES 2 C 279 THR SER ARG GLY ALA ASN LYS THR VAL VAL VAL THR THR SEQRES 3 C 279 ILE LEU GLU SER PRO TYR VAL MET MET LYS LYS ASN HIS SEQRES 4 C 279 GLU MET LEU GLU GLY ASN GLU ARG TYR GLU GLY TYR CYS SEQRES 5 C 279 VAL ASP LEU ALA ALA GLU ILE ALA LYS HIS CYS GLY PHE SEQRES 6 C 279 LYS TYR LYS LEU THR ILE VAL GLY ASP GLY LYS TYR GLY SEQRES 7 C 279 ALA ARG ASP ALA ASP THR LYS ILE TRP ASN GLY MET VAL SEQRES 8 C 279 GLY GLU LEU VAL TYR GLY LYS ALA ASP ILE ALA ILE ALA SEQRES 9 C 279 PRO LEU THR ILE THR LEU VAL ARG GLU GLU VAL ILE ASP SEQRES 10 C 279 PHE SER LYS PRO PHE MET SER LEU GLY ILE SER ILE MET SEQRES 11 C 279 ILE LYS LYS GLY THR PRO ILE GLU SER ALA GLU ASP LEU SEQRES 12 C 279 SER LYS GLN THR GLU ILE ALA TYR GLY THR LEU ASP SER SEQRES 13 C 279 GLY SER THR LYS GLU PHE PHE ARG ARG SER LYS ILE ALA SEQRES 14 C 279 VAL PHE ASP LYS MET TRP THR TYR MET ARG SER ALA GLU SEQRES 15 C 279 PRO SER VAL PHE VAL ARG THR THR ALA GLU GLY VAL ALA SEQRES 16 C 279 ARG VAL ARG LYS SER LYS GLY LYS TYR ALA TYR LEU LEU SEQRES 17 C 279 GLU SER THR MET ASN GLU TYR ILE GLU GLN ARG LYS PRO SEQRES 18 C 279 CYS ASP THR MET LYS VAL GLY GLY ASN LEU ASP SER LYS SEQRES 19 C 279 GLY TYR GLY ILE ALA THR PRO LYS GLY SER SER LEU GLY SEQRES 20 C 279 ASN ALA VAL ASN LEU ALA VAL LEU LYS LEU ASN GLU GLN SEQRES 21 C 279 GLY LEU LEU ASP LYS LEU LYS ASN LYS TRP TRP TYR ASP SEQRES 22 C 279 LYS GLY GLU CYS GLY SER HET ZN A 301 1 HET ZN A 302 1 HET GLU A 374 10 HET ZN B 301 1 HET ZN B 302 1 HET GLU B 374 10 HET ZN C 301 1 HET ZN C 302 1 HET GLU C 374 10 HETNAM ZN ZINC ION HETNAM GLU GLUTAMIC ACID FORMUL 4 ZN 6(ZN 2+) FORMUL 6 GLU 3(C5 H9 N O4) FORMUL 13 HOH *673(H2 O) HELIX 1 1 ASN A 22 LEU A 26 5 5 HELIX 2 2 GLU A 27 GLU A 30 5 4 HELIX 3 3 GLY A 34 GLY A 48 1 15 HELIX 4 4 ASN A 72 TYR A 80 1 9 HELIX 5 5 THR A 93 GLU A 98 1 6 HELIX 6 6 SER A 123 LYS A 129 1 7 HELIX 7 7 GLY A 141 SER A 150 1 10 HELIX 8 8 ILE A 152 ALA A 165 1 14 HELIX 9 9 THR A 173 SER A 184 1 12 HELIX 10 10 SER A 194 GLN A 202 1 9 HELIX 11 11 LEU A 230 GLN A 244 1 15 HELIX 12 12 GLY A 245 TYR A 256 1 12 HELIX 13 13 ASN B 22 LEU B 26 5 5 HELIX 14 14 GLU B 27 GLU B 30 5 4 HELIX 15 15 GLY B 34 GLY B 48 1 15 HELIX 16 16 ASN B 72 TYR B 80 1 9 HELIX 17 17 THR B 93 GLU B 98 1 6 HELIX 18 18 SER B 123 LYS B 129 1 7 HELIX 19 19 GLY B 141 SER B 150 1 10 HELIX 20 20 ILE B 152 ARG B 163 1 12 HELIX 21 21 THR B 173 SER B 184 1 12 HELIX 22 22 SER B 194 GLN B 202 1 9 HELIX 23 23 LEU B 230 GLN B 244 1 15 HELIX 24 24 GLY B 245 TYR B 256 1 12 HELIX 25 25 GLY C 28 GLU C 30 5 3 HELIX 26 26 GLY C 34 GLY C 48 1 15 HELIX 27 27 ASN C 72 TYR C 80 1 9 HELIX 28 28 THR C 93 GLU C 98 1 6 HELIX 29 29 SER C 123 LYS C 129 1 7 HELIX 30 30 GLY C 141 SER C 150 1 10 HELIX 31 31 ILE C 152 ALA C 165 1 14 HELIX 32 32 THR C 173 SER C 184 1 12 HELIX 33 33 SER C 194 GLN C 202 1 9 HELIX 34 34 LEU C 230 GLN C 244 1 15 HELIX 35 35 GLY C 245 TRP C 255 1 11 SHEET 1 A 3 TYR A 51 ILE A 55 0 SHEET 2 A 3 VAL A 6 THR A 10 1 N VAL A 8 O LYS A 52 SHEET 3 A 3 ILE A 85 ALA A 86 1 O ILE A 85 N THR A 9 SHEET 1 B 2 MET A 18 MET A 19 0 SHEET 2 B 2 TYR A 32 GLU A 33 -1 O GLU A 33 N MET A 18 SHEET 1 C 2 ILE A 100 PHE A 102 0 SHEET 2 C 2 ALA A 223 PRO A 225 -1 O THR A 224 N ASP A 101 SHEET 1 D 2 MET A 107 LEU A 109 0 SHEET 2 D 2 LYS A 218 TYR A 220 -1 O LYS A 218 N LEU A 109 SHEET 1 E 4 ALA A 134 GLY A 136 0 SHEET 2 E 4 TYR A 188 GLU A 193 1 O LEU A 191 N GLY A 136 SHEET 3 E 4 ILE A 111 LYS A 116 -1 N MET A 114 O TYR A 190 SHEET 4 E 4 THR A 208 VAL A 211 -1 O MET A 209 N ILE A 115 SHEET 1 F 3 TYR B 51 ILE B 55 0 SHEET 2 F 3 VAL B 6 THR B 10 1 N VAL B 8 O LYS B 52 SHEET 3 F 3 ILE B 85 ALA B 86 1 O ILE B 85 N THR B 9 SHEET 1 G 2 MET B 18 MET B 19 0 SHEET 2 G 2 TYR B 32 GLU B 33 -1 O GLU B 33 N MET B 18 SHEET 1 H 2 ILE B 100 PHE B 102 0 SHEET 2 H 2 ALA B 223 PRO B 225 -1 O THR B 224 N ASP B 101 SHEET 1 I 2 MET B 107 LEU B 109 0 SHEET 2 I 2 LYS B 218 TYR B 220 -1 O LYS B 218 N LEU B 109 SHEET 1 J 4 ALA B 134 GLY B 136 0 SHEET 2 J 4 TYR B 188 GLU B 193 1 O LEU B 191 N GLY B 136 SHEET 3 J 4 ILE B 111 LYS B 116 -1 N MET B 114 O TYR B 190 SHEET 4 J 4 THR B 208 VAL B 211 -1 O MET B 209 N ILE B 115 SHEET 1 K 3 TYR C 51 ILE C 55 0 SHEET 2 K 3 VAL C 6 THR C 10 1 N VAL C 8 O LYS C 52 SHEET 3 K 3 ILE C 85 ALA C 86 1 O ILE C 85 N THR C 9 SHEET 1 L 2 MET C 18 MET C 19 0 SHEET 2 L 2 TYR C 32 GLU C 33 -1 O GLU C 33 N MET C 18 SHEET 1 M 2 ILE C 100 PHE C 102 0 SHEET 2 M 2 ALA C 223 PRO C 225 -1 O THR C 224 N ASP C 101 SHEET 1 N 2 MET C 107 LEU C 109 0 SHEET 2 N 2 LYS C 218 TYR C 220 -1 O LYS C 218 N LEU C 109 SHEET 1 O 4 ALA C 134 GLY C 136 0 SHEET 2 O 4 TYR C 188 GLU C 193 1 O LEU C 191 N GLY C 136 SHEET 3 O 4 ILE C 111 LYS C 116 -1 N MET C 114 O TYR C 190 SHEET 4 O 4 THR C 208 VAL C 211 -1 O MET C 209 N ILE C 115 SSBOND 1 CYS A 206 CYS A 261 1555 1555 2.03 SSBOND 2 CYS B 206 CYS B 261 1555 1555 2.03 SSBOND 3 CYS C 206 CYS C 261 1555 1555 2.02 LINK NE2 HIS A 23 ZN ZN A 301 1555 1555 2.23 LINK OE1 GLU A 42 ZN ZN A 302 1555 1555 2.10 LINK NZ LYS A 45 ZN ZN A 302 1555 1555 2.23 LINK NE2 HIS A 46 ZN ZN A 302 1555 1555 2.15 LINK ZN ZN A 302 OE2 GLU C 166 1555 1555 2.08 LINK NE2 HIS C 23 ZN ZN C 301 1555 1555 2.34 LINK OE1 GLU C 42 ZN ZN C 302 1555 1555 1.94 LINK NE2 HIS C 46 ZN ZN C 302 1555 1555 2.04 CISPEP 1 SER A 14 PRO A 15 0 0.02 CISPEP 2 GLU A 166 PRO A 167 0 0.04 CISPEP 3 LYS A 204 PRO A 205 0 0.43 CISPEP 4 SER B 14 PRO B 15 0 -0.02 CISPEP 5 GLU B 166 PRO B 167 0 -0.02 CISPEP 6 LYS B 204 PRO B 205 0 0.33 CISPEP 7 SER C 14 PRO C 15 0 -0.10 CISPEP 8 GLU C 166 PRO C 167 0 -0.18 CISPEP 9 LYS C 204 PRO C 205 0 0.28 SITE 1 AC1 3 HIS A 23 HOH A 465 ASP B 65 SITE 1 AC2 4 GLU A 42 LYS A 45 HIS A 46 GLU C 166 SITE 1 AC3 4 HIS B 23 GLU B 24 HIS C 23 ZN C 301 SITE 1 AC4 3 GLU B 42 LYS B 45 HIS B 46 SITE 1 AC5 4 HIS B 23 GLU B 24 ZN B 301 HIS C 23 SITE 1 AC6 5 GLU A 166 GLU C 42 HIS C 46 LEU C 241 SITE 2 AC6 5 HOH C 375 SITE 1 AC7 14 TYR A 61 PRO A 89 LEU A 90 THR A 91 SITE 2 AC7 14 ARG A 96 LEU A 138 GLY A 141 SER A 142 SITE 3 AC7 14 THR A 143 GLU A 193 TYR A 220 HOH A 376 SITE 4 AC7 14 HOH A 401 HOH A 403 SITE 1 AC8 14 TYR B 61 PRO B 89 LEU B 90 THR B 91 SITE 2 AC8 14 ARG B 96 LEU B 138 GLY B 141 SER B 142 SITE 3 AC8 14 THR B 143 GLU B 193 TYR B 220 HOH B 376 SITE 4 AC8 14 HOH B 392 HOH B 401 SITE 1 AC9 14 TYR C 61 PRO C 89 LEU C 90 THR C 91 SITE 2 AC9 14 ARG C 96 LEU C 138 GLY C 141 SER C 142 SITE 3 AC9 14 THR C 143 GLU C 193 TYR C 220 HOH C 377 SITE 4 AC9 14 HOH C 381 HOH C 392 CRYST1 113.840 163.184 47.324 90.00 90.00 90.00 P 21 21 2 12 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 0.008784 0.000000 0.000000 0.00000 SCALE2 0.000000 0.006128 0.000000 0.00000 SCALE3 0.000000 0.000000 0.021131 0.00000