HEADER LIGASE/TRANSCRIPTION 23-DEC-10 3Q4A TITLE CRYSTAL STRUCTURE OF THE TPR DOMAIN OF CHIP COMPLEXED WITH TITLE 2 PHOSPHORYLATED SMAD1 PEPTIDE COMPND MOL_ID: 1; COMPND 2 MOLECULE: STIP1 HOMOLOGY AND U BOX-CONTAINING PROTEIN 1; COMPND 3 CHAIN: B; COMPND 4 FRAGMENT: TPR DOMAIN; COMPND 5 EC: 6.3.2.-; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: SMAD1 PEPTIDE; COMPND 9 CHAIN: C; COMPND 10 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_COMMON: MOUSE; SOURCE 4 ORGANISM_TAXID: 10090; SOURCE 5 GENE: STUB1, CHIP; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET-DUET-1; SOURCE 11 MOL_ID: 2; SOURCE 12 SYNTHETIC: YES; SOURCE 13 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 14 ORGANISM_COMMON: HUMAN; SOURCE 15 ORGANISM_TAXID: 9606; SOURCE 16 OTHER_DETAILS: THE PEPTIDE WAS CHEMICALLY SYNTHESIZED. KEYWDS E3 UBIQUITIN LIGASE, LIGASE-TRANSCRIPTION COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR L.WANG,L.CHEN,J.W.WU REVDAT 4 01-NOV-23 3Q4A 1 SEQADV LINK REVDAT 3 18-MAY-11 3Q4A 1 JRNL REVDAT 2 30-MAR-11 3Q4A 1 HEADER KEYWDS REVDAT 1 16-MAR-11 3Q4A 0 JRNL AUTH L.WANG,Y.T.LIU,R.HAO,L.CHEN,Z.CHANG,H.R.WANG,Z.X.WANG,J.W.WU JRNL TITL MOLECULAR MECHANISM OF THE NEGATIVE REGULATION OF SMAD1/5 JRNL TITL 2 PROTEIN BY CARBOXYL TERMINUS OF HSC70-INTERACTING PROTEIN JRNL TITL 3 (CHIP). JRNL REF J.BIOL.CHEM. V. 286 15883 2011 JRNL REFN ISSN 0021-9258 JRNL PMID 21454478 JRNL DOI 10.1074/JBC.M110.201814 REMARK 2 REMARK 2 RESOLUTION. 1.54 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE) 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) : 1.54 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 32.98 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 3 NUMBER OF REFLECTIONS : 19797 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.170 REMARK 3 R VALUE (WORKING SET) : 0.168 REMARK 3 FREE R VALUE : 0.208 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.110 REMARK 3 FREE R VALUE TEST SET COUNT : 1011 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 32.9917 - 2.9486 0.98 2816 128 0.1639 0.1968 REMARK 3 2 2.9486 - 2.3406 1.00 2741 141 0.1750 0.2120 REMARK 3 3 2.3406 - 2.0448 1.00 2671 150 0.1566 0.1972 REMARK 3 4 2.0448 - 1.8578 1.00 2689 145 0.1678 0.2128 REMARK 3 5 1.8578 - 1.7247 1.00 2627 158 0.1628 0.2124 REMARK 3 6 1.7247 - 1.6230 1.00 2666 146 0.1634 0.2018 REMARK 3 7 1.6230 - 1.5417 0.99 2576 143 0.1532 0.1969 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 : 0.38 REMARK 3 B_SOL : 82.23 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.160 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : NULL 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) : 3.55590 REMARK 3 B22 (A**2) : 0.80510 REMARK 3 B33 (A**2) : -3.30330 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 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 : 0.010 1132 REMARK 3 ANGLE : 1.028 1525 REMARK 3 CHIRALITY : 0.068 159 REMARK 3 PLANARITY : 0.004 201 REMARK 3 DIHEDRAL : 16.940 435 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 3Q4A COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 18-JAN-11. REMARK 100 THE DEPOSITION ID IS D_1000063175. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-JUL-09 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRF REMARK 200 BEAMLINE : BL17U REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97924 REMARK 200 MONOCHROMATOR : GRAPHITE REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 19797 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.540 REMARK 200 RESOLUTION RANGE LOW (A) : 33.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 200 DATA REDUNDANCY : 7.700 REMARK 200 R MERGE (I) : 0.05300 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 57.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.54 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.57 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.9 REMARK 200 DATA REDUNDANCY IN SHELL : 7.10 REMARK 200 R MERGE FOR SHELL (I) : 0.17100 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 11.80 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: 2C2L REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 36.09 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.92 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 100MM BIS-TRIS PROPANE PH 7.0, 40% PEG REMARK 280 MME 2000, 1% PEG MME 550, 50MM MAGNESIUM ACETATE, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 294K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 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 -X+1/2,Y+1/2,-Z 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 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 -1.000000 0.000000 0.000000 23.06600 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 38.72200 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 23.06600 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 38.72200 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: 980 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 7840 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -9.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, 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 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 B 19 REMARK 465 PRO B 20 REMARK 465 HIS B 21 REMARK 465 MET B 22 REMARK 465 LYS B 23 REMARK 465 SER C 456 REMARK 465 PRO C 457 REMARK 465 HIS C 458 REMARK 465 ASN C 459 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 LYS B 42 77.78 -103.73 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3Q47 RELATED DB: PDB REMARK 900 RELATED ID: 3Q49 RELATED DB: PDB DBREF 3Q4A B 23 155 UNP Q9WUD1 CHIP_MOUSE 23 155 DBREF 3Q4A C 456 465 PDB 3Q4A 3Q4A 456 465 SEQADV 3Q4A GLY B 19 UNP Q9WUD1 EXPRESSION TAG SEQADV 3Q4A PRO B 20 UNP Q9WUD1 EXPRESSION TAG SEQADV 3Q4A HIS B 21 UNP Q9WUD1 EXPRESSION TAG SEQADV 3Q4A MET B 22 UNP Q9WUD1 EXPRESSION TAG SEQRES 1 B 137 GLY PRO HIS MET LYS SER PRO SER ALA GLN GLU LEU LYS SEQRES 2 B 137 GLU GLN GLY ASN ARG LEU PHE VAL GLY ARG LYS TYR PRO SEQRES 3 B 137 GLU ALA ALA ALA CYS TYR GLY ARG ALA ILE THR ARG ASN SEQRES 4 B 137 PRO LEU VAL ALA VAL TYR TYR THR ASN ARG ALA LEU CYS SEQRES 5 B 137 TYR LEU LYS MET GLN GLN PRO GLU GLN ALA LEU ALA ASP SEQRES 6 B 137 CYS ARG ARG ALA LEU GLU LEU ASP GLY GLN SER VAL LYS SEQRES 7 B 137 ALA HIS PHE PHE LEU GLY GLN CYS GLN LEU GLU MET GLU SEQRES 8 B 137 SER TYR ASP GLU ALA ILE ALA ASN LEU GLN ARG ALA TYR SEQRES 9 B 137 SER LEU ALA LYS GLU GLN ARG LEU ASN PHE GLY ASP ASP SEQRES 10 B 137 ILE PRO SER ALA LEU ARG ILE ALA LYS LYS LYS ARG TRP SEQRES 11 B 137 ASN SER ILE GLU GLU ARG ARG SEQRES 1 C 10 SER PRO HIS ASN PRO ILE SER SEP VAL SEP MODRES 3Q4A SEP C 463 SER PHOSPHOSERINE MODRES 3Q4A SEP C 465 SER PHOSPHOSERINE HET SEP C 463 10 HET SEP C 465 11 HETNAM SEP PHOSPHOSERINE HETSYN SEP PHOSPHONOSERINE FORMUL 2 SEP 2(C3 H8 N O6 P) FORMUL 3 HOH *185(H2 O) HELIX 1 1 SER B 26 GLY B 40 1 15 HELIX 2 2 LYS B 42 ASN B 57 1 16 HELIX 3 3 VAL B 60 MET B 74 1 15 HELIX 4 4 GLN B 76 ASP B 91 1 16 HELIX 5 5 SER B 94 MET B 108 1 15 HELIX 6 6 SER B 110 GLN B 128 1 19 HELIX 7 7 ASP B 134 GLU B 153 1 20 LINK C SER C 462 N SEP C 463 1555 1555 1.31 LINK C SEP C 463 N VAL C 464 1555 1555 1.33 LINK C VAL C 464 N SEP C 465 1555 1555 1.33 CRYST1 46.132 77.444 36.456 90.00 90.00 90.00 P 21 21 2 4 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 0.021677 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012913 0.000000 0.00000 SCALE3 0.000000 0.000000 0.027430 0.00000