HEADER MEMBRANE PROTEIN 11-NOV-22 8BN2 TITLE CRYSTAL STRUCTURE OF THE LIGAND-BINDING DOMAIN (LBD) OF HUMAN IGLUR TITLE 2 DELTA-1 (GLUD1) IN COMPLEX WITH D-SERINE COMPND MOL_ID: 1; COMPND 2 MOLECULE: GLUTAMATE RECEPTOR IONOTROPIC, DELTA-1; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: GLUD1,GLUR DELTA-1 SUBUNIT; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: GRID1, KIAA1220; SOURCE 6 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 7 EXPRESSION_SYSTEM_COMMON: HUMAN; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 9606; SOURCE 9 EXPRESSION_SYSTEM_CELL_LINE: HEK293S GNTI-/-; SOURCE 10 EXPRESSION_SYSTEM_ATCC_NUMBER: CRL-3022; SOURCE 11 EXPRESSION_SYSTEM_ORGAN: KIDNEY; SOURCE 12 EXPRESSION_SYSTEM_TISSUE: KIDNEY; EMBRYO; SOURCE 13 EXPRESSION_SYSTEM_CELL: EPITHELIAL-LIKE; SOURCE 14 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 15 EXPRESSION_SYSTEM_PLASMID: PHR-CMV-TETO2 KEYWDS ION CHANNEL, LIGAND BINDING DOMAIN, GLUTAMATE RECEPTOR, D-SERINE, KEYWDS 2 MEMBRANE PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR C.HEROVEN,T.MALINAUSKAS,A.R.ARICESCU REVDAT 4 03-JAN-24 8BN2 1 JRNL REVDAT 3 20-DEC-23 8BN2 1 JRNL REVDAT 2 13-DEC-23 8BN2 1 JRNL REVDAT 1 22-NOV-23 8BN2 0 JRNL AUTH L.PIOT,C.HEROVEN,S.BOSSI,J.ZAMITH,T.MALINAUSKAS,C.JOHNSON, JRNL AUTH 2 D.WENNAGEL,D.STROEBEL,C.CHARRIER,A.R.ARICESCU,L.MONY, JRNL AUTH 3 P.PAOLETTI JRNL TITL GLUD1 BINDS GABA AND CONTROLS INHIBITORY PLASTICITY. JRNL REF SCIENCE V. 382 1389 2023 JRNL REFN ESSN 1095-9203 JRNL PMID 38060673 JRNL DOI 10.1126/SCIENCE.ADF3406 REMARK 2 REMARK 2 RESOLUTION. 1.63 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0270 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : GEOSTD + MONOMER LIBRARY + CDL V1.2 REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.63 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 37.45 REMARK 3 DATA CUTOFF (SIGMA(F)) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 87.1 REMARK 3 NUMBER OF REFLECTIONS : 59373 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : FREE R-VALUE REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING + TEST SET) : 0.183 REMARK 3 R VALUE (WORKING SET) : 0.182 REMARK 3 FREE R VALUE : 0.214 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2968 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.63 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.65 REMARK 3 REFLECTION IN BIN (WORKING SET) : 132 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 4.39 REMARK 3 BIN R VALUE (WORKING SET) : 0.2730 REMARK 3 BIN FREE R VALUE SET COUNT : 7 REMARK 3 BIN FREE R VALUE : 0.3603 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4163 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 38 REMARK 3 SOLVENT ATOMS : 276 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 32.24 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 48.76 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 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): NULL REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.206 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): NULL REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : NULL REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): NULL ; NULL ; NULL REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): NULL ; NULL ; NULL REMARK 3 GENERAL PLANES REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 2 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 437 A 814 REMARK 3 ORIGIN FOR THE GROUP (A): -23.8997 -6.7151 14.1604 REMARK 3 T TENSOR REMARK 3 T11: 0.2374 T22: 0.1168 REMARK 3 T33: 0.2721 T12: 0.0006 REMARK 3 T13: -0.0010 T23: 0.0183 REMARK 3 L TENSOR REMARK 3 L11: 2.4933 L22: 2.0884 REMARK 3 L33: 3.9766 L12: -0.6815 REMARK 3 L13: 0.9114 L23: -1.2967 REMARK 3 S TENSOR REMARK 3 S11: 0.0133 S12: 0.1153 S13: -0.2335 REMARK 3 S21: -0.1179 S22: -0.0642 S23: 0.0256 REMARK 3 S31: 0.4411 S32: 0.1271 S33: 0.0770 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 437 B 816 REMARK 3 ORIGIN FOR THE GROUP (A): -27.8194 17.9386 27.9129 REMARK 3 T TENSOR REMARK 3 T11: 0.2589 T22: 0.2371 REMARK 3 T33: 0.1764 T12: 0.0226 REMARK 3 T13: 0.0572 T23: -0.0399 REMARK 3 L TENSOR REMARK 3 L11: 2.2592 L22: 3.5963 REMARK 3 L33: 1.5013 L12: -0.3436 REMARK 3 L13: 0.0858 L23: -1.0092 REMARK 3 S TENSOR REMARK 3 S11: 0.0070 S12: -0.1825 S13: 0.1940 REMARK 3 S21: 0.5220 S22: 0.0427 S23: 0.2162 REMARK 3 S31: -0.2066 S32: -0.0481 S33: 0.0182 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.10 REMARK 3 ION PROBE RADIUS : NULL REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 8BN2 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 11-NOV-22. REMARK 100 THE DEPOSITION ID IS D_1292126511. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 16-JUL-21 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I04 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.999 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS FEB 5, 2021 (BUILT 20210323) REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.7.7 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 59381 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.630 REMARK 200 RESOLUTION RANGE LOW (A) : 87.950 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.2 REMARK 200 DATA REDUNDANCY : 7.000 REMARK 200 R MERGE (I) : 0.06000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 14.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.63 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.72 REMARK 200 COMPLETENESS FOR SHELL (%) : 51.3 REMARK 200 DATA REDUNDANCY IN SHELL : 6.60 REMARK 200 R MERGE FOR SHELL (I) : 1.19000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.500 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER 2.8.3 REMARK 200 STARTING MODEL: 2V3U REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 41.71 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.11 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 30% (W/V) PEG 4000, 100 MM TRIS PH REMARK 280 7.5, 200 MM CACL2, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE REMARK 280 294K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 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 22.60450 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 87.95050 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 33.42250 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 87.95050 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 22.60450 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 33.42250 REMARK 290 SMTRY3 4 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 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: 3740 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 24970 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -68.0 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 HIS A 816 REMARK 465 ALA A 817 REMARK 465 SER A 818 REMARK 465 ALA A 819 REMARK 465 GLN A 820 REMARK 465 ALA A 821 REMARK 465 ASP A 822 REMARK 465 GLY A 823 REMARK 465 GLY A 824 REMARK 465 THR A 825 REMARK 465 LEU A 826 REMARK 465 GLU A 827 REMARK 465 VAL A 828 REMARK 465 LEU A 829 REMARK 465 PHE A 830 REMARK 465 GLN A 831 REMARK 465 GLY B 436 REMARK 465 HIS B 497 REMARK 465 ASN B 498 REMARK 465 THR B 499 REMARK 465 ALA B 817 REMARK 465 SER B 818 REMARK 465 ALA B 819 REMARK 465 GLN B 820 REMARK 465 ALA B 821 REMARK 465 ASP B 822 REMARK 465 GLY B 823 REMARK 465 GLY B 824 REMARK 465 THR B 825 REMARK 465 LEU B 826 REMARK 465 GLU B 827 REMARK 465 VAL B 828 REMARK 465 LEU B 829 REMARK 465 PHE B 830 REMARK 465 GLN B 831 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 O HOH A 1106 O HOH A 1122 2.14 REMARK 500 O HOH A 1104 O HOH A 1111 2.18 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 THR A 499 -6.30 78.05 REMARK 500 ASN A 502 -165.88 -106.16 REMARK 500 SER A 518 -109.28 -168.75 REMARK 500 PRO A 698 -5.67 -59.22 REMARK 500 ASP A 742 121.39 -34.87 REMARK 500 CYS A 756 50.42 39.44 REMARK 500 ASN A 763 -17.97 90.80 REMARK 500 ARG A 810 -163.65 -109.36 REMARK 500 GLU B 446 104.26 -163.37 REMARK 500 ASN B 502 -167.48 -111.12 REMARK 500 SER B 518 -100.99 -166.30 REMARK 500 SER B 703 0.74 -66.65 REMARK 500 ASP B 742 117.83 -32.27 REMARK 500 CYS B 756 52.34 37.56 REMARK 500 TRP B 805 63.22 -118.86 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 901 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 527 O REMARK 620 2 GLU A 527 OE2 92.0 REMARK 620 3 VAL A 530 O 69.8 83.8 REMARK 620 4 ASP A 531 OD1 145.2 91.6 76.2 REMARK 620 5 HOH A1045 O 86.2 177.8 94.4 89.2 REMARK 620 6 HOH A1073 O 142.2 90.9 147.9 72.3 91.4 REMARK 620 7 HOH B1063 O 73.5 91.0 142.7 141.0 89.7 68.8 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 902 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 782 OD2 REMARK 620 2 HOH B1014 O 62.5 REMARK 620 3 HOH B1112 O 70.3 65.2 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 904 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A1006 O REMARK 620 2 HOH A1074 O 85.8 REMARK 620 3 HOH A1130 O 80.4 73.5 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B 902 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A1063 O REMARK 620 2 GLY B 548 O 85.2 REMARK 620 3 HOH B1010 O 72.0 63.9 REMARK 620 4 HOH B1116 O 147.0 79.4 75.1 REMARK 620 5 HOH B1135 O 117.7 86.3 148.5 90.4 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B 901 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B 527 O REMARK 620 2 GLU B 527 OE2 88.4 REMARK 620 3 VAL B 530 O 70.2 84.2 REMARK 620 4 ASP B 531 OD1 145.3 98.4 76.6 REMARK 620 5 HOH B1019 O 83.7 169.4 86.6 84.4 REMARK 620 6 HOH B1043 O 69.6 88.3 139.2 144.1 95.4 REMARK 620 7 HOH B1109 O 136.5 85.7 151.1 78.1 104.9 67.2 REMARK 620 N 1 2 3 4 5 6 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 8BLJ RELATED DB: PDB REMARK 900 SAME PROTEIN, APO STATE DBREF 8BN2 A 436 547 UNP Q9ULK0 GRID1_HUMAN 436 547 DBREF 8BN2 A 664 823 UNP Q9ULK0 GRID1_HUMAN 664 823 DBREF 8BN2 B 436 547 UNP Q9ULK0 GRID1_HUMAN 436 547 DBREF 8BN2 B 664 823 UNP Q9ULK0 GRID1_HUMAN 664 823 SEQADV 8BN2 GLY A 548 UNP Q9ULK0 LINKER SEQADV 8BN2 THR A 549 UNP Q9ULK0 LINKER SEQADV 8BN2 GLY A 824 UNP Q9ULK0 EXPRESSION TAG SEQADV 8BN2 THR A 825 UNP Q9ULK0 EXPRESSION TAG SEQADV 8BN2 LEU A 826 UNP Q9ULK0 EXPRESSION TAG SEQADV 8BN2 GLU A 827 UNP Q9ULK0 EXPRESSION TAG SEQADV 8BN2 VAL A 828 UNP Q9ULK0 EXPRESSION TAG SEQADV 8BN2 LEU A 829 UNP Q9ULK0 EXPRESSION TAG SEQADV 8BN2 PHE A 830 UNP Q9ULK0 EXPRESSION TAG SEQADV 8BN2 GLN A 831 UNP Q9ULK0 EXPRESSION TAG SEQADV 8BN2 GLY B 548 UNP Q9ULK0 LINKER SEQADV 8BN2 THR B 549 UNP Q9ULK0 LINKER SEQADV 8BN2 GLY B 824 UNP Q9ULK0 EXPRESSION TAG SEQADV 8BN2 THR B 825 UNP Q9ULK0 EXPRESSION TAG SEQADV 8BN2 LEU B 826 UNP Q9ULK0 EXPRESSION TAG SEQADV 8BN2 GLU B 827 UNP Q9ULK0 EXPRESSION TAG SEQADV 8BN2 VAL B 828 UNP Q9ULK0 EXPRESSION TAG SEQADV 8BN2 LEU B 829 UNP Q9ULK0 EXPRESSION TAG SEQADV 8BN2 PHE B 830 UNP Q9ULK0 EXPRESSION TAG SEQADV 8BN2 GLN B 831 UNP Q9ULK0 EXPRESSION TAG SEQRES 1 A 282 GLY LEU THR LEU LYS VAL VAL THR VAL LEU GLU GLU PRO SEQRES 2 A 282 PHE VAL MET VAL ALA GLU ASN ILE LEU GLY GLN PRO LYS SEQRES 3 A 282 ARG TYR LYS GLY PHE SER ILE ASP VAL LEU ASP ALA LEU SEQRES 4 A 282 ALA LYS ALA LEU GLY PHE LYS TYR GLU ILE TYR GLN ALA SEQRES 5 A 282 PRO ASP GLY ARG TYR GLY HIS GLN LEU HIS ASN THR SER SEQRES 6 A 282 TRP ASN GLY MET ILE GLY GLU LEU ILE SER LYS ARG ALA SEQRES 7 A 282 ASP LEU ALA ILE SER ALA ILE THR ILE THR PRO GLU ARG SEQRES 8 A 282 GLU SER VAL VAL ASP PHE SER LYS ARG TYR MET ASP TYR SEQRES 9 A 282 SER VAL GLY ILE LEU ILE LYS LYS GLY THR PRO ILE ARG SEQRES 10 A 282 THR PHE GLN ASP LEU SER LYS GLN VAL GLU MET SER TYR SEQRES 11 A 282 GLY THR VAL ARG ASP SER ALA VAL TYR GLU TYR PHE ARG SEQRES 12 A 282 ALA LYS GLY THR ASN PRO LEU GLU GLN ASP SER THR PHE SEQRES 13 A 282 ALA GLU LEU TRP ARG THR ILE SER LYS ASN GLY GLY ALA SEQRES 14 A 282 ASP ASN CYS VAL SER SER PRO SER GLU GLY ILE ARG LYS SEQRES 15 A 282 ALA LYS LYS GLY ASN TYR ALA PHE LEU TRP ASP VAL ALA SEQRES 16 A 282 VAL VAL GLU TYR ALA ALA LEU THR ASP ASP ASP CYS SER SEQRES 17 A 282 VAL THR VAL ILE GLY ASN SER ILE SER SER LYS GLY TYR SEQRES 18 A 282 GLY ILE ALA LEU GLN HIS GLY SER PRO TYR ARG ASP LEU SEQRES 19 A 282 PHE SER GLN ARG ILE LEU GLU LEU GLN ASP THR GLY ASP SEQRES 20 A 282 LEU ASP VAL LEU LYS GLN LYS TRP TRP PRO HIS MET GLY SEQRES 21 A 282 ARG CYS ASP LEU THR SER HIS ALA SER ALA GLN ALA ASP SEQRES 22 A 282 GLY GLY THR LEU GLU VAL LEU PHE GLN SEQRES 1 B 282 GLY LEU THR LEU LYS VAL VAL THR VAL LEU GLU GLU PRO SEQRES 2 B 282 PHE VAL MET VAL ALA GLU ASN ILE LEU GLY GLN PRO LYS SEQRES 3 B 282 ARG TYR LYS GLY PHE SER ILE ASP VAL LEU ASP ALA LEU SEQRES 4 B 282 ALA LYS ALA LEU GLY PHE LYS TYR GLU ILE TYR GLN ALA SEQRES 5 B 282 PRO ASP GLY ARG TYR GLY HIS GLN LEU HIS ASN THR SER SEQRES 6 B 282 TRP ASN GLY MET ILE GLY GLU LEU ILE SER LYS ARG ALA SEQRES 7 B 282 ASP LEU ALA ILE SER ALA ILE THR ILE THR PRO GLU ARG SEQRES 8 B 282 GLU SER VAL VAL ASP PHE SER LYS ARG TYR MET ASP TYR SEQRES 9 B 282 SER VAL GLY ILE LEU ILE LYS LYS GLY THR PRO ILE ARG SEQRES 10 B 282 THR PHE GLN ASP LEU SER LYS GLN VAL GLU MET SER TYR SEQRES 11 B 282 GLY THR VAL ARG ASP SER ALA VAL TYR GLU TYR PHE ARG SEQRES 12 B 282 ALA LYS GLY THR ASN PRO LEU GLU GLN ASP SER THR PHE SEQRES 13 B 282 ALA GLU LEU TRP ARG THR ILE SER LYS ASN GLY GLY ALA SEQRES 14 B 282 ASP ASN CYS VAL SER SER PRO SER GLU GLY ILE ARG LYS SEQRES 15 B 282 ALA LYS LYS GLY ASN TYR ALA PHE LEU TRP ASP VAL ALA SEQRES 16 B 282 VAL VAL GLU TYR ALA ALA LEU THR ASP ASP ASP CYS SER SEQRES 17 B 282 VAL THR VAL ILE GLY ASN SER ILE SER SER LYS GLY TYR SEQRES 18 B 282 GLY ILE ALA LEU GLN HIS GLY SER PRO TYR ARG ASP LEU SEQRES 19 B 282 PHE SER GLN ARG ILE LEU GLU LEU GLN ASP THR GLY ASP SEQRES 20 B 282 LEU ASP VAL LEU LYS GLN LYS TRP TRP PRO HIS MET GLY SEQRES 21 B 282 ARG CYS ASP LEU THR SER HIS ALA SER ALA GLN ALA ASP SEQRES 22 B 282 GLY GLY THR LEU GLU VAL LEU PHE GLN HET CA A 901 1 HET CA A 902 1 HET CA A 903 1 HET CA A 904 1 HET CL A 905 1 HET NAG A 906 27 HET DSN A 907 13 HET EDO A 908 10 HET EDO A 909 10 HET CA B 901 1 HET CA B 902 1 HET CA B 903 1 HET CL B 904 1 HETNAM CA CALCIUM ION HETNAM CL CHLORIDE ION HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM DSN D-SERINE HETNAM EDO 1,2-ETHANEDIOL HETSYN NAG N-ACETYL-BETA-D-GLUCOSAMINE; 2-ACETAMIDO-2-DEOXY-BETA- HETSYN 2 NAG D-GLUCOSE; 2-ACETAMIDO-2-DEOXY-D-GLUCOSE; 2-ACETAMIDO- HETSYN 3 NAG 2-DEOXY-GLUCOSE; N-ACETYL-D-GLUCOSAMINE HETSYN EDO ETHYLENE GLYCOL FORMUL 3 CA 7(CA 2+) FORMUL 7 CL 2(CL 1-) FORMUL 8 NAG C8 H15 N O6 FORMUL 9 DSN C3 H7 N O3 FORMUL 10 EDO 2(C2 H6 O2) FORMUL 16 HOH *276(H2 O) HELIX 1 AA1 GLY A 465 GLY A 479 1 15 HELIX 2 AA2 ASN A 502 SER A 510 1 9 HELIX 3 AA3 THR A 523 SER A 528 1 6 HELIX 4 AA4 THR A 667 LYS A 673 1 7 HELIX 5 AA5 SER A 685 THR A 696 1 12 HELIX 6 AA6 SER A 703 SER A 713 1 11 HELIX 7 AA7 SER A 724 GLY A 735 1 12 HELIX 8 AA8 VAL A 743 THR A 752 1 10 HELIX 9 AA9 PRO A 779 THR A 794 1 16 HELIX 10 AB1 GLY A 795 TRP A 805 1 11 HELIX 11 AB2 GLY B 465 GLY B 479 1 15 HELIX 12 AB3 ASN B 502 SER B 510 1 9 HELIX 13 AB4 THR B 523 VAL B 530 1 8 HELIX 14 AB5 THR B 667 LYS B 673 1 7 HELIX 15 AB6 SER B 685 THR B 696 1 12 HELIX 16 AB7 SER B 703 SER B 713 1 11 HELIX 17 AB8 LYS B 714 ALA B 718 5 5 HELIX 18 AB9 SER B 724 GLY B 735 1 12 HELIX 19 AC1 VAL B 743 THR B 752 1 10 HELIX 20 AC2 TYR B 780 THR B 794 1 15 HELIX 21 AC3 GLY B 795 TRP B 805 1 11 SHEET 1 AA1 5 LYS A 481 GLN A 486 0 SHEET 2 AA1 5 THR A 438 THR A 443 1 N VAL A 441 O GLU A 483 SHEET 3 AA1 5 LEU A 515 ALA A 516 1 O LEU A 515 N VAL A 442 SHEET 4 AA1 5 ALA A 773 LEU A 774 -1 O ALA A 773 N ALA A 516 SHEET 5 AA1 5 ASP A 531 PHE A 532 -1 N ASP A 531 O LEU A 774 SHEET 1 AA2 2 MET A 451 GLU A 454 0 SHEET 2 AA2 2 ARG A 462 LYS A 464 -1 O LYS A 464 N MET A 451 SHEET 1 AA3 2 MET A 537 TYR A 539 0 SHEET 2 AA3 2 LYS A 768 TYR A 770 -1 O TYR A 770 N MET A 537 SHEET 1 AA4 4 SER A 678 GLY A 680 0 SHEET 2 AA4 4 TYR A 737 ASP A 742 1 O LEU A 740 N GLY A 680 SHEET 3 AA4 4 VAL A 541 LYS A 546 -1 N GLY A 542 O TRP A 741 SHEET 4 AA4 4 VAL A 758 ILE A 761 -1 O THR A 759 N ILE A 545 SHEET 1 AA5 5 LYS B 481 GLN B 486 0 SHEET 2 AA5 5 THR B 438 THR B 443 1 N VAL B 441 O GLU B 483 SHEET 3 AA5 5 LEU B 515 ALA B 516 1 O LEU B 515 N VAL B 442 SHEET 4 AA5 5 ALA B 773 LEU B 774 -1 O ALA B 773 N ALA B 516 SHEET 5 AA5 5 ASP B 531 PHE B 532 -1 N ASP B 531 O LEU B 774 SHEET 1 AA6 2 MET B 451 ALA B 453 0 SHEET 2 AA6 2 ARG B 462 LYS B 464 -1 O LYS B 464 N MET B 451 SHEET 1 AA7 2 MET B 537 TYR B 539 0 SHEET 2 AA7 2 LYS B 768 TYR B 770 -1 O TYR B 770 N MET B 537 SHEET 1 AA8 4 TYR B 679 GLY B 680 0 SHEET 2 AA8 4 ALA B 738 ASP B 742 1 O LEU B 740 N GLY B 680 SHEET 3 AA8 4 VAL B 541 LYS B 546 -1 N GLY B 542 O TRP B 741 SHEET 4 AA8 4 VAL B 758 ILE B 761 -1 O THR B 759 N ILE B 545 SSBOND 1 CYS A 756 CYS A 811 1555 1555 2.05 SSBOND 2 CYS B 756 CYS B 811 1555 1555 2.04 LINK ND2 ASN A 498 C1 NAG A 906 1555 1555 1.44 LINK O GLU A 527 CA CA A 901 1555 1555 2.26 LINK OE2 GLU A 527 CA CA A 901 1555 1555 2.30 LINK O VAL A 530 CA CA A 901 1555 1555 2.40 LINK OD1 ASP A 531 CA CA A 901 1555 1555 2.29 LINK O GLY A 548 CA CA A 903 1555 1555 2.49 LINK OD2 ASP A 782 CA CA A 902 1555 1555 3.15 LINK CA CA A 901 O HOH A1045 1555 1555 2.42 LINK CA CA A 901 O HOH A1073 1555 1555 2.51 LINK CA CA A 901 O HOH B1063 1555 1555 2.57 LINK CA CA A 902 O HOH B1014 1555 1555 3.08 LINK CA CA A 902 O HOH B1112 1555 1555 2.95 LINK CA CA A 904 O HOH A1006 1555 1555 2.67 LINK CA CA A 904 O HOH A1074 1555 1555 2.65 LINK CA CA A 904 O HOH A1130 1555 1555 3.13 LINK O HOH A1063 CA CA B 902 4555 1555 2.22 LINK O GLU B 527 CA CA B 901 1555 1555 2.20 LINK OE2 GLU B 527 CA CA B 901 1555 1555 2.31 LINK O VAL B 530 CA CA B 901 1555 1555 2.39 LINK OD1 ASP B 531 CA CA B 901 1555 1555 2.35 LINK O GLY B 548 CA CA B 902 1555 1555 2.52 LINK OD2 ASP B 742 CA CA B 903 1555 1555 3.10 LINK CA CA B 901 O HOH B1019 1555 1555 2.44 LINK CA CA B 901 O HOH B1043 1555 1555 2.55 LINK CA CA B 901 O HOH B1109 1555 1555 2.56 LINK CA CA B 902 O HOH B1010 1555 1555 2.21 LINK CA CA B 902 O HOH B1116 1555 1555 2.46 LINK CA CA B 902 O HOH B1135 1555 1555 3.18 CISPEP 1 GLU A 447 PRO A 448 0 -0.84 CISPEP 2 GLU B 447 PRO B 448 0 -2.82 CRYST1 45.209 66.845 175.901 90.00 90.00 90.00 P 21 21 21 8 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 0.022119 0.000000 0.000000 0.00000 SCALE2 0.000000 0.014960 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005685 0.00000