PDB Short entry for 3VUH HEADER TRANSFERASE/TRANSFERASE INHIBITOR 28-JUN-12 3VUH TITLE CRYSTAL STRUCTURE OF A CYSTEINE-DEFICIENT MUTANT M3 IN MAP KINASE JNK1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: MITOGEN-ACTIVATED PROTEIN KINASE 8; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: KINASE DOMAIN, UNP RESIDUES 1-364; COMPND 5 SYNONYM: MITOGEN-ACTIVATED PROTEIN KINASE 8 ISOFORM JNK1 BETA2, COMPND 6 MITOGEN-ACTIVATED PROTEIN KINASE 8, ISOFORM CRA_D, CDNA FLJ77387, COMPND 7 HIGHLY SIMILAR TO HOMO SAPIENS MITOGEN-ACTIVATED PROTEIN KINASE 8 COMPND 8 (MAPK8), TRANSCRIPT VARIANT 4, MRNA; COMPND 9 EC: 2.7.11.24; COMPND 10 ENGINEERED: YES; COMPND 11 MUTATION: YES; COMPND 12 MOL_ID: 2; COMPND 13 MOLECULE: PEPTIDE FROM C-JUN-AMINO-TERMINAL KINASE-INTERACTING COMPND 14 PROTEIN 1; COMPND 15 CHAIN: F; COMPND 16 SYNONYM: JIP-1, JNK-INTERACTING PROTEIN 1, ISLET-BRAIN 1, IB-1, JNK COMPND 17 MAP KINASE SCAFFOLD PROTEIN 1, MITOGEN-ACTIVATED PROTEIN KINASE 8- COMPND 18 INTERACTING PROTEIN 1; COMPND 19 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET24A; SOURCE 10 MOL_ID: 2; SOURCE 11 SYNTHETIC: YES; SOURCE 12 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 13 ORGANISM_COMMON: HUMAN; SOURCE 14 ORGANISM_TAXID: 9606 KEYWDS TRANSCRIPTION, PHOSPHORYLATION, ATP BINDING, TRANSFERASE-TRANSFERASE KEYWDS 2 INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR T.NAKANIWA,T.KINOSHITA,T.INOUE REVDAT 3 20-MAR-24 3VUH 1 REMARK REVDAT 2 04-DEC-19 3VUH 1 REMARK SEQADV REVDAT 1 13-FEB-13 3VUH 0 JRNL AUTH T.NAKANIWA,H.FUKADA,T.INOUE,M.GOUDA,R.NAKAI,Y.KIRII, JRNL AUTH 2 M.ADACHI,T.TAMADA,S.SEGAWA,R.KUROKI,T.TADA,T.KINOSHITA JRNL TITL SEVEN CYSTEINE-DEFICIENT MUTANTS DEPICT THE INTERPLAY JRNL TITL 2 BETWEEN THERMAL AND CHEMICAL STABILITIES OF INDIVIDUAL JRNL TITL 3 CYSTEINE RESIDUES IN MITOGEN-ACTIVATED PROTEIN KINASE C-JUN JRNL TITL 4 N-TERMINAL KINASE 1 JRNL REF BIOCHEMISTRY V. 51 8410 2012 JRNL REFN ISSN 0006-2960 JRNL PMID 23020677 JRNL DOI 10.1021/BI300918W REMARK 2 REMARK 2 RESOLUTION. 2.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.6.0117 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) : 2.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 33.33 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 3 NUMBER OF REFLECTIONS : 16849 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) : 0.197 REMARK 3 R VALUE (WORKING SET) : 0.194 REMARK 3 FREE R VALUE : 0.256 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 908 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) : 2.70 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.77 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1118 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.66 REMARK 3 BIN R VALUE (WORKING SET) : 0.3350 REMARK 3 BIN FREE R VALUE SET COUNT : 69 REMARK 3 BIN FREE R VALUE : 0.4240 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2932 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 31 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) : 77.13 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.01000 REMARK 3 B22 (A**2) : 0.01000 REMARK 3 B33 (A**2) : -0.03000 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): 0.424 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.298 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.223 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 10.952 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.955 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.921 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3022 ; 0.014 ; 0.020 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4092 ; 2.493 ; 1.980 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 362 ; 8.648 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 136 ;38.619 ;24.485 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 542 ;20.505 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 16 ;23.890 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 457 ; 0.281 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2240 ; 0.009 ; 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): 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 : 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 USED IF PRESENT IN REMARK 3 THE INPUT REMARK 4 REMARK 4 3VUH COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 10-JUL-12. REMARK 100 THE DEPOSITION ID IS D_1000095514. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PHOTON FACTORY REMARK 200 BEAMLINE : AR-NE3A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : NULL REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 270 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 17780 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.700 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.77 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.6 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 <I/SIGMA(I)> 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: PHASES REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 65.66 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.58 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2.2M AMMONIUM SULFATE, 0.2M SODIUM REMARK 280 CHLORIDE, 0.1M SODIUM CACODYLATE PH 6.5, VAPOR DIFFUSION, REMARK 280 SITTING DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 4 2 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 -Y,X,Z REMARK 290 4555 Y,-X,Z REMARK 290 5555 -X,Y,-Z REMARK 290 6555 X,-Y,-Z REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z REMARK 290 9555 X+1/2,Y+1/2,Z+1/2 REMARK 290 10555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 11555 -Y+1/2,X+1/2,Z+1/2 REMARK 290 12555 Y+1/2,-X+1/2,Z+1/2 REMARK 290 13555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 14555 X+1/2,-Y+1/2,-Z+1/2 REMARK 290 15555 Y+1/2,X+1/2,-Z+1/2 REMARK 290 16555 -Y+1/2,-X+1/2,-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 0.00000 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 0.00000 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 0.00000 REMARK 290 SMTRY1 9 1.000000 0.000000 0.000000 84.96450 REMARK 290 SMTRY2 9 0.000000 1.000000 0.000000 84.96450 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 43.65750 REMARK 290 SMTRY1 10 -1.000000 0.000000 0.000000 84.96450 REMARK 290 SMTRY2 10 0.000000 -1.000000 0.000000 84.96450 REMARK 290 SMTRY3 10 0.000000 0.000000 1.000000 43.65750 REMARK 290 SMTRY1 11 0.000000 -1.000000 0.000000 84.96450 REMARK 290 SMTRY2 11 1.000000 0.000000 0.000000 84.96450 REMARK 290 SMTRY3 11 0.000000 0.000000 1.000000 43.65750 REMARK 290 SMTRY1 12 0.000000 1.000000 0.000000 84.96450 REMARK 290 SMTRY2 12 -1.000000 0.000000 0.000000 84.96450 REMARK 290 SMTRY3 12 0.000000 0.000000 1.000000 43.65750 REMARK 290 SMTRY1 13 -1.000000 0.000000 0.000000 84.96450 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 84.96450 REMARK 290 SMTRY3 13 0.000000 0.000000 -1.000000 43.65750 REMARK 290 SMTRY1 14 1.000000 0.000000 0.000000 84.96450 REMARK 290 SMTRY2 14 0.000000 -1.000000 0.000000 84.96450 REMARK 290 SMTRY3 14 0.000000 0.000000 -1.000000 43.65750 REMARK 290 SMTRY1 15 0.000000 1.000000 0.000000 84.96450 REMARK 290 SMTRY2 15 1.000000 0.000000 0.000000 84.96450 REMARK 290 SMTRY3 15 0.000000 0.000000 -1.000000 43.65750 REMARK 290 SMTRY1 16 0.000000 -1.000000 0.000000 84.96450 REMARK 290 SMTRY2 16 -1.000000 0.000000 0.000000 84.96450 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 43.65750 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: 2230 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 16640 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -61.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, F 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 MET A 1 REMARK 465 SER A 2 REMARK 465 ARG A 3 REMARK 465 SER A 4 REMARK 465 LYS A 5 REMARK 465 ARG A 6 REMARK 465 PHE A 180 REMARK 465 MET A 181 REMARK 465 MET A 182 REMARK 465 HIS A 365 REMARK 465 HIS A 366 REMARK 465 HIS A 367 REMARK 465 HIS A 368 REMARK 465 HIS A 369 REMARK 465 HIS A 370 REMARK 465 ARG F 553 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 GLU A 346 CG CD OE1 OE2 REMARK 470 LYS A 358 CG CD CE NZ REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O2 SO4 A 402 O3 SO4 A 402 6555 1.82 REMARK 500 O4 SO4 A 402 O4 SO4 A 402 6555 2.17 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 GLN A 117 N - CA - C ANGL. DEV. = -23.1 DEGREES REMARK 500 ASP A 151 CB - CG - OD2 ANGL. DEV. = -5.7 DEGREES REMARK 500 MET A 301 CG - SD - CE ANGL. DEV. = -13.7 DEGREES 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 ARG A 59 68.37 18.88 REMARK 500 GLN A 62 -6.86 -54.59 REMARK 500 ASN A 63 144.49 -173.89 REMARK 500 GLN A 102 -37.63 -141.84 REMARK 500 GLN A 117 -42.56 -174.05 REMARK 500 ARG A 150 -28.42 77.42 REMARK 500 LYS A 153 156.49 173.92 REMARK 500 ALA A 163 3.55 88.47 REMARK 500 ASP A 169 107.19 44.38 REMARK 500 ALA A 176 157.48 -45.45 REMARK 500 THR A 178 -146.68 106.99 REMARK 500 PRO A 226 -95.46 -49.28 REMARK 500 GLU A 285 -72.24 -54.54 REMARK 500 ASN A 287 -99.55 52.51 REMARK 500 GLU A 331 42.25 -142.96 REMARK 500 PRO A 338 107.89 -46.84 REMARK 500 LYS A 340 -76.46 -43.37 REMARK 500 ASP A 343 58.88 -61.37 REMARK 500 GLU A 344 -45.92 -162.16 REMARK 500 HIS A 347 -154.90 -141.75 REMARK 500 ILE A 349 -50.06 -14.67 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 SER A 116 GLN A 117 -60.68 REMARK 500 GLY A 177 THR A 178 -148.00 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 400 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 404 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 405 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR CHAIN F OF PEPTIDE FROM C-JUN REMARK 800 -AMINO-TERMINAL KINASE-INTERACTING PROTEIN 1 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3VUD RELATED DB: PDB REMARK 900 RELATED ID: 3VUG RELATED DB: PDB REMARK 900 RELATED ID: 3VUI RELATED DB: PDB REMARK 900 RELATED ID: 3VUK RELATED DB: PDB REMARK 900 RELATED ID: 3VUL RELATED DB: PDB REMARK 900 RELATED ID: 3VUM RELATED DB: PDB DBREF 3VUH A 1 364 UNP A1L4K2 A1L4K2_HUMAN 1 364 DBREF 3VUH F 553 563 UNP Q9UQF2 JIP1_HUMAN 157 167 SEQADV 3VUH SER A 116 UNP A1L4K2 CYS 116 ENGINEERED MUTATION SEQADV 3VUH ALA A 163 UNP A1L4K2 CYS 163 ENGINEERED MUTATION SEQADV 3VUH SER A 245 UNP A1L4K2 CYS 245 ENGINEERED MUTATION SEQADV 3VUH HIS A 365 UNP A1L4K2 EXPRESSION TAG SEQADV 3VUH HIS A 366 UNP A1L4K2 EXPRESSION TAG SEQADV 3VUH HIS A 367 UNP A1L4K2 EXPRESSION TAG SEQADV 3VUH HIS A 368 UNP A1L4K2 EXPRESSION TAG SEQADV 3VUH HIS A 369 UNP A1L4K2 EXPRESSION TAG SEQADV 3VUH HIS A 370 UNP A1L4K2 EXPRESSION TAG SEQRES 1 A 370 MET SER ARG SER LYS ARG ASP ASN ASN PHE TYR SER VAL SEQRES 2 A 370 GLU ILE GLY ASP SER THR PHE THR VAL LEU LYS ARG TYR SEQRES 3 A 370 GLN ASN LEU LYS PRO ILE GLY SER GLY ALA GLN GLY ILE SEQRES 4 A 370 VAL CYS ALA ALA TYR ASP ALA ILE LEU GLU ARG ASN VAL SEQRES 5 A 370 ALA ILE LYS LYS LEU SER ARG PRO PHE GLN ASN GLN THR SEQRES 6 A 370 HIS ALA LYS ARG ALA TYR ARG GLU LEU VAL LEU MET LYS SEQRES 7 A 370 CYS VAL ASN HIS LYS ASN ILE ILE GLY LEU LEU ASN VAL SEQRES 8 A 370 PHE THR PRO GLN LYS SER LEU GLU GLU PHE GLN ASP VAL SEQRES 9 A 370 TYR ILE VAL MET GLU LEU MET ASP ALA ASN LEU SER GLN SEQRES 10 A 370 VAL ILE GLN MET GLU LEU ASP HIS GLU ARG MET SER TYR SEQRES 11 A 370 LEU LEU TYR GLN MET LEU CYS GLY ILE LYS HIS LEU HIS SEQRES 12 A 370 SER ALA GLY ILE ILE HIS ARG ASP LEU LYS PRO SER ASN SEQRES 13 A 370 ILE VAL VAL LYS SER ASP ALA THR LEU LYS ILE LEU ASP SEQRES 14 A 370 PHE GLY LEU ALA ARG THR ALA GLY THR SER PHE MET MET SEQRES 15 A 370 THR PRO TYR VAL VAL THR ARG TYR TYR ARG ALA PRO GLU SEQRES 16 A 370 VAL ILE LEU GLY MET GLY TYR LYS GLU ASN VAL ASP ILE SEQRES 17 A 370 TRP SER VAL GLY CYS ILE MET GLY GLU MET ILE LYS GLY SEQRES 18 A 370 GLY VAL LEU PHE PRO GLY THR ASP HIS ILE ASP GLN TRP SEQRES 19 A 370 ASN LYS VAL ILE GLU GLN LEU GLY THR PRO SER PRO GLU SEQRES 20 A 370 PHE MET LYS LYS LEU GLN PRO THR VAL ARG THR TYR VAL SEQRES 21 A 370 GLU ASN ARG PRO LYS TYR ALA GLY TYR SER PHE GLU LYS SEQRES 22 A 370 LEU PHE PRO ASP VAL LEU PHE PRO ALA ASP SER GLU HIS SEQRES 23 A 370 ASN LYS LEU LYS ALA SER GLN ALA ARG ASP LEU LEU SER SEQRES 24 A 370 LYS MET LEU VAL ILE ASP ALA SER LYS ARG ILE SER VAL SEQRES 25 A 370 ASP GLU ALA LEU GLN HIS PRO TYR ILE ASN VAL TRP TYR SEQRES 26 A 370 ASP PRO SER GLU ALA GLU ALA PRO PRO PRO LYS ILE PRO SEQRES 27 A 370 ASP LYS GLN LEU ASP GLU ARG GLU HIS THR ILE GLU GLU SEQRES 28 A 370 TRP LYS GLU LEU ILE TYR LYS GLU VAL MET ASP LEU GLU SEQRES 29 A 370 HIS HIS HIS HIS HIS HIS SEQRES 1 F 11 ARG PRO LYS ARG PRO THR THR LEU ASN LEU PHE HET SO4 A 400 5 HET SO4 A 401 5 HET SO4 A 402 5 HET SO4 A 403 5 HET SO4 A 404 5 HET GOL A 405 6 HETNAM SO4 SULFATE ION HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 SO4 5(O4 S 2-) FORMUL 8 GOL C3 H8 O3 FORMUL 9 HOH *45(H2 O) HELIX 1 1 PRO A 60 GLN A 62 5 3 HELIX 2 2 ASN A 63 VAL A 80 1 18 HELIX 3 3 SER A 116 VAL A 118 5 3 HELIX 4 4 ASP A 124 ALA A 145 1 22 HELIX 5 5 LYS A 153 SER A 155 5 3 HELIX 6 6 THR A 188 ARG A 192 5 5 HELIX 7 7 ALA A 193 LEU A 198 1 6 HELIX 8 8 GLU A 204 GLY A 221 1 18 HELIX 9 9 ILE A 231 GLY A 242 1 12 HELIX 10 10 SER A 245 LYS A 250 1 6 HELIX 11 11 GLN A 253 ARG A 263 1 11 HELIX 12 12 SER A 270 PHE A 275 1 6 HELIX 13 13 PRO A 276 PHE A 280 5 5 HELIX 14 14 LYS A 290 LEU A 302 1 13 HELIX 15 15 ASP A 305 ARG A 309 5 5 HELIX 16 16 SER A 311 HIS A 318 1 8 HELIX 17 17 HIS A 318 VAL A 323 1 6 HELIX 18 18 ASP A 326 GLU A 331 1 6 HELIX 19 19 THR A 348 GLU A 364 1 17 SHEET 1 A 2 SER A 12 ILE A 15 0 SHEET 2 A 2 SER A 18 THR A 21 -1 O SER A 18 N ILE A 15 SHEET 1 B 5 TYR A 26 SER A 34 0 SHEET 2 B 5 ILE A 39 ASP A 45 -1 O TYR A 44 N GLN A 27 SHEET 3 B 5 ARG A 50 SER A 58 -1 O ILE A 54 N CYS A 41 SHEET 4 B 5 ASP A 103 MET A 108 -1 O ILE A 106 N LYS A 55 SHEET 5 B 5 LEU A 88 PHE A 92 -1 N LEU A 89 O VAL A 107 SHEET 1 C 3 ALA A 113 ASN A 114 0 SHEET 2 C 3 ILE A 157 VAL A 159 -1 O VAL A 159 N ALA A 113 SHEET 3 C 3 LEU A 165 ILE A 167 -1 O LYS A 166 N VAL A 158 SITE 1 AC1 5 ARG A 189 ARG A 192 HIS A 230 THR A 255 SITE 2 AC1 5 HOH A 533 SITE 1 AC2 3 LYS A 153 SER A 155 HOH A 508 SITE 1 AC3 1 ARG A 263 SITE 1 AC4 5 ARG A 69 ARG A 72 ARG A 150 ARG A 174 SITE 2 AC4 5 THR A 183 SITE 1 AC5 5 GLY A 38 LYS A 56 LEU A 57 SER A 58 SITE 2 AC5 5 HIS A 66 SITE 1 AC6 3 GLU A 109 LEU A 110 MET A 111 SITE 1 AC7 15 ILE A 15 ASP A 17 PRO A 31 GLY A 33 SITE 2 AC7 15 SER A 34 ILE A 39 VAL A 40 MET A 121 SITE 3 AC7 15 ARG A 127 TYR A 130 SER A 161 ASP A 162 SITE 4 AC7 15 ALA A 163 TRP A 324 GLU A 329 CRYST1 169.929 169.929 87.315 90.00 90.00 90.00 I 4 2 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 0.005885 0.000000 0.000000 0.00000 SCALE2 0.000000 0.005885 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011453 0.00000