HEADER TRANSFERASE 31-MAR-22 7UJP TITLE COCRYSTAL STRUCTURE OF HUMAN CAMKII-ALPHA (CAMK2A)KINASE DOMAIN AND TITLE 2 GLUN2B COMPND MOL_ID: 1; COMPND 2 MOLECULE: CALCIUM/CALMODULIN-DEPENDENT PROTEIN KINASE TYPE II SUBUNIT COMPND 3 ALPHA; COMPND 4 CHAIN: A, B; COMPND 5 SYNONYM: CAMK-II SUBUNIT ALPHA; COMPND 6 EC: 2.7.11.17; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES; COMPND 9 MOL_ID: 2; COMPND 10 MOLECULE: GLUTAMATE RECEPTOR IONOTROPIC, NMDA 2B; COMPND 11 CHAIN: C, D; COMPND 12 SYNONYM: GLUN2B,GLUTAMATE [NMDA] RECEPTOR SUBUNIT EPSILON-2,N-METHYL COMPND 13 D-ASPARTATE RECEPTOR SUBTYPE 2B,NR2B,N-METHYL-D-ASPARTATE RECEPTOR COMPND 14 SUBUNIT 3,HNR3; COMPND 15 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: CAMK2A, CAMKA, KIAA0968; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 MOL_ID: 2; SOURCE 9 SYNTHETIC: YES; SOURCE 10 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 11 ORGANISM_COMMON: HUMAN; SOURCE 12 ORGANISM_TAXID: 9606 KEYWDS CAMKII, KINASE, HUMAN, CAMK2A, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR C.OZDEN,J.C.FOSTER,M.M.STRATTON,S.C.GARMAN REVDAT 3 18-OCT-23 7UJP 1 REMARK REVDAT 2 10-AUG-22 7UJP 1 JRNL REVDAT 1 13-APR-22 7UJP 0 SPRSDE 13-APR-22 7UJP 6XBX JRNL AUTH C.OZDEN,R.SLOUTSKY,T.MITSUGI,N.SANTOS,E.AGNELLO,C.GAUBITZ, JRNL AUTH 2 J.FOSTER,E.LAPINSKAS,E.A.ESPOSITO,T.SANEYOSHI,B.A.KELCH, JRNL AUTH 3 S.C.GARMAN,Y.HAYASHI,M.M.STRATTON JRNL TITL CAMKII BINDS BOTH SUBSTRATES AND ACTIVATORS AT THE ACTIVE JRNL TITL 2 SITE. JRNL REF CELL REP V. 40 11064 2022 JRNL REFN ESSN 2211-1247 JRNL PMID 35830796 JRNL DOI 10.1016/J.CELREP.2022.111064 REMARK 2 REMARK 2 RESOLUTION. 2.56 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0258 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.56 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 48.56 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 19465 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 + TEST SET) : 0.234 REMARK 3 R VALUE (WORKING SET) : 0.232 REMARK 3 FREE R VALUE : 0.281 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 996 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.56 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.63 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1411 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.67 REMARK 3 BIN R VALUE (WORKING SET) : 0.2830 REMARK 3 BIN FREE R VALUE SET COUNT : 85 REMARK 3 BIN FREE R VALUE : 0.3920 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4479 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 67 REMARK 3 SOLVENT ATOMS : 45 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 29.88 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.44000 REMARK 3 B22 (A**2) : -1.56000 REMARK 3 B33 (A**2) : 1.13000 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 OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 1.232 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.355 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.275 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 12.780 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.908 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.872 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4658 ; 0.004 ; 0.013 REMARK 3 BOND LENGTHS OTHERS (A): 4272 ; 0.001 ; 0.017 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6326 ; 1.265 ; 1.642 REMARK 3 BOND ANGLES OTHERS (DEGREES): 9889 ; 1.104 ; 1.576 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 557 ; 6.724 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 247 ;32.022 ;21.903 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 772 ;16.605 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 30 ;14.230 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 592 ; 0.052 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5155 ; 0.004 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 993 ; 0.001 ; 0.020 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 NCS TYPE: LOCAL REMARK 3 NUMBER OF DIFFERENT NCS PAIRS : 2 REMARK 3 GROUP CHAIN1 RANGE CHAIN2 RANGE COUNT RMS WEIGHT REMARK 3 1 A 7 272 B 7 272 8326 0.070 0.050 REMARK 3 2 C 1295 1305 D 1295 1305 210 0.140 0.050 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS U VALUES : REFINED INDIVIDUALLY REMARK 4 REMARK 4 7UJP COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 01-APR-22. REMARK 100 THE DEPOSITION ID IS D_1000264296. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 25-MAR-19 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.2 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU MICROMAX-007 HF REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : RIGAKU VARIMAX HF REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 R 200K-A REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 20515 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.560 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 (%) : 100.0 REMARK 200 DATA REDUNDANCY : 6.300 REMARK 200 R MERGE (I) : 0.23200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 5.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.56 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.60 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.8 REMARK 200 DATA REDUNDANCY IN SHELL : 5.40 REMARK 200 R MERGE FOR SHELL (I) : 0.81200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 6VZK REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 46.69 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.31 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M BIS(2-HYDROXYETHYL)AMINO REMARK 280 -TRIS(HYDROXYMETHYL)METHANE, 0.1 M AMMONIUM SULFATE, 25% PEG REMARK 280 3350, 19MM METHYL 6-O-(N-HEPTYLCARBAMOYL)-ALPHA-D- REMARK 280 GLUCOPYRANOSIDE, PH 6.2, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 277K 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 36.57150 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 45.96100 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 45.71150 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 45.96100 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 36.57150 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 45.71150 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 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: 2860 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 13390 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -29.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 350 REMARK 350 BIOMOLECULE: 2 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: 3110 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 13090 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -14.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, D 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 ARG B 274 REMARK 465 LYS C 1289 REMARK 465 ALA C 1290 REMARK 465 GLN C 1291 REMARK 465 LYS C 1292 REMARK 465 LYS C 1293 REMARK 465 ASN C 1294 REMARK 465 ASP C 1309 REMARK 465 LEU C 1310 REMARK 465 LYS D 1289 REMARK 465 ALA D 1290 REMARK 465 GLN D 1291 REMARK 465 LYS D 1292 REMARK 465 LYS D 1293 REMARK 465 ASN D 1294 REMARK 465 PHE D 1307 REMARK 465 VAL D 1308 REMARK 465 ASP D 1309 REMARK 465 LEU D 1310 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 ARG A 8 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 47 CG CD CE NZ REMARK 470 LYS A 48 CG CD CE NZ REMARK 470 LYS A 146 CE NZ REMARK 470 LEU A 147 CG CD1 CD2 REMARK 470 GLU A 164 CG CD OE1 OE2 REMARK 470 LYS A 187 NZ REMARK 470 GLN A 224 CD OE1 NE2 REMARK 470 LYS B 32 NZ REMARK 470 LYS B 47 CG CD CE NZ REMARK 470 LYS B 48 CG CD CE NZ REMARK 470 LYS B 56 CE NZ REMARK 470 ARG B 65 CD NE CZ NH1 NH2 REMARK 470 GLU B 82 CG CD OE1 OE2 REMARK 470 PHE C1307 CG CD1 CD2 CE1 CE2 CZ REMARK 470 ARG D1299 CD NE CZ NH1 NH2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 OE2 GLU A 99 NH2 ARG C 1300 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 PHE A 16 -141.89 -128.09 REMARK 500 GLU A 105 -55.86 80.49 REMARK 500 ARG A 134 -11.00 77.74 REMARK 500 ASP A 156 73.67 65.35 REMARK 500 PHE B 16 -144.35 -127.03 REMARK 500 GLU B 105 -57.66 79.91 REMARK 500 ARG B 134 -9.31 77.74 REMARK 500 ASP B 156 75.15 62.39 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 MG A 302 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN A 140 OD1 REMARK 620 2 ASP A 156 OD2 78.7 REMARK 620 3 ADP A 301 O2A 144.4 67.2 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 302 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B 139 O REMARK 620 2 ASN B 140 OD1 79.6 REMARK 620 3 ASP B 156 OD2 120.0 64.4 REMARK 620 4 ATP B 301 O2A 144.0 108.2 94.1 REMARK 620 N 1 2 3 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 6X5G RELATED DB: PDB REMARK 900 6X5G HAS THE SAME PROTEIN COMPLEXED WITH ANOTHER PEPTIDE. DBREF 7UJP A 7 274 UNP Q9UQM7 KCC2A_HUMAN 7 274 DBREF 7UJP B 7 274 UNP Q9UQM7 KCC2A_HUMAN 7 274 DBREF 7UJP C 1289 1310 UNP Q13224 NMDE2_HUMAN 1289 1310 DBREF 7UJP D 1289 1310 UNP Q13224 NMDE2_HUMAN 1289 1310 SEQADV 7UJP ASN A 135 UNP Q9UQM7 ASP 135 ENGINEERED MUTATION SEQADV 7UJP LYS A 223 UNP Q9UQM7 GLN 223 ENGINEERED MUTATION SEQADV 7UJP ASN B 135 UNP Q9UQM7 ASP 135 ENGINEERED MUTATION SEQADV 7UJP LYS B 223 UNP Q9UQM7 GLN 223 ENGINEERED MUTATION SEQRES 1 A 268 THR ARG PHE THR GLU GLU TYR GLN LEU PHE GLU GLU LEU SEQRES 2 A 268 GLY LYS GLY ALA PHE SER VAL VAL ARG ARG CYS VAL LYS SEQRES 3 A 268 VAL LEU ALA GLY GLN GLU TYR ALA ALA LYS ILE ILE ASN SEQRES 4 A 268 THR LYS LYS LEU SER ALA ARG ASP HIS GLN LYS LEU GLU SEQRES 5 A 268 ARG GLU ALA ARG ILE CYS ARG LEU LEU LYS HIS PRO ASN SEQRES 6 A 268 ILE VAL ARG LEU HIS ASP SER ILE SER GLU GLU GLY HIS SEQRES 7 A 268 HIS TYR LEU ILE PHE ASP LEU VAL THR GLY GLY GLU LEU SEQRES 8 A 268 PHE GLU ASP ILE VAL ALA ARG GLU TYR TYR SER GLU ALA SEQRES 9 A 268 ASP ALA SER HIS CYS ILE GLN GLN ILE LEU GLU ALA VAL SEQRES 10 A 268 LEU HIS CYS HIS GLN MET GLY VAL VAL HIS ARG ASN LEU SEQRES 11 A 268 LYS PRO GLU ASN LEU LEU LEU ALA SER LYS LEU LYS GLY SEQRES 12 A 268 ALA ALA VAL LYS LEU ALA ASP PHE GLY LEU ALA ILE GLU SEQRES 13 A 268 VAL GLU GLY GLU GLN GLN ALA TRP PHE GLY PHE ALA GLY SEQRES 14 A 268 THR PRO GLY TYR LEU SER PRO GLU VAL LEU ARG LYS ASP SEQRES 15 A 268 PRO TYR GLY LYS PRO VAL ASP LEU TRP ALA CYS GLY VAL SEQRES 16 A 268 ILE LEU TYR ILE LEU LEU VAL GLY TYR PRO PRO PHE TRP SEQRES 17 A 268 ASP GLU ASP GLN HIS ARG LEU TYR LYS GLN ILE LYS ALA SEQRES 18 A 268 GLY ALA TYR ASP PHE PRO SER PRO GLU TRP ASP THR VAL SEQRES 19 A 268 THR PRO GLU ALA LYS ASP LEU ILE ASN LYS MET LEU THR SEQRES 20 A 268 ILE ASN PRO SER LYS ARG ILE THR ALA ALA GLU ALA LEU SEQRES 21 A 268 LYS HIS PRO TRP ILE SER HIS ARG SEQRES 1 B 268 THR ARG PHE THR GLU GLU TYR GLN LEU PHE GLU GLU LEU SEQRES 2 B 268 GLY LYS GLY ALA PHE SER VAL VAL ARG ARG CYS VAL LYS SEQRES 3 B 268 VAL LEU ALA GLY GLN GLU TYR ALA ALA LYS ILE ILE ASN SEQRES 4 B 268 THR LYS LYS LEU SER ALA ARG ASP HIS GLN LYS LEU GLU SEQRES 5 B 268 ARG GLU ALA ARG ILE CYS ARG LEU LEU LYS HIS PRO ASN SEQRES 6 B 268 ILE VAL ARG LEU HIS ASP SER ILE SER GLU GLU GLY HIS SEQRES 7 B 268 HIS TYR LEU ILE PHE ASP LEU VAL THR GLY GLY GLU LEU SEQRES 8 B 268 PHE GLU ASP ILE VAL ALA ARG GLU TYR TYR SER GLU ALA SEQRES 9 B 268 ASP ALA SER HIS CYS ILE GLN GLN ILE LEU GLU ALA VAL SEQRES 10 B 268 LEU HIS CYS HIS GLN MET GLY VAL VAL HIS ARG ASN LEU SEQRES 11 B 268 LYS PRO GLU ASN LEU LEU LEU ALA SER LYS LEU LYS GLY SEQRES 12 B 268 ALA ALA VAL LYS LEU ALA ASP PHE GLY LEU ALA ILE GLU SEQRES 13 B 268 VAL GLU GLY GLU GLN GLN ALA TRP PHE GLY PHE ALA GLY SEQRES 14 B 268 THR PRO GLY TYR LEU SER PRO GLU VAL LEU ARG LYS ASP SEQRES 15 B 268 PRO TYR GLY LYS PRO VAL ASP LEU TRP ALA CYS GLY VAL SEQRES 16 B 268 ILE LEU TYR ILE LEU LEU VAL GLY TYR PRO PRO PHE TRP SEQRES 17 B 268 ASP GLU ASP GLN HIS ARG LEU TYR LYS GLN ILE LYS ALA SEQRES 18 B 268 GLY ALA TYR ASP PHE PRO SER PRO GLU TRP ASP THR VAL SEQRES 19 B 268 THR PRO GLU ALA LYS ASP LEU ILE ASN LYS MET LEU THR SEQRES 20 B 268 ILE ASN PRO SER LYS ARG ILE THR ALA ALA GLU ALA LEU SEQRES 21 B 268 LYS HIS PRO TRP ILE SER HIS ARG SEQRES 1 C 22 LYS ALA GLN LYS LYS ASN ARG ASN LYS LEU ARG ARG GLN SEQRES 2 C 22 HIS SER TYR ASP THR PHE VAL ASP LEU SEQRES 1 D 22 LYS ALA GLN LYS LYS ASN ARG ASN LYS LEU ARG ARG GLN SEQRES 2 D 22 HIS SER TYR ASP THR PHE VAL ASP LEU HET ADP A 301 27 HET MG A 302 1 HET ATP B 301 31 HET MG B 302 1 HET GOL B 303 6 HET MG C1401 1 HETNAM ADP ADENOSINE-5'-DIPHOSPHATE HETNAM MG MAGNESIUM ION HETNAM ATP ADENOSINE-5'-TRIPHOSPHATE HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 5 ADP C10 H15 N5 O10 P2 FORMUL 6 MG 3(MG 2+) FORMUL 7 ATP C10 H16 N5 O13 P3 FORMUL 9 GOL C3 H8 O3 FORMUL 11 HOH *45(H2 O) HELIX 1 AA1 ARG A 8 GLU A 12 1 5 HELIX 2 AA2 SER A 50 LEU A 67 1 18 HELIX 3 AA3 GLU A 96 GLU A 105 1 10 HELIX 4 AA4 SER A 108 MET A 129 1 22 HELIX 5 AA5 LYS A 137 GLU A 139 5 3 HELIX 6 AA6 THR A 176 LEU A 180 5 5 HELIX 7 AA7 SER A 181 ARG A 186 1 6 HELIX 8 AA8 LYS A 192 GLY A 209 1 18 HELIX 9 AA9 ASP A 217 ALA A 227 1 11 HELIX 10 AB1 THR A 241 LEU A 252 1 12 HELIX 11 AB2 THR A 261 LEU A 266 1 6 HELIX 12 AB3 HIS A 268 HIS A 273 1 6 HELIX 13 AB4 ARG B 8 GLU B 12 1 5 HELIX 14 AB5 SER B 50 LEU B 67 1 18 HELIX 15 AB6 GLU B 96 GLU B 105 1 10 HELIX 16 AB7 SER B 108 MET B 129 1 22 HELIX 17 AB8 LYS B 137 GLU B 139 5 3 HELIX 18 AB9 THR B 176 LEU B 180 5 5 HELIX 19 AC1 SER B 181 ARG B 186 1 6 HELIX 20 AC2 LYS B 192 GLY B 209 1 18 HELIX 21 AC3 ASP B 217 ALA B 227 1 11 HELIX 22 AC4 THR B 241 LEU B 252 1 12 HELIX 23 AC5 THR B 261 LEU B 266 1 6 HELIX 24 AC6 HIS B 268 HIS B 273 1 6 SHEET 1 AA1 5 TYR A 13 LYS A 21 0 SHEET 2 AA1 5 SER A 25 LYS A 32 -1 O VAL A 27 N LEU A 19 SHEET 3 AA1 5 GLN A 37 ASN A 45 -1 O ILE A 43 N VAL A 26 SHEET 4 AA1 5 HIS A 84 ASP A 90 -1 O LEU A 87 N LYS A 42 SHEET 5 AA1 5 LEU A 75 GLU A 81 -1 N ASP A 77 O ILE A 88 SHEET 1 AA2 2 VAL A 131 VAL A 132 0 SHEET 2 AA2 2 ILE A 161 GLU A 162 -1 O ILE A 161 N VAL A 132 SHEET 1 AA3 2 LEU A 141 LEU A 143 0 SHEET 2 AA3 2 VAL A 152 LEU A 154 -1 O LYS A 153 N LEU A 142 SHEET 1 AA4 5 TYR B 13 LYS B 21 0 SHEET 2 AA4 5 SER B 25 LYS B 32 -1 O VAL B 27 N LEU B 19 SHEET 3 AA4 5 GLN B 37 ASN B 45 -1 O ILE B 43 N VAL B 26 SHEET 4 AA4 5 HIS B 84 ASP B 90 -1 O LEU B 87 N LYS B 42 SHEET 5 AA4 5 LEU B 75 GLU B 81 -1 N HIS B 76 O ILE B 88 SHEET 1 AA5 2 VAL B 131 VAL B 132 0 SHEET 2 AA5 2 ILE B 161 GLU B 162 -1 O ILE B 161 N VAL B 132 SHEET 1 AA6 2 LEU B 141 LEU B 143 0 SHEET 2 AA6 2 VAL B 152 LEU B 154 -1 O LYS B 153 N LEU B 142 LINK OD1 ASN A 140 MG MG A 302 1555 1555 1.99 LINK OD2 ASP A 156 MG MG A 302 1555 1555 2.59 LINK O2A ADP A 301 MG MG A 302 1555 1555 1.92 LINK O GLU B 139 MG MG B 302 1555 1555 2.67 LINK OD1 ASN B 140 MG MG B 302 1555 1555 2.86 LINK OD2 ASP B 156 MG MG B 302 1555 1555 2.18 LINK O2A ATP B 301 MG MG B 302 1555 1555 2.62 LINK OG SER C1303 MG MG C1401 1555 1555 2.89 CISPEP 1 SER A 234 PRO A 235 0 2.39 CISPEP 2 SER B 234 PRO B 235 0 0.91 CRYST1 73.143 91.423 91.922 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 0.013672 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010938 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010879 0.00000