HEADER TRANSFERASE 04-JAN-07 2JD5 TITLE SKY1P BOUND TO NPL3P-DERIVED SUBSTRATE PEPTIDE COMPND MOL_ID: 1; COMPND 2 MOLECULE: SERINE/THREONINE-PROTEIN KINASE SKY1; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: RESIDUES 138-306,539-742; COMPND 5 SYNONYM: SKY1P, SRPK; COMPND 6 EC: 2.7.11.1; COMPND 7 ENGINEERED: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: NUCLEOLAR PROTEIN 3; COMPND 10 CHAIN: C; COMPND 11 FRAGMENT: UNP RESIDUES 408-414; COMPND 12 SYNONYM: MITOCHONDRIAL TARGETING SUPPRESSOR 1 PROTEIN, NUCLEAR COMPND 13 POLYADENYLATED RNA-BINDING PROTEIN 1, NPL3P; COMPND 14 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE; SOURCE 3 ORGANISM_COMMON: BAKER'S YEAST; SOURCE 4 ORGANISM_TAXID: 4932; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PET15B; SOURCE 9 MOL_ID: 2; SOURCE 10 SYNTHETIC: YES; SOURCE 11 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE; SOURCE 12 ORGANISM_COMMON: BAKER'S YEAST; SOURCE 13 ORGANISM_TAXID: 4932 KEYWDS MRNA EXPORT PROTEIN, SERINE/THREONINE-PROTEIN KINASE, KINASE, KEYWDS 2 TRANSFERASE, ATP-BINDING, NUCLEOTIDE-BINDING EXPDTA X-RAY DIFFRACTION AUTHOR B.NOLEN,R.LUKASIEWICZ,J.A.ADAMS,D.HUANG,G.GHOSH REVDAT 5 13-DEC-23 2JD5 1 REMARK LINK REVDAT 4 11-JAN-17 2JD5 1 COMPND SOURCE KEYWDS JRNL REVDAT 4 2 1 REMARK VERSN DBREF SEQADV REVDAT 4 3 1 FORMUL MASTER REVDAT 3 24-FEB-09 2JD5 1 VERSN REVDAT 2 06-MAR-07 2JD5 1 AUTHOR JRNL REMARK MASTER REVDAT 1 06-FEB-07 2JD5 0 JRNL AUTH R.LUKASIEWICZ,B.NOLEN,J.A.ADAMS,G.GHOSH JRNL TITL THE RGG DOMAIN OF NPL3P RECRUITS SKY1P THROUGH DOCKING JRNL TITL 2 INTERACTIONS JRNL REF J.MOL.BIOL. V. 367 249 2007 JRNL REFN ISSN 0022-2836 JRNL PMID 17239901 JRNL DOI 10.1016/J.JMB.2006.12.031 REMARK 2 REMARK 2 RESOLUTION. 2.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.1 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.99 REMARK 3 DATA CUTOFF (SIGMA(F)) : 2.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 344404.560 REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 82.3 REMARK 3 NUMBER OF REFLECTIONS : 25101 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) : 0.210 REMARK 3 FREE R VALUE : 0.255 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 1224 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.007 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) : 2.50 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.66 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 61.20 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 2909 REMARK 3 BIN R VALUE (WORKING SET) : 0.2430 REMARK 3 BIN FREE R VALUE : 0.2920 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 4.80 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 146 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.024 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5775 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 12 REMARK 3 SOLVENT ATOMS : 133 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 23.40 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 34.30 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 3.69000 REMARK 3 B22 (A**2) : -5.28000 REMARK 3 B33 (A**2) : 1.59000 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 COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.28 REMARK 3 ESD FROM SIGMAA (A) : 0.23 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) : 0.35 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.30 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.007 REMARK 3 BOND ANGLES (DEGREES) : 1.200 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 22.00 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.740 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) : 1.320 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 2.220 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 3.050 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 3.980 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.35 REMARK 3 BSOL : 28.70 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 : ION.PARAM REMARK 3 PARAMETER FILE 4 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : WATER.TOP REMARK 3 TOPOLOGY FILE 3 : ION.TOP REMARK 3 TOPOLOGY FILE 4 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2JD5 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 04-JAN-07. REMARK 100 THE DEPOSITION ID IS D_1290030988. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 09-MAY-02 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 7.00 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 19-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 30449 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.500 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 200 DATA REDUNDANCY : 3.500 REMARK 200 R MERGE (I) : 0.10000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 8.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.60 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.6 REMARK 200 DATA REDUNDANCY IN SHELL : 2.00 REMARK 200 R MERGE FOR SHELL (I) : 0.53000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.600 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 1HOW REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 49.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.50 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.5M AMMONIUM SULFATE, 10% ETHYLENE REMARK 280 GLYCOL, 10 MM SODIUM ACETATE PH 4.5, PH 7.00 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 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 36.16400 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 67.20400 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 44.27900 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 67.20400 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 36.16400 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 44.27900 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PQS 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 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 138 REMARK 465 TYR A 139 REMARK 465 ARG A 140 REMARK 465 PRO A 141 REMARK 465 GLY A 142 REMARK 465 GLY A 143 REMARK 465 GLU A 605 REMARK 465 PRO A 606 REMARK 465 ASP A 607 REMARK 465 GLU A 608 REMARK 465 GLY A 609 REMARK 465 HIS A 610 REMARK 465 SER A 611 REMARK 465 TYR A 612 REMARK 465 ARG A 647 REMARK 465 GLY A 648 REMARK 465 HIS A 739 REMARK 465 LYS A 740 REMARK 465 ARG A 741 REMARK 465 HIS A 742 REMARK 465 ASP B 138 REMARK 465 TYR B 139 REMARK 465 ARG B 140 REMARK 465 PRO B 141 REMARK 465 GLY B 142 REMARK 465 GLY B 143 REMARK 465 PHE B 144 REMARK 465 HIS B 145 REMARK 465 ASP B 738 REMARK 465 HIS B 739 REMARK 465 LYS B 740 REMARK 465 ARG B 741 REMARK 465 HIS B 742 REMARK 465 THR C 660 REMARK 465 ARG C 661 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 TRP A 166 CG CD1 CD2 NE1 CE2 CE3 CZ2 REMARK 470 TRP A 166 CZ3 CH2 REMARK 470 HIS A 168 CG ND1 CD2 CE1 NE2 REMARK 470 LYS A 614 CG CD CE NZ REMARK 470 LEU A 649 CG CD1 CD2 REMARK 470 ASN A 652 CG OD1 ND2 REMARK 470 TRP B 166 CG CD1 CD2 NE1 CE2 CE3 CZ2 REMARK 470 TRP B 166 CZ3 CH2 REMARK 470 HIS B 168 CG ND1 CD2 CE1 NE2 REMARK 470 ARG B 647 CG CD NE CZ NH1 NH2 REMARK 470 ARG C 654 CG CD NE CZ NH1 NH2 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 A 154 81.24 41.54 REMARK 500 VAL A 161 -54.72 -130.56 REMARK 500 ASP A 192 145.83 159.56 REMARK 500 ASP A 213 81.46 -69.21 REMARK 500 LEU A 226 100.19 -57.80 REMARK 500 LEU A 249 -12.00 -141.86 REMARK 500 GLU A 261 45.90 39.47 REMARK 500 HIS A 262 19.83 46.54 REMARK 500 THR A 293 -12.78 66.49 REMARK 500 ASP A 294 53.90 -141.51 REMARK 500 ASP A 550 74.56 65.32 REMARK 500 LEU A 551 31.24 -89.83 REMARK 500 GLU A 559 88.59 -158.21 REMARK 500 GLN A 566 141.24 63.37 REMARK 500 LYS A 614 -128.59 -69.13 REMARK 500 ASN A 645 -56.39 176.90 REMARK 500 SER A 654 -85.06 -93.35 REMARK 500 ARG A 694 128.57 -36.44 REMARK 500 MET A 712 12.46 -141.97 REMARK 500 TYR A 723 -9.94 84.69 REMARK 500 SER A 727 6.47 -60.81 REMARK 500 LYS B 154 74.86 34.88 REMARK 500 SER B 170 -144.17 -165.34 REMARK 500 MET B 178 -2.00 -59.35 REMARK 500 LEU B 226 95.29 -67.21 REMARK 500 HIS B 262 23.50 46.25 REMARK 500 THR B 293 -7.32 75.62 REMARK 500 ASP B 294 47.57 -145.07 REMARK 500 VAL B 305 -72.04 -72.47 REMARK 500 ASP B 550 84.96 53.62 REMARK 500 LEU B 551 33.80 -89.10 REMARK 500 GLU B 559 101.27 -163.90 REMARK 500 GLN B 566 148.81 63.55 REMARK 500 ARG B 568 -79.97 -15.48 REMARK 500 ARG B 647 -7.76 -55.73 REMARK 500 SER B 654 -77.77 -86.85 REMARK 500 MET B 712 25.46 -149.46 REMARK 500 TYR B 723 -1.15 79.57 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 A1739 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN A 299 OD1 REMARK 620 2 ASP A 550 OD2 77.0 REMARK 620 3 HOH A2013 O 112.6 139.7 REMARK 620 N 1 2 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 1739 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 1740 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 1738 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 1739 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1HOW RELATED DB: PDB REMARK 900 THE X-RAY CRYSTAL STRUCTURE OF SKY1P, AN SR PROTEIN KINASEIN YEAST REMARK 900 RELATED ID: 1Q8Y RELATED DB: PDB REMARK 900 THE STRUCTURE OF THE YEAST SR PROTEIN KINASE, SKY1P, WITHBOUND ADP REMARK 900 RELATED ID: 1Q8Z RELATED DB: PDB REMARK 900 THE APOENZYME STRUCTURE OF THE YEAST SR PROTEIN KINASE,SKY1P REMARK 900 RELATED ID: 1Q97 RELATED DB: PDB REMARK 900 THE STRUCTURE OF THE SACCHAROMYCES CEREVISIAE SR PROTEINKINASE, REMARK 900 SKY1P, WITH BOUND ATP REMARK 900 RELATED ID: 1Q99 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE SACCHAROMYCES CEREVISIAE SRPROTEIN KINSAE, REMARK 900 SKY1P, COMPLEXED WITH THE NON-HYDROLYZABLEATP ANALOGUE, AMP- PNP REMARK 999 REMARK 999 SEQUENCE REMARK 999 THIS CONSTRUCT LACKS THE N-TERMINUS (1-137) AS WELL AS THE REMARK 999 SPACER DOMAIN (305-540) REMARK 999 PEPTIDE C CONTAINS THE LAST 7 AMINO ACIDS OF NPL3P DBREF 2JD5 A 138 306 UNP Q03656 SKY1_YEAST 138 306 DBREF 2JD5 A 539 742 UNP Q03656 SKY1_YEAST 539 742 DBREF 2JD5 B 138 306 UNP Q03656 SKY1_YEAST 138 306 DBREF 2JD5 B 539 742 UNP Q03656 SKY1_YEAST 539 742 DBREF 2JD5 C 654 661 UNP Q01560 NOP3_YEAST 408 414 SEQADV 2JD5 PHE A 144 UNP Q03656 TYR 144 CONFLICT SEQADV 2JD5 VAL A 305 UNP Q03656 ILE 537 CONFLICT SEQADV 2JD5 ASP A 306 UNP Q03656 ASN 538 CONFLICT SEQADV 2JD5 PHE B 144 UNP Q03656 TYR 144 CONFLICT SEQADV 2JD5 VAL B 305 UNP Q03656 ILE 537 CONFLICT SEQADV 2JD5 ASP B 306 UNP Q03656 ASN 538 CONFLICT SEQRES 1 A 373 ASP TYR ARG PRO GLY GLY PHE HIS PRO ALA PHE LYS GLY SEQRES 2 A 373 GLU PRO TYR LYS ASP ALA ARG TYR ILE LEU VAL ARG LYS SEQRES 3 A 373 LEU GLY TRP GLY HIS PHE SER THR VAL TRP LEU ALA LYS SEQRES 4 A 373 ASP MET VAL ASN ASN THR HIS VAL ALA MET LYS ILE VAL SEQRES 5 A 373 ARG GLY ASP LYS VAL TYR THR GLU ALA ALA GLU ASP GLU SEQRES 6 A 373 ILE LYS LEU LEU GLN ARG VAL ASN ASP ALA ASP ASN THR SEQRES 7 A 373 LYS GLU ASP SER MET GLY ALA ASN HIS ILE LEU LYS LEU SEQRES 8 A 373 LEU ASP HIS PHE ASN HIS LYS GLY PRO ASN GLY VAL HIS SEQRES 9 A 373 VAL VAL MET VAL PHE GLU VAL LEU GLY GLU ASN LEU LEU SEQRES 10 A 373 ALA LEU ILE LYS LYS TYR GLU HIS ARG GLY ILE PRO LEU SEQRES 11 A 373 ILE TYR VAL LYS GLN ILE SER LYS GLN LEU LEU LEU GLY SEQRES 12 A 373 LEU ASP TYR MET HIS ARG ARG CYS GLY ILE ILE HIS THR SEQRES 13 A 373 ASP ILE LYS PRO GLU ASN VAL LEU MET GLU ILE VAL ASP SEQRES 14 A 373 SER PRO GLU ASN LEU ILE GLN ILE LYS ILE ALA ASP LEU SEQRES 15 A 373 GLY ASN ALA CYS TRP TYR ASP GLU HIS TYR THR ASN SER SEQRES 16 A 373 ILE GLN THR ARG GLU TYR ARG SER PRO GLU VAL LEU LEU SEQRES 17 A 373 GLY ALA PRO TRP GLY CYS GLY ALA ASP ILE TRP SER THR SEQRES 18 A 373 ALA CYS LEU ILE PHE GLU LEU ILE THR GLY ASP PHE LEU SEQRES 19 A 373 PHE GLU PRO ASP GLU GLY HIS SER TYR THR LYS ASP ASP SEQRES 20 A 373 ASP HIS ILE ALA GLN ILE ILE GLU LEU LEU GLY GLU LEU SEQRES 21 A 373 PRO SER TYR LEU LEU ARG ASN GLY LYS TYR THR ARG THR SEQRES 22 A 373 PHE PHE ASN SER ARG GLY LEU LEU ARG ASN ILE SER LYS SEQRES 23 A 373 LEU LYS PHE TRP PRO LEU GLU ASP VAL LEU THR GLU LYS SEQRES 24 A 373 TYR LYS PHE SER LYS ASP GLU ALA LYS GLU ILE SER ASP SEQRES 25 A 373 PHE LEU SER PRO MET LEU GLN LEU ASP PRO ARG LYS ARG SEQRES 26 A 373 ALA ASP ALA GLY GLY LEU VAL ASN HIS PRO TRP LEU LYS SEQRES 27 A 373 ASP THR LEU GLY MET GLU GLU ILE ARG VAL PRO ASP ARG SEQRES 28 A 373 GLU LEU TYR GLY SER GLY SER ASP ILE PRO GLY TRP PHE SEQRES 29 A 373 GLU GLU VAL ARG ASP HIS LYS ARG HIS SEQRES 1 B 373 ASP TYR ARG PRO GLY GLY PHE HIS PRO ALA PHE LYS GLY SEQRES 2 B 373 GLU PRO TYR LYS ASP ALA ARG TYR ILE LEU VAL ARG LYS SEQRES 3 B 373 LEU GLY TRP GLY HIS PHE SER THR VAL TRP LEU ALA LYS SEQRES 4 B 373 ASP MET VAL ASN ASN THR HIS VAL ALA MET LYS ILE VAL SEQRES 5 B 373 ARG GLY ASP LYS VAL TYR THR GLU ALA ALA GLU ASP GLU SEQRES 6 B 373 ILE LYS LEU LEU GLN ARG VAL ASN ASP ALA ASP ASN THR SEQRES 7 B 373 LYS GLU ASP SER MET GLY ALA ASN HIS ILE LEU LYS LEU SEQRES 8 B 373 LEU ASP HIS PHE ASN HIS LYS GLY PRO ASN GLY VAL HIS SEQRES 9 B 373 VAL VAL MET VAL PHE GLU VAL LEU GLY GLU ASN LEU LEU SEQRES 10 B 373 ALA LEU ILE LYS LYS TYR GLU HIS ARG GLY ILE PRO LEU SEQRES 11 B 373 ILE TYR VAL LYS GLN ILE SER LYS GLN LEU LEU LEU GLY SEQRES 12 B 373 LEU ASP TYR MET HIS ARG ARG CYS GLY ILE ILE HIS THR SEQRES 13 B 373 ASP ILE LYS PRO GLU ASN VAL LEU MET GLU ILE VAL ASP SEQRES 14 B 373 SER PRO GLU ASN LEU ILE GLN ILE LYS ILE ALA ASP LEU SEQRES 15 B 373 GLY ASN ALA CYS TRP TYR ASP GLU HIS TYR THR ASN SER SEQRES 16 B 373 ILE GLN THR ARG GLU TYR ARG SER PRO GLU VAL LEU LEU SEQRES 17 B 373 GLY ALA PRO TRP GLY CYS GLY ALA ASP ILE TRP SER THR SEQRES 18 B 373 ALA CYS LEU ILE PHE GLU LEU ILE THR GLY ASP PHE LEU SEQRES 19 B 373 PHE GLU PRO ASP GLU GLY HIS SER TYR THR LYS ASP ASP SEQRES 20 B 373 ASP HIS ILE ALA GLN ILE ILE GLU LEU LEU GLY GLU LEU SEQRES 21 B 373 PRO SER TYR LEU LEU ARG ASN GLY LYS TYR THR ARG THR SEQRES 22 B 373 PHE PHE ASN SER ARG GLY LEU LEU ARG ASN ILE SER LYS SEQRES 23 B 373 LEU LYS PHE TRP PRO LEU GLU ASP VAL LEU THR GLU LYS SEQRES 24 B 373 TYR LYS PHE SER LYS ASP GLU ALA LYS GLU ILE SER ASP SEQRES 25 B 373 PHE LEU SER PRO MET LEU GLN LEU ASP PRO ARG LYS ARG SEQRES 26 B 373 ALA ASP ALA GLY GLY LEU VAL ASN HIS PRO TRP LEU LYS SEQRES 27 B 373 ASP THR LEU GLY MET GLU GLU ILE ARG VAL PRO ASP ARG SEQRES 28 B 373 GLU LEU TYR GLY SER GLY SER ASP ILE PRO GLY TRP PHE SEQRES 29 B 373 GLU GLU VAL ARG ASP HIS LYS ARG HIS SEQRES 1 C 7 ARG GLU ARG SER PRO THR ARG HET MG A1739 1 HET SO4 A1740 5 HET SO4 B1738 5 HET MG B1739 1 HETNAM MG MAGNESIUM ION HETNAM SO4 SULFATE ION FORMUL 4 MG 2(MG 2+) FORMUL 5 SO4 2(O4 S 2-) FORMUL 8 HOH *133(H2 O) HELIX 1 1 ASP A 192 ASP A 213 1 22 HELIX 2 2 THR A 215 ASN A 223 1 9 HELIX 3 3 LEU A 253 TYR A 260 1 8 HELIX 4 4 PRO A 266 ARG A 287 1 22 HELIX 5 5 LYS A 296 GLU A 298 5 3 HELIX 6 6 SER A 539 ASN A 542 5 4 HELIX 7 7 SER A 572 GLY A 578 1 7 HELIX 8 8 CYS A 583 GLY A 600 1 18 HELIX 9 9 ASP A 615 GLY A 627 1 13 HELIX 10 10 PRO A 630 GLY A 637 1 8 HELIX 11 11 TYR A 639 PHE A 644 1 6 HELIX 12 12 PRO A 660 LYS A 668 1 9 HELIX 13 13 SER A 672 SER A 684 1 13 HELIX 14 14 PRO A 685 GLN A 688 5 4 HELIX 15 15 ASP A 696 ASN A 702 1 7 HELIX 16 16 HIS A 703 LYS A 707 5 5 HELIX 17 17 ASP B 192 ALA B 212 1 21 HELIX 18 18 THR B 215 ASN B 223 1 9 HELIX 19 19 ASN B 252 TYR B 260 1 9 HELIX 20 20 PRO B 266 ARG B 286 1 21 HELIX 21 21 LYS B 296 GLU B 298 5 3 HELIX 22 22 SER B 539 ASN B 542 5 4 HELIX 23 23 THR B 567 ARG B 571 5 5 HELIX 24 24 SER B 572 LEU B 577 1 6 HELIX 25 25 CYS B 583 GLY B 600 1 18 HELIX 26 26 THR B 613 GLY B 627 1 15 HELIX 27 27 PRO B 630 GLY B 637 1 8 HELIX 28 28 TYR B 639 PHE B 644 1 6 HELIX 29 29 PRO B 660 LYS B 668 1 9 HELIX 30 30 SER B 672 SER B 684 1 13 HELIX 31 31 ASP B 696 VAL B 701 1 6 HELIX 32 32 ASN B 702 LYS B 707 5 6 SHEET 1 AA 6 PRO A 152 TYR A 153 0 SHEET 2 AA 6 TYR A 158 TRP A 166 -1 O TYR A 158 N TYR A 153 SHEET 3 AA 6 SER A 170 ASP A 177 -1 O VAL A 172 N LEU A 164 SHEET 4 AA 6 THR A 182 VAL A 189 -1 O THR A 182 N ASP A 177 SHEET 5 AA 6 GLY A 239 PHE A 246 -1 O VAL A 242 N VAL A 189 SHEET 6 AA 6 ASP A 230 GLY A 236 -1 O ASP A 230 N VAL A 245 SHEET 1 AB 3 GLU A 251 ASN A 252 0 SHEET 2 AB 3 VAL A 300 ASP A 306 -1 O MET A 302 N GLU A 251 SHEET 3 AB 3 LEU A 543 ILE A 548 -1 O LEU A 543 N ASP A 306 SHEET 1 AC 2 ILE A 290 ILE A 291 0 SHEET 2 AC 2 CYS A 555 TRP A 556 -1 O CYS A 555 N ILE A 291 SHEET 1 BA 6 PRO B 152 TYR B 153 0 SHEET 2 BA 6 TYR B 158 LYS B 163 -1 O TYR B 158 N TYR B 153 SHEET 3 BA 6 VAL B 172 ASP B 177 -1 O LEU B 174 N VAL B 161 SHEET 4 BA 6 THR B 182 ILE B 188 -1 O THR B 182 N ASP B 177 SHEET 5 BA 6 GLY B 239 PHE B 246 -1 O MET B 244 N LYS B 187 SHEET 6 BA 6 LEU B 228 GLY B 236 -1 N LEU B 229 O VAL B 245 SHEET 1 BB 2 ILE B 290 ILE B 291 0 SHEET 2 BB 2 CYS B 555 TRP B 556 -1 O CYS B 555 N ILE B 291 SHEET 1 BC 2 VAL B 300 ASP B 306 0 SHEET 2 BC 2 LEU B 543 ILE B 548 -1 O LEU B 543 N VAL B 305 LINK OD1 ASN A 299 MG MG A1739 1555 1555 2.70 LINK OD2 ASP A 550 MG MG A1739 1555 1555 2.07 LINK MG MG A1739 O HOH A2013 1555 1555 2.75 LINK OD2 ASP B 550 MG MG B1739 1555 1555 2.32 SITE 1 AC1 3 ASN A 299 ASP A 550 HOH A2013 SITE 1 AC2 9 TYR A 153 LYS A 154 ASP A 155 PHE A 232 SITE 2 AC2 9 ASN A 233 HIS A 234 LYS A 235 HOH A2054 SITE 3 AC2 9 HOH A2055 SITE 1 AC3 10 PRO B 152 TYR B 153 LYS B 154 ASP B 155 SITE 2 AC3 10 PHE B 232 ASN B 233 HIS B 234 LYS B 235 SITE 3 AC3 10 HOH B2077 HOH B2078 SITE 1 AC4 1 ASP B 550 CRYST1 72.328 88.558 134.408 90.00 90.00 90.00 P 21 21 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 0.013826 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011292 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007440 0.00000