PDB Short entry for 2ASS HEADER CELL CYCLE/LIGASE/PROTEIN TURNOVER 24-AUG-05 2ASS TITLE CRYSTAL STRUCTURE OF THE SKP1-SKP2-CKS1 COMPLEX COMPND MOL_ID: 1; COMPND 2 MOLECULE: S-PHASE KINASE-ASSOCIATED PROTEIN 1A; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: CYCLIN A/CDK2-ASSOCIATED PROTEIN P19, P19A, P19SKP1, RNA COMPND 5 POLYMERASE II ELONGATION FACTOR-LIKE PROTEIN, ORGAN OF CORTI PROTEIN COMPND 6 2, OCP-II PROTEIN, OCP-2, TRANSCRIPTION ELONGATION FACTOR B, SIII; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES; COMPND 9 MOL_ID: 2; COMPND 10 MOLECULE: S-PHASE KINASE-ASSOCIATED PROTEIN 2; COMPND 11 CHAIN: B; COMPND 12 SYNONYM: F-BOX PROTEIN SKP2, CYCLIN A/CDK2-ASSOCIATED PROTEIN P45, COMPND 13 P45SKP2, F-BOX/LRR-REPEAT PROTEIN 1; COMPND 14 ENGINEERED: YES; COMPND 15 MOL_ID: 3; COMPND 16 MOLECULE: CYCLIN-DEPENDENT KINASES REGULATORY SUBUNIT 1; COMPND 17 CHAIN: C; COMPND 18 SYNONYM: CKS-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 GENE: SKP1A, EMC19, OCP2, SKP1, TCEB1L; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21 (DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PGEX4T1; SOURCE 11 MOL_ID: 2; SOURCE 12 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 13 ORGANISM_COMMON: HUMAN; SOURCE 14 ORGANISM_TAXID: 9606; SOURCE 15 GENE: SKP2, FBXL1; SOURCE 16 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 17 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 18 EXPRESSION_SYSTEM_STRAIN: BL21 (DE3); SOURCE 19 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 20 EXPRESSION_SYSTEM_PLASMID: PGEX4T1; SOURCE 21 MOL_ID: 3; SOURCE 22 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 23 ORGANISM_COMMON: HUMAN; SOURCE 24 ORGANISM_TAXID: 9606; SOURCE 25 GENE: CKS1, CKS1B; SOURCE 26 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 27 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 28 EXPRESSION_SYSTEM_STRAIN: BL21 (DE3); SOURCE 29 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 30 EXPRESSION_SYSTEM_PLASMID: PGEX4T3 KEYWDS PROTEIN-PROTEIN COMPLEX, LRR, SCF, CELL CYCLE-LIGASE-PROTEIN TURNOVER KEYWDS 2 COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR B.HAO,N.ZHANG,B.A.SCHULMAN,G.WU,M.PAGANO,N.P.PAVLETICH REVDAT 4 23-AUG-23 2ASS 1 REMARK REVDAT 3 20-OCT-21 2ASS 1 REMARK SEQADV REVDAT 2 24-FEB-09 2ASS 1 VERSN REVDAT 1 18-OCT-05 2ASS 0 JRNL AUTH B.HAO,N.ZHENG,B.A.SCHULMAN,G.WU,J.J.MILLER,M.PAGANO, JRNL AUTH 2 N.P.PAVLETICH JRNL TITL STRUCTURAL BASIS OF THE CKS1-DEPENDENT RECOGNITION OF JRNL TITL 2 P27(KIP1) BY THE SCF(SKP2) UBIQUITIN LIGASE. JRNL REF MOL.CELL V. 20 9 2005 JRNL REFN ISSN 1097-2765 JRNL PMID 16209941 JRNL DOI 10.1016/J.MOLCEL.2005.09.003 REMARK 2 REMARK 2 RESOLUTION. 3.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.0 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.94 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 277074.150 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 95.7 REMARK 3 NUMBER OF REFLECTIONS : 24867 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 SET) : 0.214 REMARK 3 FREE R VALUE : 0.242 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 7.900 REMARK 3 FREE R VALUE TEST SET COUNT : 1960 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.005 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 6 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 3.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 3.19 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 91.50 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 3592 REMARK 3 BIN R VALUE (WORKING SET) : 0.3260 REMARK 3 BIN FREE R VALUE : 0.3490 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 8.20 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 321 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.019 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4304 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 33 REMARK 3 SOLVENT ATOMS : 67 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 61.30 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -5.32000 REMARK 3 B22 (A**2) : -6.08000 REMARK 3 B33 (A**2) : 11.40000 REMARK 3 B12 (A**2) : 9.90000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.36 REMARK 3 ESD FROM SIGMAA (A) : 0.55 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.40 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.56 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.008 REMARK 3 BOND ANGLES (DEGREES) : 1.600 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 24.30 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.950 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : RESTRAINED REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.27 REMARK 3 BSOL : 13.20 REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 3 : BAM.PARAM REMARK 3 PARAMETER FILE 4 : ION.PARAM REMARK 3 PARAMETER FILE 5 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : NULL REMARK 3 TOPOLOGY FILE 3 : NULL REMARK 3 TOPOLOGY FILE 4 : NULL REMARK 3 TOPOLOGY FILE 5 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2ASS COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 19-SEP-05. REMARK 100 THE DEPOSITION ID IS D_1000034270. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 26-MAR-04 REMARK 200 TEMPERATURE (KELVIN) : 173 REMARK 200 PH : 7.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X9A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.04187 REMARK 200 MONOCHROMATOR : YALE MIRRORS REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 25854 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.000 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.2 REMARK 200 DATA REDUNDANCY : 3.200 REMARK 200 R MERGE (I) : 0.09900 REMARK 200 R SYM (I) : 0.09900 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 10.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.11 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.5 REMARK 200 DATA REDUNDANCY IN SHELL : 3.00 REMARK 200 R MERGE FOR SHELL (I) : 0.41300 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.800 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: PDB ENTRY 1FQV REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 75.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 4.90 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: BTP, SODIUM/POTASSIUM PHOSPHATE, REMARK 280 BENZAMIDINE, PH 7.6, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE REMARK 280 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 32 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+1/3 REMARK 290 6555 -X,-X+Y,-Z+2/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 66.61067 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 33.30533 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 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 33.30533 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 66.61067 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5940 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 24900 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -47.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: HEXAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 13010 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 48670 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -107.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 350 BIOMT1 2 -0.500000 -0.866025 0.000000 0.00000 REMARK 350 BIOMT2 2 -0.866025 0.500000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 66.61067 REMARK 350 REMARK 350 BIOMOLECULE: 3 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: HEXAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 11160 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 50510 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -94.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: C REMARK 350 BIOMT1 1 -0.500000 0.866025 0.000000 74.66600 REMARK 350 BIOMT2 1 -0.866025 -0.500000 0.000000 -129.32531 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 33.30533 REMARK 350 BIOMT1 2 1.000000 0.000000 0.000000 74.66600 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 -129.32531 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 33.30533 REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B REMARK 350 BIOMT1 3 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 3 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 3 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 4 -0.500000 -0.866025 0.000000 0.00000 REMARK 350 BIOMT2 4 -0.866025 0.500000 0.000000 0.00000 REMARK 350 BIOMT3 4 0.000000 0.000000 -1.000000 66.61067 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 ASP A 1038F REMARK 465 GLU A 1038E REMARK 465 GLY A 1038D REMARK 465 ASP A 1038C REMARK 465 ASP A 1038B REMARK 465 ASP A 1038A REMARK 465 PRO A 1071 REMARK 465 PRO A 1072 REMARK 465 GLU A 1073 REMARK 465 ASP A 1074 REMARK 465 ASP A 1075 REMARK 465 GLU A 1076 REMARK 465 ASN A 1077 REMARK 465 LYS A 1078 REMARK 465 GLU A 1079 REMARK 465 LYS A 1080 REMARK 465 ARG B 2089 REMARK 465 GLU B 2090 REMARK 465 ASN B 2091 REMARK 465 PHE B 2092 REMARK 465 PRO B 2093 REMARK 465 GLY B 2094 REMARK 465 LYS B 2420 REMARK 465 PRO B 2421 REMARK 465 SER B 2422 REMARK 465 CYS B 2423 REMARK 465 LEU B 2424 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 PRO A1064 CB CG CD REMARK 470 ARG A1081 CB CG 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 O ARG B 2126 CB ARG B 2129 1.57 REMARK 500 OD1 ASP B 2102 NH2 ARG B 2126 1.97 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 HIS A1059 C HIS A1059 O -0.193 REMARK 500 ARG B2126 C ARG B2126 O 0.580 REMARK 500 TRP B2127 N TRP B2127 CA 0.396 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 HIS A1059 N - CA - C ANGL. DEV. = -23.6 DEGREES REMARK 500 LYS A1060 N - CA - CB ANGL. DEV. = 11.0 DEGREES REMARK 500 LYS A1060 CA - C - N ANGL. DEV. = -16.0 DEGREES REMARK 500 ARG B2126 CB - CA - C ANGL. DEV. = -14.4 DEGREES REMARK 500 ARG B2126 N - CA - C ANGL. DEV. = -19.0 DEGREES REMARK 500 ARG B2126 CA - C - O ANGL. DEV. = -24.8 DEGREES REMARK 500 ARG B2126 O - C - N ANGL. DEV. = 34.5 DEGREES REMARK 500 TRP B2127 C - N - CA ANGL. DEV. = 25.4 DEGREES REMARK 500 TRP B2127 N - CA - CB ANGL. DEV. = 16.1 DEGREES REMARK 500 TRP B2127 N - CA - C ANGL. DEV. = -17.4 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 LEU A1034 80.40 44.00 REMARK 500 MET A1036 122.52 162.20 REMARK 500 LYS A1060 -52.33 175.75 REMARK 500 ASP A1084 -50.01 -138.05 REMARK 500 ILE A1085 76.27 80.42 REMARK 500 PRO A1086 148.40 -30.58 REMARK 500 LYS A1094 11.97 -61.24 REMARK 500 ASP A1111 71.65 50.64 REMARK 500 LYS A1137 -77.76 -70.73 REMARK 500 THR A1138 -14.59 -45.40 REMARK 500 LYS A1142 -143.82 -73.57 REMARK 500 ASN A1143 62.36 178.63 REMARK 500 ASP A1144 26.91 -72.44 REMARK 500 THR A1146 -141.78 -72.83 REMARK 500 GLU A1150 -61.18 -29.78 REMARK 500 TRP A1159 4.99 -54.98 REMARK 500 SER B2099 -14.35 85.76 REMARK 500 SER B2110 3.09 -69.43 REMARK 500 VAL B2120 -8.06 -59.06 REMARK 500 ARG B2126 -65.45 153.43 REMARK 500 ASP B2133 -115.04 -53.96 REMARK 500 GLU B2134 -29.49 -168.87 REMARK 500 CYS B2165 52.91 -143.15 REMARK 500 ASP B2171 57.70 -108.39 REMARK 500 PRO B2180 139.98 -39.18 REMARK 500 VAL B2183 128.41 -34.00 REMARK 500 SER B2206 -3.90 -146.64 REMARK 500 LEU B2218 -152.10 -111.30 REMARK 500 ALA B2227 -9.65 -52.08 REMARK 500 SER B2230 7.33 -64.60 REMARK 500 LEU B2263 50.58 -104.09 REMARK 500 ARG B2294 -72.77 22.28 REMARK 500 SER B2320 77.69 -115.30 REMARK 500 ASN B2325 -35.07 -24.80 REMARK 500 ASP B2326 -1.56 -59.89 REMARK 500 ASP B2347 35.79 -78.98 REMARK 500 PRO B2360 -36.64 -38.28 REMARK 500 LEU B2383 66.28 -119.79 REMARK 500 LYS B2404 108.77 67.03 REMARK 500 ASP C3014 -144.37 -101.85 REMARK 500 GLU C3016 -38.70 -146.50 REMARK 500 ARG C3020 149.70 -173.53 REMARK 500 ASP C3027 -29.53 -155.38 REMARK 500 SER C3051 166.61 -49.23 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 HIS A1059 11.23 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 PO4 B 3 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 C 4 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 B 5 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BEN B 1 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BEN C 2 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2AST RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF SKP1-SKP2-CKS1 IN COMPLEX WITH A P27 PEPTIDE REMARK 900 RELATED ID: 1FQV RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF SKP1-SKP2 DBREF 2ASS A 1002 1160 UNP P63208 SKP1_HUMAN 1 159 DBREF 2ASS B 2089 2424 UNP Q13309 SKP2_HUMAN 89 424 DBREF 2ASS C 3005 3073 UNP P61024 CKS1_HUMAN 5 73 SEQADV 2ASS ALA A 1002 UNP P63208 PRO 1 ENGINEERED MUTATION SEQRES 1 A 159 ALA SER ILE LYS LEU GLN SER SER ASP GLY GLU ILE PHE SEQRES 2 A 159 GLU VAL ASP VAL GLU ILE ALA LYS GLN SER VAL THR ILE SEQRES 3 A 159 LYS THR MET LEU GLU ASP LEU GLY MET ASP ASP GLU GLY SEQRES 4 A 159 ASP ASP ASP PRO VAL PRO LEU PRO ASN VAL ASN ALA ALA SEQRES 5 A 159 ILE LEU LYS LYS VAL ILE GLN TRP CYS THR HIS HIS LYS SEQRES 6 A 159 ASP ASP PRO PRO PRO PRO GLU ASP ASP GLU ASN LYS GLU SEQRES 7 A 159 LYS ARG THR ASP ASP ILE PRO VAL TRP ASP GLN GLU PHE SEQRES 8 A 159 LEU LYS VAL ASP GLN GLY THR LEU PHE GLU LEU ILE LEU SEQRES 9 A 159 ALA ALA ASN TYR LEU ASP ILE LYS GLY LEU LEU ASP VAL SEQRES 10 A 159 THR CYS LYS THR VAL ALA ASN MET ILE LYS GLY LYS THR SEQRES 11 A 159 PRO GLU GLU ILE ARG LYS THR PHE ASN ILE LYS ASN ASP SEQRES 12 A 159 PHE THR GLU GLU GLU GLU ALA GLN VAL ARG LYS GLU ASN SEQRES 13 A 159 GLN TRP CYS SEQRES 1 B 336 ARG GLU ASN PHE PRO GLY VAL SER TRP ASP SER LEU PRO SEQRES 2 B 336 ASP GLU LEU LEU LEU GLY ILE PHE SER CYS LEU CYS LEU SEQRES 3 B 336 PRO GLU LEU LEU LYS VAL SER GLY VAL CYS LYS ARG TRP SEQRES 4 B 336 TYR ARG LEU ALA SER ASP GLU SER LEU TRP GLN THR LEU SEQRES 5 B 336 ASP LEU THR GLY LYS ASN LEU HIS PRO ASP VAL THR GLY SEQRES 6 B 336 ARG LEU LEU SER GLN GLY VAL ILE ALA PHE ARG CYS PRO SEQRES 7 B 336 ARG SER PHE MET ASP GLN PRO LEU ALA GLU HIS PHE SER SEQRES 8 B 336 PRO PHE ARG VAL GLN HIS MET ASP LEU SER ASN SER VAL SEQRES 9 B 336 ILE GLU VAL SER THR LEU HIS GLY ILE LEU SER GLN CYS SEQRES 10 B 336 SER LYS LEU GLN ASN LEU SER LEU GLU GLY LEU ARG LEU SEQRES 11 B 336 SER ASP PRO ILE VAL ASN THR LEU ALA LYS ASN SER ASN SEQRES 12 B 336 LEU VAL ARG LEU ASN LEU SER GLY CYS SER GLY PHE SER SEQRES 13 B 336 GLU PHE ALA LEU GLN THR LEU LEU SER SER CYS SER ARG SEQRES 14 B 336 LEU ASP GLU LEU ASN LEU SER TRP CYS PHE ASP PHE THR SEQRES 15 B 336 GLU LYS HIS VAL GLN VAL ALA VAL ALA HIS VAL SER GLU SEQRES 16 B 336 THR ILE THR GLN LEU ASN LEU SER GLY TYR ARG LYS ASN SEQRES 17 B 336 LEU GLN LYS SER ASP LEU SER THR LEU VAL ARG ARG CYS SEQRES 18 B 336 PRO ASN LEU VAL HIS LEU ASP LEU SER ASP SER VAL MET SEQRES 19 B 336 LEU LYS ASN ASP CYS PHE GLN GLU PHE PHE GLN LEU ASN SEQRES 20 B 336 TYR LEU GLN HIS LEU SER LEU SER ARG CYS TYR ASP ILE SEQRES 21 B 336 ILE PRO GLU THR LEU LEU GLU LEU GLY GLU ILE PRO THR SEQRES 22 B 336 LEU LYS THR LEU GLN VAL PHE GLY ILE VAL PRO ASP GLY SEQRES 23 B 336 THR LEU GLN LEU LEU LYS GLU ALA LEU PRO HIS LEU GLN SEQRES 24 B 336 ILE ASN CYS SER HIS PHE THR THR ILE ALA ARG PRO THR SEQRES 25 B 336 ILE GLY ASN LYS LYS ASN GLN GLU ILE TRP GLY ILE LYS SEQRES 26 B 336 CYS ARG LEU THR LEU GLN LYS PRO SER CYS LEU SEQRES 1 C 69 GLN ILE TYR TYR SER ASP LYS TYR ASP ASP GLU GLU PHE SEQRES 2 C 69 GLU TYR ARG HIS VAL MET LEU PRO LYS ASP ILE ALA LYS SEQRES 3 C 69 LEU VAL PRO LYS THR HIS LEU MET SER GLU SER GLU TRP SEQRES 4 C 69 ARG ASN LEU GLY VAL GLN GLN SER GLN GLY TRP VAL HIS SEQRES 5 C 69 TYR MET ILE HIS GLU PRO GLU PRO HIS ILE LEU LEU PHE SEQRES 6 C 69 ARG ARG PRO LEU HET PO4 B 3 5 HET PO4 B 5 5 HET BEN B 1 9 HET PO4 C 4 5 HET BEN C 2 9 HETNAM PO4 PHOSPHATE ION HETNAM BEN BENZAMIDINE FORMUL 4 PO4 3(O4 P 3-) FORMUL 6 BEN 2(C7 H8 N2) FORMUL 9 HOH *67(H2 O) HELIX 1 1 VAL A 1018 LYS A 1022 1 5 HELIX 2 2 SER A 1024 ASP A 1033 1 10 HELIX 3 3 ASN A 1045 HIS A 1059 1 15 HELIX 4 4 PRO A 1086 LEU A 1093 1 8 HELIX 5 5 ASP A 1096 ASP A 1111 1 16 HELIX 6 6 ILE A 1112 MET A 1126 1 15 HELIX 7 7 THR A 1131 PHE A 1139 1 9 HELIX 8 8 GLU A 1149 LYS A 1155 1 7 HELIX 9 9 PRO B 2101 SER B 2110 1 10 HELIX 10 10 CYS B 2113 SER B 2121 1 9 HELIX 11 11 TRP B 2127 SER B 2132 1 6 HELIX 12 12 HIS B 2148 SER B 2157 1 10 HELIX 13 13 GLU B 2194 SER B 2203 1 10 HELIX 14 14 SER B 2219 ALA B 2227 1 9 HELIX 15 15 SER B 2244 CYS B 2255 1 12 HELIX 16 16 THR B 2270 VAL B 2281 1 12 HELIX 17 17 GLN B 2298 CYS B 2309 1 12 HELIX 18 18 LYS B 2324 ASP B 2326 5 3 HELIX 19 19 CYS B 2327 GLN B 2333 1 7 HELIX 20 20 ILE B 2349 ILE B 2359 5 11 HELIX 21 21 THR B 2375 LEU B 2383 1 9 HELIX 22 22 ILE C 3028 VAL C 3032 5 5 HELIX 23 23 SER C 3039 GLY C 3047 1 9 SHEET 1 A 3 ILE A1013 ASP A1017 0 SHEET 2 A 3 SER A1003 GLN A1007 -1 N LEU A1006 O PHE A1014 SHEET 3 A 3 VAL A1039 PRO A1040 1 O VAL A1039 N GLN A1007 SHEET 1 B12 GLN B2387 ILE B2388 0 SHEET 2 B12 THR B2364 GLN B2366 1 N LEU B2365 O GLN B2387 SHEET 3 B12 HIS B2339 SER B2341 1 N LEU B2340 O GLN B2366 SHEET 4 B12 HIS B2314 ASP B2316 1 N LEU B2315 O HIS B2339 SHEET 5 B12 GLN B2287 ASN B2289 1 N LEU B2288 O ASP B2316 SHEET 6 B12 GLU B2260 ASN B2262 1 N LEU B2261 O GLN B2287 SHEET 7 B12 ARG B2234 ASN B2236 1 N LEU B2235 O ASN B2262 SHEET 8 B12 ASN B2210 SER B2212 1 N LEU B2211 O ARG B2234 SHEET 9 B12 HIS B2185 ASP B2187 1 N MET B2186 O ASN B2210 SHEET 10 B12 ALA B2162 ARG B2164 1 N PHE B2163 O HIS B2185 SHEET 11 B12 THR B2139 ASP B2141 1 N LEU B2140 O ARG B2164 SHEET 12 B12 LEU B2416 THR B2417 1 O LEU B2416 N ASP B2141 SHEET 1 C 2 PHE B2169 MET B2170 0 SHEET 2 C 2 VAL B2192 ILE B2193 1 O VAL B2192 N MET B2170 SHEET 1 D 2 GLU B2408 ILE B2409 0 SHEET 2 D 2 ILE B2412 LYS B2413 -1 O ILE B2412 N ILE B2409 SHEET 1 E 3 TYR C3007 TYR C3008 0 SHEET 2 E 3 PHE C3017 MET C3023 -1 O MET C3023 N TYR C3007 SHEET 3 E 3 TYR C3012 ASP C3013 -1 N TYR C3012 O TYR C3019 SHEET 1 F 4 TYR C3007 TYR C3008 0 SHEET 2 F 4 PHE C3017 MET C3023 -1 O MET C3023 N TYR C3007 SHEET 3 F 4 ILE C3066 PRO C3072 -1 O PHE C3069 N ARG C3020 SHEET 4 F 4 VAL C3055 ILE C3059 -1 N VAL C3055 O ARG C3070 SITE 1 AC1 5 HOH B 67 HIS B2199 SER B2203 THR B2225 SITE 2 AC1 5 PRO C3062 SITE 1 AC2 6 HOH C 72 LYS C3011 ARG C3020 GLN C3050 SITE 2 AC2 6 SER C3051 TRP C3054 SITE 1 AC3 7 ASN B2190 GLU B2214 GLY B2215 LEU C3037 SITE 2 AC3 7 MET C3038 SER C3039 HIS C3056 SITE 1 AC4 6 HOH B 22 HOH B 38 ALA B2227 SER B2254 SITE 2 AC4 6 HIS C3060 GLU C3063 SITE 1 AC5 4 PHE B2169 VAL B2192 TYR C3057 MET C3058 CRYST1 149.332 149.332 99.916 90.00 90.00 120.00 P 32 2 1 6 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 0.006696 0.003866 0.000000 0.00000 SCALE2 0.000000 0.007732 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010008 0.00000