PDB Short entry for 4OH8 HEADER TRANSFERASE/APOPTOSIS 17-JAN-14 4OH8 TITLE CRYSTAL STRUCTURE OF THE HUMAN MST1-RASSF5 SARAH HETERODIMER COMPND MOL_ID: 1; COMPND 2 MOLECULE: SERINE/THREONINE-PROTEIN KINASE 4; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: MST1 SARAH DOMAIN; COMPND 5 SYNONYM: MAMMALIAN STE20-LIKE PROTEIN KINASE 1, MST-1, STE20-LIKE COMPND 6 KINASE MST1, SERINE/THREONINE-PROTEIN KINASE KRS-2, SERINE/THREONINE- COMPND 7 PROTEIN KINASE 4 37KDA SUBUNIT, MST1/N, SERINE/THREONINE-PROTEIN COMPND 8 KINASE 4 18KDA SUBUNIT, MST1/C; COMPND 9 EC: 2.7.11.1; COMPND 10 ENGINEERED: YES; COMPND 11 MOL_ID: 2; COMPND 12 MOLECULE: RAS ASSOCIATION DOMAIN-CONTAINING PROTEIN 5; COMPND 13 CHAIN: B; COMPND 14 FRAGMENT: RASSF5 SARAH DOMAIN; COMPND 15 SYNONYM: NEW RAS EFFECTOR 1, REGULATOR FOR CELL ADHESION AND COMPND 16 POLARIZATION ENRICHED IN LYMPHOID TISSUES, RAPL; COMPND 17 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: STK4, KRS2, MST1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PGEX4T-1; SOURCE 11 MOL_ID: 2; SOURCE 12 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 13 ORGANISM_COMMON: HUMAN; SOURCE 14 ORGANISM_TAXID: 9606; SOURCE 15 GENE: RASSF5, NORE1, RAPL; SOURCE 16 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 17 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 18 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 19 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 20 EXPRESSION_SYSTEM_PLASMID: PGEX4T-1 KEYWDS COILED-COIL, SARAH DOMAIN, HOMODIMERIZATION, HETERODOMERIZATION, KEYWDS 2 TRANSFERASE-APOPTOSIS COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR E.HWANG,H.-K.CHEONG,A.UL MUSHTAQ,H.-Y.KIM,K.J.YEO,E.KIM,W.C.LEE, AUTHOR 2 K.Y.HWANG,C.CHEONG,Y.H.JEON REVDAT 2 28-FEB-24 4OH8 1 SEQADV REVDAT 1 23-JUL-14 4OH8 0 JRNL AUTH E.HWANG,H.K.CHEONG,A.U.MUSHTAQ,H.Y.KIM,K.J.YEO,E.KIM, JRNL AUTH 2 W.C.LEE,K.Y.HWANG,C.CHEONG,Y.H.JEON JRNL TITL STRUCTURAL BASIS OF THE HETERODIMERIZATION OF THE MST AND JRNL TITL 2 RASSF SARAH DOMAINS IN THE HIPPO SIGNALLING PATHWAY. JRNL REF ACTA CRYSTALLOGR.,SECT.D V. 70 1944 2014 JRNL REFN ISSN 0907-4449 JRNL PMID 25004971 JRNL DOI 10.1107/S139900471400947X REMARK 2 REMARK 2 RESOLUTION. 2.28 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.8_1069) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.28 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 25.09 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.380 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.0 REMARK 3 NUMBER OF REFLECTIONS : 5278 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.220 REMARK 3 R VALUE (WORKING SET) : 0.217 REMARK 3 FREE R VALUE : 0.278 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.590 REMARK 3 FREE R VALUE TEST SET COUNT : 242 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 25.0946 - 2.8726 0.99 2597 126 0.2177 0.2648 REMARK 3 2 2.8726 - 2.2805 0.97 2439 116 0.2139 0.3189 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.300 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 28.380 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL 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 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.008 774 REMARK 3 ANGLE : 1.122 1037 REMARK 3 CHIRALITY : 0.079 111 REMARK 3 PLANARITY : 0.004 136 REMARK 3 DIHEDRAL : 16.270 316 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 4OH8 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 17-JAN-14. REMARK 100 THE DEPOSITION ID IS D_1000084489. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 05-JUN-10 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4.8 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PHOTON FACTORY REMARK 200 BEAMLINE : BL-1A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.98000 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 22807 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.200 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.9 REMARK 200 DATA REDUNDANCY : 4.000 REMARK 200 R MERGE (I) : 0.07900 REMARK 200 R SYM (I) : 0.07900 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 31.7330 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.20 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.28 REMARK 200 COMPLETENESS FOR SHELL (%) : 85.8 REMARK 200 DATA REDUNDANCY IN SHELL : 2.60 REMARK 200 R MERGE FOR SHELL (I) : 0.20600 REMARK 200 R SYM FOR SHELL (I) : 0.20600 REMARK 200 <I/SIGMA(I)> FOR SHELL : 6.031 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: SOLVE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.11 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.20 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 35% (V/V) 2-METHYL-2,4-PENTANEDIOL REMARK 280 (MPD) ACETATE, PH 4.8, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 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 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 X+1/2,-Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 46.39500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 46.39500 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 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 13.97000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 42.92000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 13.97000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 42.92000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 46.39500 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 13.97000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 42.92000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 46.39500 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 13.97000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 42.92000 REMARK 290 SMTRY3 8 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: 2320 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 6850 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -20.0 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 1 REMARK 465 SER A 2 REMARK 465 ASP A 3 REMARK 465 TYR A 4 REMARK 465 GLU A 5 REMARK 465 PHE A 6 REMARK 465 LEU A 7 REMARK 465 LYS A 8 REMARK 465 GLY B -1 REMARK 465 SER B 0 REMARK 465 GLU B 1 REMARK 465 SER B 48 REMARK 465 GLN B 49 REMARK 465 GLY B 50 REMARK 465 LYS B 51 REMARK 465 PRO B 52 REMARK 465 GLY B 53 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4OH9 RELATED DB: PDB DBREF 4OH8 A 3 51 UNP Q13043 STK4_HUMAN 432 480 DBREF 4OH8 B 1 53 UNP Q8WWW0 RASF5_HUMAN 366 418 SEQADV 4OH8 GLY A 1 UNP Q13043 EXPRESSION TAG SEQADV 4OH8 SER A 2 UNP Q13043 EXPRESSION TAG SEQADV 4OH8 GLY B -1 UNP Q8WWW0 EXPRESSION TAG SEQADV 4OH8 SER B 0 UNP Q8WWW0 EXPRESSION TAG SEQRES 1 A 51 GLY SER ASP TYR GLU PHE LEU LYS SER TRP THR VAL GLU SEQRES 2 A 51 ASP LEU GLN LYS ARG LEU LEU ALA LEU ASP PRO MET MET SEQRES 3 A 51 GLU GLN GLU ILE GLU GLU ILE ARG GLN LYS TYR GLN SER SEQRES 4 A 51 LYS ARG GLN PRO ILE LEU ASP ALA ILE GLU ALA LYS SEQRES 1 B 55 GLY SER GLU VAL GLU TRP ASP ALA PHE SER ILE PRO GLU SEQRES 2 B 55 LEU GLN ASN PHE LEU THR ILE LEU GLU LYS GLU GLU GLN SEQRES 3 B 55 ASP LYS ILE GLN GLN VAL GLN LYS LYS TYR ASP LYS PHE SEQRES 4 B 55 ARG GLN LYS LEU GLU GLU ALA LEU ARG GLU SER GLN GLY SEQRES 5 B 55 LYS PRO GLY FORMUL 3 HOH *22(H2 O) HELIX 1 1 SER A 9 LYS A 51 1 43 HELIX 2 2 GLU B 3 PHE B 7 5 5 HELIX 3 3 SER B 8 GLU B 47 1 40 CRYST1 27.940 85.840 92.790 90.00 90.00 90.00 C 2 2 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 0.035791 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011650 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010777 0.00000