HEADER TRANSFERASE 16-MAR-17 5NG0 TITLE STRUCTURE OF RIP2K(L294F) WITH BOUND AMPPCP COMPND MOL_ID: 1; COMPND 2 MOLECULE: RECEPTOR-INTERACTING SERINE/THREONINE-PROTEIN KINASE 2; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: CARD-CONTAINING INTERLEUKIN-1 BETA-CONVERTING ENZYME- COMPND 5 ASSOCIATED KINASE,CARD-CONTAINING IL-1 BETA ICE-KINASE,RIP-LIKE- COMPND 6 INTERACTING CLARP KINASE,RECEPTOR-INTERACTING PROTEIN 2,RIP-2, COMPND 7 TYROSINE-PROTEIN KINASE RIPK2; COMPND 8 EC: 2.7.11.1,2.7.10.2; COMPND 9 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: RIPK2, CARDIAK, RICK, RIP2, UNQ277/PRO314/PRO34092; SOURCE 6 EXPRESSION_SYSTEM: SPODOPTERA FRUGIPERDA; SOURCE 7 EXPRESSION_SYSTEM_COMMON: FALL ARMYWORM; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 7108 KEYWDS RIP2K, KINASE, ACTIVE STATE, AMPPCPP, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR E.PELLEGRINI,S.CUSACK REVDAT 3 16-OCT-19 5NG0 1 REMARK REVDAT 2 06-DEC-17 5NG0 1 JRNL REVDAT 1 07-JUN-17 5NG0 0 JRNL AUTH E.PELLEGRINI,L.SIGNOR,S.SINGH,E.BOERI ERBA,S.CUSACK JRNL TITL STRUCTURES OF THE INACTIVE AND ACTIVE STATES OF RIP2 KINASE JRNL TITL 2 INFORM ON THE MECHANISM OF ACTIVATION. JRNL REF PLOS ONE V. 12 77161 2017 JRNL REFN ESSN 1932-6203 JRNL PMID 28545134 JRNL DOI 10.1371/JOURNAL.PONE.0177161 REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0158 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 91.8 REMARK 3 NUMBER OF REFLECTIONS : 54007 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) : 0.171 REMARK 3 R VALUE (WORKING SET) : 0.170 REMARK 3 FREE R VALUE : 0.191 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2886 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) : 2.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.05 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2988 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 70.50 REMARK 3 BIN R VALUE (WORKING SET) : 0.2370 REMARK 3 BIN FREE R VALUE SET COUNT : 162 REMARK 3 BIN FREE R VALUE : 0.2550 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4481 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 65 REMARK 3 SOLVENT ATOMS : 397 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 37.92 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.40000 REMARK 3 B22 (A**2) : 1.40000 REMARK 3 B33 (A**2) : -2.79000 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): 0.137 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.122 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.081 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.977 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.966 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.959 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4740 ; 0.040 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6463 ; 1.338 ; 1.976 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 566 ; 5.653 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 216 ;34.604 ;23.333 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 770 ;13.517 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 32 ;19.704 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 709 ; 0.090 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3588 ; 0.006 ; 0.021 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): 2240 ; 2.192 ; 3.643 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2796 ; 3.491 ; 5.435 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2500 ; 2.878 ; 3.838 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): 7243 ; 6.926 ;48.734 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 : 1 REMARK 3 GROUP CHAIN1 RANGE CHAIN2 RANGE COUNT RMS WEIGHT REMARK 3 1 A 6 299 B 6 299 18120 0.07 0.05 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL 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 USED IF PRESENT IN REMARK 3 THE INPUT REMARK 4 REMARK 4 5NG0 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 16-MAR-17. REMARK 100 THE DEPOSITION ID IS D_1200004061. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 19-NOV-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID23-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.976 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 REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 54007 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 47.250 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 92.8 REMARK 200 DATA REDUNDANCY : 3.800 REMARK 200 R MERGE (I) : 0.03500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 19.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL 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: 2FB8 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 61.58 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.20 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: HEPES 100 MM PH 7.5, 1 MM MGCL2, 2.0 M REMARK 280 LICL AND 5% PEG 6000, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE REMARK 280 293K 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 100.62500 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 47.09000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 47.09000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 50.31250 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 47.09000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 47.09000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 150.93750 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 47.09000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 47.09000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 50.31250 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 47.09000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 47.09000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 150.93750 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 100.62500 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: 4960 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 25200 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -54.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 GLY A -3 REMARK 465 ALA A -2 REMARK 465 MET A -1 REMARK 465 ALA A 0 REMARK 465 MET A 1 REMARK 465 ASN A 2 REMARK 465 GLY A 3 REMARK 465 GLU A 4 REMARK 465 ALA A 5 REMARK 465 MET A 173 REMARK 465 SER A 174 REMARK 465 LEU A 175 REMARK 465 SER A 176 REMARK 465 GLN A 177 REMARK 465 SER A 178 REMARK 465 ARG A 179 REMARK 465 SER A 180 REMARK 465 SER A 181 REMARK 465 LYS A 182 REMARK 465 SER A 183 REMARK 465 ALA A 184 REMARK 465 PRO A 185 REMARK 465 GLU A 186 REMARK 465 GLY A 187 REMARK 465 GLY A 201 REMARK 465 GLN A 202 REMARK 465 LYS A 203 REMARK 465 SER A 204 REMARK 465 ARG A 205 REMARK 465 ALA A 206 REMARK 465 GLY B -3 REMARK 465 ALA B -2 REMARK 465 MET B -1 REMARK 465 ALA B 0 REMARK 465 MET B 1 REMARK 465 ASN B 2 REMARK 465 GLY B 3 REMARK 465 GLU B 4 REMARK 465 MET B 173 REMARK 465 SER B 174 REMARK 465 LEU B 175 REMARK 465 SER B 176 REMARK 465 GLN B 177 REMARK 465 SER B 178 REMARK 465 ARG B 179 REMARK 465 SER B 180 REMARK 465 SER B 181 REMARK 465 LYS B 182 REMARK 465 GLN B 202 REMARK 465 LYS B 203 REMARK 465 SER B 204 REMARK 465 ILE B 300 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 26 CG CD NE CZ NH1 NH2 REMARK 470 HIS A 52 CG ND1 CD2 CE1 NE2 REMARK 470 THR A 53 OG1 CG2 REMARK 470 LEU A 56 CG CD1 CD2 REMARK 470 GLU A 298 CG CD OE1 OE2 REMARK 470 GLU A 299 CG CD OE1 OE2 REMARK 470 ARG B 26 CG CD NE CZ NH1 NH2 REMARK 470 ILE B 51 CG1 CG2 CD1 REMARK 470 HIS B 52 CG ND1 CD2 CE1 NE2 REMARK 470 LEU B 56 CG CD1 CD2 REMARK 470 ARG B 205 CG CD NE CZ NH1 NH2 REMARK 470 GLU B 230 CG CD OE1 OE2 REMARK 470 GLU B 298 CG CD OE1 OE2 REMARK 470 GLU B 299 CG CD OE1 OE2 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 B 676 O HOH B 684 2.03 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 ASP A 146 38.01 -143.84 REMARK 500 ASP A 155 -167.69 -79.84 REMARK 500 ASP A 164 77.58 62.78 REMARK 500 ASP B 146 39.27 -142.65 REMARK 500 ASP B 155 -168.17 -78.42 REMARK 500 ASP B 164 77.78 62.29 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 A1001 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 164 OD1 REMARK 620 2 ASP A 164 OD2 59.7 REMARK 620 3 ACP A1000 O1G 155.0 99.2 REMARK 620 4 ACP A1000 O1B 86.0 85.6 78.7 REMARK 620 5 HOH A1153 O 76.4 90.2 119.7 161.5 REMARK 620 6 HOH A1259 O 98.7 158.4 101.9 93.8 83.6 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 402 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 164 OD1 REMARK 620 2 ASP B 164 OD2 60.9 REMARK 620 3 ACP B 401 O2G 158.6 99.2 REMARK 620 4 ACP B 401 O2B 83.3 86.0 87.8 REMARK 620 5 HOH B 511 O 81.1 87.0 107.1 164.4 REMARK 620 6 HOH B 647 O 92.4 152.8 108.0 96.5 83.6 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACP A 1000 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 1001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACP B 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG B 402 DBREF 5NG0 A 1 300 UNP O43353 RIPK2_HUMAN 1 300 DBREF 5NG0 B 1 300 UNP O43353 RIPK2_HUMAN 1 300 SEQADV 5NG0 GLY A -3 UNP O43353 EXPRESSION TAG SEQADV 5NG0 ALA A -2 UNP O43353 EXPRESSION TAG SEQADV 5NG0 MET A -1 UNP O43353 EXPRESSION TAG SEQADV 5NG0 ALA A 0 UNP O43353 EXPRESSION TAG SEQADV 5NG0 PHE A 294 UNP O43353 LEU 294 ENGINEERED MUTATION SEQADV 5NG0 GLY B -3 UNP O43353 EXPRESSION TAG SEQADV 5NG0 ALA B -2 UNP O43353 EXPRESSION TAG SEQADV 5NG0 MET B -1 UNP O43353 EXPRESSION TAG SEQADV 5NG0 ALA B 0 UNP O43353 EXPRESSION TAG SEQADV 5NG0 PHE B 294 UNP O43353 LEU 294 ENGINEERED MUTATION SEQRES 1 A 304 GLY ALA MET ALA MET ASN GLY GLU ALA ILE CYS SER ALA SEQRES 2 A 304 LEU PRO THR ILE PRO TYR HIS LYS LEU ALA ASP LEU ARG SEQRES 3 A 304 TYR LEU SER ARG GLY ALA SER GLY THR VAL SER SER ALA SEQRES 4 A 304 ARG HIS ALA ASP TRP ARG VAL GLN VAL ALA VAL LYS HIS SEQRES 5 A 304 LEU HIS ILE HIS THR PRO LEU LEU ASP SER GLU ARG LYS SEQRES 6 A 304 ASP VAL LEU ARG GLU ALA GLU ILE LEU HIS LYS ALA ARG SEQRES 7 A 304 PHE SER TYR ILE LEU PRO ILE LEU GLY ILE CYS ASN GLU SEQRES 8 A 304 PRO GLU PHE LEU GLY ILE VAL THR GLU TYR MET PRO ASN SEQRES 9 A 304 GLY SER LEU ASN GLU LEU LEU HIS ARG LYS THR GLU TYR SEQRES 10 A 304 PRO ASP VAL ALA TRP PRO LEU ARG PHE ARG ILE LEU HIS SEQRES 11 A 304 GLU ILE ALA LEU GLY VAL ASN TYR LEU HIS ASN MET THR SEQRES 12 A 304 PRO PRO LEU LEU HIS HIS ASP LEU LYS THR GLN ASN ILE SEQRES 13 A 304 LEU LEU ASP ASN GLU PHE HIS VAL LYS ILE ALA ASP PHE SEQRES 14 A 304 GLY LEU SER LYS TRP ARG MET MET SER LEU SER GLN SER SEQRES 15 A 304 ARG SER SER LYS SER ALA PRO GLU GLY GLY THR ILE ILE SEQRES 16 A 304 TYR MET PRO PRO GLU ASN TYR GLU PRO GLY GLN LYS SER SEQRES 17 A 304 ARG ALA SER ILE LYS HIS ASP ILE TYR SER TYR ALA VAL SEQRES 18 A 304 ILE THR TRP GLU VAL LEU SER ARG LYS GLN PRO PHE GLU SEQRES 19 A 304 ASP VAL THR ASN PRO LEU GLN ILE MET TYR SER VAL SER SEQRES 20 A 304 GLN GLY HIS ARG PRO VAL ILE ASN GLU GLU SER LEU PRO SEQRES 21 A 304 TYR ASP ILE PRO HIS ARG ALA ARG MET ILE SER LEU ILE SEQRES 22 A 304 GLU SER GLY TRP ALA GLN ASN PRO ASP GLU ARG PRO SER SEQRES 23 A 304 PHE LEU LYS CYS LEU ILE GLU LEU GLU PRO VAL PHE ARG SEQRES 24 A 304 THR PHE GLU GLU ILE SEQRES 1 B 304 GLY ALA MET ALA MET ASN GLY GLU ALA ILE CYS SER ALA SEQRES 2 B 304 LEU PRO THR ILE PRO TYR HIS LYS LEU ALA ASP LEU ARG SEQRES 3 B 304 TYR LEU SER ARG GLY ALA SER GLY THR VAL SER SER ALA SEQRES 4 B 304 ARG HIS ALA ASP TRP ARG VAL GLN VAL ALA VAL LYS HIS SEQRES 5 B 304 LEU HIS ILE HIS THR PRO LEU LEU ASP SER GLU ARG LYS SEQRES 6 B 304 ASP VAL LEU ARG GLU ALA GLU ILE LEU HIS LYS ALA ARG SEQRES 7 B 304 PHE SER TYR ILE LEU PRO ILE LEU GLY ILE CYS ASN GLU SEQRES 8 B 304 PRO GLU PHE LEU GLY ILE VAL THR GLU TYR MET PRO ASN SEQRES 9 B 304 GLY SER LEU ASN GLU LEU LEU HIS ARG LYS THR GLU TYR SEQRES 10 B 304 PRO ASP VAL ALA TRP PRO LEU ARG PHE ARG ILE LEU HIS SEQRES 11 B 304 GLU ILE ALA LEU GLY VAL ASN TYR LEU HIS ASN MET THR SEQRES 12 B 304 PRO PRO LEU LEU HIS HIS ASP LEU LYS THR GLN ASN ILE SEQRES 13 B 304 LEU LEU ASP ASN GLU PHE HIS VAL LYS ILE ALA ASP PHE SEQRES 14 B 304 GLY LEU SER LYS TRP ARG MET MET SER LEU SER GLN SER SEQRES 15 B 304 ARG SER SER LYS SER ALA PRO GLU GLY GLY THR ILE ILE SEQRES 16 B 304 TYR MET PRO PRO GLU ASN TYR GLU PRO GLY GLN LYS SER SEQRES 17 B 304 ARG ALA SER ILE LYS HIS ASP ILE TYR SER TYR ALA VAL SEQRES 18 B 304 ILE THR TRP GLU VAL LEU SER ARG LYS GLN PRO PHE GLU SEQRES 19 B 304 ASP VAL THR ASN PRO LEU GLN ILE MET TYR SER VAL SER SEQRES 20 B 304 GLN GLY HIS ARG PRO VAL ILE ASN GLU GLU SER LEU PRO SEQRES 21 B 304 TYR ASP ILE PRO HIS ARG ALA ARG MET ILE SER LEU ILE SEQRES 22 B 304 GLU SER GLY TRP ALA GLN ASN PRO ASP GLU ARG PRO SER SEQRES 23 B 304 PHE LEU LYS CYS LEU ILE GLU LEU GLU PRO VAL PHE ARG SEQRES 24 B 304 THR PHE GLU GLU ILE HET ACP A1000 31 HET MG A1001 1 HET ACP B 401 31 HET MG B 402 1 HET CO B 403 1 HETNAM ACP PHOSPHOMETHYLPHOSPHONIC ACID ADENYLATE ESTER HETNAM MG MAGNESIUM ION HETNAM CO COBALT (II) ION HETSYN ACP ADENOSINE-5'-[BETA, GAMMA-METHYLENE]TRIPHOSPHATE FORMUL 3 ACP 2(C11 H18 N5 O12 P3) FORMUL 4 MG 2(MG 2+) FORMUL 7 CO CO 2+ FORMUL 8 HOH *397(H2 O) HELIX 1 AA1 PRO A 14 HIS A 16 5 3 HELIX 2 AA2 LEU A 56 ALA A 73 1 18 HELIX 3 AA3 SER A 102 ARG A 109 1 8 HELIX 4 AA4 ALA A 117 ASN A 137 1 21 HELIX 5 AA5 LYS A 148 GLN A 150 5 3 HELIX 6 AA6 PRO A 194 TYR A 198 5 5 HELIX 7 AA7 LYS A 209 ARG A 225 1 17 HELIX 8 AA8 ASN A 234 GLN A 244 1 11 HELIX 9 AA9 HIS A 261 TRP A 273 1 13 HELIX 10 AB1 ASN A 276 ARG A 280 5 5 HELIX 11 AB2 SER A 282 THR A 296 1 15 HELIX 12 AB3 PRO B 14 HIS B 16 5 3 HELIX 13 AB4 LEU B 56 ALA B 73 1 18 HELIX 14 AB5 SER B 102 ARG B 109 1 8 HELIX 15 AB6 ALA B 117 ASN B 137 1 21 HELIX 16 AB7 LYS B 148 GLN B 150 5 3 HELIX 17 AB8 THR B 189 MET B 193 5 5 HELIX 18 AB9 PRO B 194 TYR B 198 5 5 HELIX 19 AC1 ARG B 205 ILE B 208 5 4 HELIX 20 AC2 LYS B 209 ARG B 225 1 17 HELIX 21 AC3 ASN B 234 GLN B 244 1 11 HELIX 22 AC4 HIS B 261 TRP B 273 1 13 HELIX 23 AC5 ASN B 276 ARG B 280 5 5 HELIX 24 AC6 SER B 282 THR B 296 1 15 SHEET 1 AA1 2 CYS A 7 ALA A 9 0 SHEET 2 AA1 2 CYS B 7 ALA B 9 -1 O SER B 8 N SER A 8 SHEET 1 AA2 5 LEU A 18 ARG A 26 0 SHEET 2 AA2 5 THR A 31 HIS A 37 -1 O VAL A 32 N SER A 25 SHEET 3 AA2 5 GLN A 43 HIS A 48 -1 O VAL A 46 N SER A 33 SHEET 4 AA2 5 PHE A 90 GLU A 96 -1 O ILE A 93 N LYS A 47 SHEET 5 AA2 5 ILE A 81 GLU A 87 -1 N GLU A 87 O PHE A 90 SHEET 1 AA3 2 LEU A 142 LEU A 143 0 SHEET 2 AA3 2 LYS A 169 TRP A 170 -1 O LYS A 169 N LEU A 143 SHEET 1 AA4 2 ILE A 152 LEU A 154 0 SHEET 2 AA4 2 VAL A 160 ILE A 162 -1 O LYS A 161 N LEU A 153 SHEET 1 AA5 5 LEU B 18 ARG B 26 0 SHEET 2 AA5 5 THR B 31 HIS B 37 -1 O VAL B 32 N SER B 25 SHEET 3 AA5 5 GLN B 43 HIS B 48 -1 O VAL B 46 N SER B 33 SHEET 4 AA5 5 PHE B 90 GLU B 96 -1 O THR B 95 N ALA B 45 SHEET 5 AA5 5 ILE B 81 GLU B 87 -1 N GLU B 87 O PHE B 90 SHEET 1 AA6 2 LEU B 142 LEU B 143 0 SHEET 2 AA6 2 LYS B 169 TRP B 170 -1 O LYS B 169 N LEU B 143 SHEET 1 AA7 2 ILE B 152 LEU B 154 0 SHEET 2 AA7 2 VAL B 160 ILE B 162 -1 O LYS B 161 N LEU B 153 SSBOND 1 CYS A 7 CYS B 7 1555 1555 2.05 LINK OD1 ASP A 164 MG MG A1001 1555 1555 2.20 LINK OD2 ASP A 164 MG MG A1001 1555 1555 2.18 LINK OD1 ASP B 164 MG MG B 402 1555 1555 2.19 LINK OD2 ASP B 164 MG MG B 402 1555 1555 2.18 LINK O1G ACP A1000 MG MG A1001 1555 1555 2.18 LINK O1B ACP A1000 MG MG A1001 1555 1555 2.18 LINK MG MG A1001 O HOH A1153 1555 1555 2.20 LINK MG MG A1001 O HOH A1259 1555 1555 2.17 LINK O2G ACP B 401 MG MG B 402 1555 1555 2.16 LINK O2B ACP B 401 MG MG B 402 1555 1555 2.17 LINK MG MG B 402 O HOH B 511 1555 1555 2.19 LINK MG MG B 402 O HOH B 647 1555 1555 2.18 CISPEP 1 THR A 139 PRO A 140 0 0.57 CISPEP 2 THR B 139 PRO B 140 0 -0.43 SITE 1 AC1 19 SER A 29 VAL A 32 ALA A 45 LYS A 47 SITE 2 AC1 19 LEU A 79 THR A 95 GLU A 96 MET A 98 SITE 3 AC1 19 GLN A 150 ASN A 151 LEU A 153 ASP A 164 SITE 4 AC1 19 MG A1001 HOH A1104 HOH A1114 HOH A1141 SITE 5 AC1 19 HOH A1231 HOH A1234 HOH A1238 SITE 1 AC2 4 ASP A 164 ACP A1000 HOH A1153 HOH A1259 SITE 1 AC3 17 SER B 29 VAL B 32 ALA B 45 LYS B 47 SITE 2 AC3 17 LEU B 79 THR B 95 GLU B 96 MET B 98 SITE 3 AC3 17 GLN B 150 ASN B 151 LEU B 153 ASP B 164 SITE 4 AC3 17 MG B 402 HOH B 514 HOH B 517 HOH B 622 SITE 5 AC3 17 HOH B 625 SITE 1 AC4 4 ASP B 164 ACP B 401 HOH B 511 HOH B 647 CRYST1 94.180 94.180 201.250 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 0.010618 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010618 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004969 0.00000 MASTER 414 0 5 24 20 0 12 6 0 0 0 48 END