HEADER SPLICING 19-JAN-15 2MY1 TITLE SOLUTION STRUCTURE OF BUD31P COMPND MOL_ID: 1; COMPND 2 MOLECULE: PRE-MRNA-SPLICING FACTOR BUD31; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: BUD SITE SELECTION PROTEIN 31, COMPLEXED WITH CEF1 PROTEIN COMPND 5 14; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE S288C; SOURCE 3 ORGANISM_COMMON: BAKER'S YEAST; SOURCE 4 ORGANISM_TAXID: 559292; SOURCE 5 STRAIN: ATCC 204508 / S288C; SOURCE 6 GENE: BUD31, CWC14, YCR063W, YCR63W, YCR903; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 10 EXPRESSION_SYSTEM_VARIANT: RIL CODONPLUS; SOURCE 11 EXPRESSION_SYSTEM_VECTOR: PRK172; SOURCE 12 OTHER_DETAILS: PROTEIN WAS EXPRESSED AS AN N-TERMINAL GLUTATHIONE S SOURCE 13 TRANSFERASE FUSION PROTEIN KEYWDS ZINC CLUSTER, SPLICING PROTEIN, ZINC FINGER, SPLICING EXPDTA SOLUTION NMR NUMMDL 35 AUTHOR A.M.VAN ROON,J.YANG,D.MATHIEU,W.BERMEL,K.NAGAI,D.NEUHAUS REVDAT 3 14-JUN-23 2MY1 1 REMARK SEQADV LINK REVDAT 2 22-APR-15 2MY1 1 JRNL REVDAT 1 11-MAR-15 2MY1 0 JRNL AUTH A.M.VAN ROON,J.C.YANG,D.MATHIEU,W.BERMEL,K.NAGAI,D.NEUHAUS JRNL TITL (113) CD NMR EXPERIMENTS REVEAL AN UNUSUAL METAL CLUSTER IN JRNL TITL 2 THE SOLUTION STRUCTURE OF THE YEAST SPLICING PROTEIN BUD31P. JRNL REF ANGEW.CHEM.INT.ED.ENGL. V. 54 4861 2015 JRNL REFN ISSN 1433-7851 JRNL PMID 25703931 JRNL DOI 10.1002/ANIE.201412210 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : TOPSPIN 3.1, X-PLOR NIH REMARK 3 AUTHORS : BRUKER BIOSPIN (TOPSPIN) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2MY1 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 26-JAN-15. REMARK 100 THE DEPOSITION ID IS D_1000104186. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 300 REMARK 210 PH : 6.5 REMARK 210 IONIC STRENGTH : 0.27 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 0.3-0.5 MM [U-98% 13C; U-98% REMARK 210 15N] BUD31P (ZN)3, 20 MM SODIUM REMARK 210 PHOSPHATE, 150 MM SODIUM REMARK 210 CHLORIDE, 1 MM [U-2H] DTT, 95% REMARK 210 H2O/5% D2O; 0.3-0.5 MM [U-98% REMARK 210 13C; U-98% 15N] BUD31P (ZN)3, 20 REMARK 210 MM SODIUM PHOSPHATE, 150 MM REMARK 210 SODIUM CHLORIDE, 1 MM [U-2H] DTT, REMARK 210 100% D2O; 0.3-0.5 MM [U-98% 15N] REMARK 210 BUD31P (ZN)3, 20 MM SODIUM REMARK 210 PHOSPHATE, 150 MM SODIUM REMARK 210 CHLORIDE, 1 MM [U-2H] DTT, 95% REMARK 210 H2O/5% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 2D 1H-13C HSQC; REMARK 210 2D 1H-13C HSQC ALIPHATIC REMARK 210 (CONSTANT-TIME); 2D 1H-13C HSQC REMARK 210 AROMATIC (CONSTANT-TIME); 2D 1H- REMARK 210 1H NOESY; 3D HNCACB; 3D CBCA(CO) REMARK 210 NH; 3D HBHANH; 3D HBHA(CO)NH; 3D REMARK 210 HCCH-COSY; 3D HCCH-TOCSY; 3D REMARK 210 HNHB; 3D HACAHB; 3D 1H-15N NOESY REMARK 210 (50MS MIXING); 3D 1H-13C NOESY REMARK 210 ALIPHATIC (50MS MIXING); 3D 1H- REMARK 210 13C NOESY AROMATIC (50MS MIXING); REMARK 210 3D 1H-15N NOESY (150MS MIXING); REMARK 210 3D 1H-13C NOESY ALIPHATIC (150MS REMARK 210 MIXING); 3D 1H-13C NOESY REMARK 210 AROMATIC (150MS MIXING) REMARK 210 SPECTROMETER FIELD STRENGTH : 800 MHZ; 600 MHZ; 500 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE AVI; DMX; DRX REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : SPARKY 3.115, X-PLOR NIH 2.28 REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 50 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 35 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LOWEST REMARK 210 ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: NULL REMARK 215 REMARK 215 NMR STUDY REMARK 215 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM SOLUTION REMARK 215 NMR DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE THAT REMARK 215 CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES ON REMARK 215 THESE RECORDS ARE MEANINGLESS. 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: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A 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 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 1 LYS A 40 95.17 52.89 REMARK 500 1 LYS A 44 74.79 52.87 REMARK 500 1 LYS A 69 -59.28 -120.35 REMARK 500 1 LYS A 85 75.07 74.60 REMARK 500 1 TYR A 86 -63.42 -135.94 REMARK 500 1 LYS A 97 -177.18 -54.17 REMARK 500 1 TYR A 100 64.03 -105.64 REMARK 500 1 LYS A 102 71.24 -108.23 REMARK 500 1 ILE A 109 37.26 -159.07 REMARK 500 1 ASN A 115 -58.04 -121.19 REMARK 500 1 SER A 118 76.56 -116.81 REMARK 500 1 SER A 141 85.95 -170.24 REMARK 500 1 HIS A 143 -61.08 -140.63 REMARK 500 1 CYS A 148 -165.93 -125.83 REMARK 500 1 ARG A 151 49.78 -98.67 REMARK 500 2 ARG A 3 -59.83 -127.27 REMARK 500 2 ARG A 8 -58.82 -144.32 REMARK 500 2 SER A 9 -165.17 -115.31 REMARK 500 2 SER A 39 -60.15 -143.36 REMARK 500 2 LEU A 41 50.87 -113.12 REMARK 500 2 LYS A 69 -59.38 -124.88 REMARK 500 2 LYS A 85 69.57 76.34 REMARK 500 2 TYR A 86 -63.10 -132.04 REMARK 500 2 LYS A 97 -176.91 -53.69 REMARK 500 2 TYR A 100 71.94 -119.97 REMARK 500 2 ILE A 109 38.66 -158.36 REMARK 500 2 SER A 141 95.16 -169.26 REMARK 500 2 HIS A 143 -61.12 -138.43 REMARK 500 2 CYS A 148 -163.80 -124.17 REMARK 500 2 ARG A 151 43.44 -101.09 REMARK 500 2 SER A 155 42.39 -104.51 REMARK 500 2 THR A 156 -55.64 -159.64 REMARK 500 3 LEU A 41 58.43 -116.51 REMARK 500 3 ALA A 42 -62.82 -135.13 REMARK 500 3 LYS A 85 79.42 73.56 REMARK 500 3 TYR A 86 -64.92 -137.35 REMARK 500 3 LYS A 97 -178.82 -53.31 REMARK 500 3 TYR A 100 57.88 -91.71 REMARK 500 3 ILE A 109 38.31 -158.14 REMARK 500 3 GLN A 110 72.45 -69.58 REMARK 500 3 ASN A 112 -58.80 -173.46 REMARK 500 3 GLU A 113 -60.13 -136.12 REMARK 500 3 THR A 114 -169.74 -108.01 REMARK 500 3 SER A 141 75.73 -169.30 REMARK 500 3 HIS A 143 -60.91 -139.54 REMARK 500 3 ARG A 151 53.02 -97.40 REMARK 500 3 SER A 155 41.78 -104.37 REMARK 500 3 THR A 156 -55.65 -160.34 REMARK 500 4 ILE A 4 60.86 -157.02 REMARK 500 4 THR A 6 47.08 -145.36 REMARK 500 REMARK 500 THIS ENTRY HAS 551 RAMACHANDRAN OUTLIERS. 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 ZN A1000 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 104 SG REMARK 620 2 CYS A 105 SG 105.7 REMARK 620 3 CYS A 108 SG 106.4 117.3 REMARK 620 4 CYS A 148 SG 115.3 104.4 108.2 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A1001 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 104 SG REMARK 620 2 CYS A 122 SG 113.1 REMARK 620 3 CYS A 150 SG 109.2 112.9 REMARK 620 4 CYS A 153 SG 107.9 106.6 106.8 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A1002 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 108 SG REMARK 620 2 CYS A 120 SG 107.3 REMARK 620 3 CYS A 122 SG 114.3 110.9 REMARK 620 4 CYS A 145 SG 111.8 104.2 107.9 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 1000 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 1001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 1002 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 25439 RELATED DB: BMRB DBREF 2MY1 A 2 157 UNP P25337 BUD31_YEAST 2 157 SEQADV 2MY1 GLY A -1 UNP P25337 EXPRESSION TAG SEQADV 2MY1 GLY A 0 UNP P25337 EXPRESSION TAG SEQADV 2MY1 SER A 1 UNP P25337 EXPRESSION TAG SEQRES 1 A 159 GLY GLY SER PRO ARG ILE LYS THR ARG ARG SER LYS PRO SEQRES 2 A 159 ALA PRO ASP GLY PHE GLU LYS ILE LYS PRO THR LEU THR SEQRES 3 A 159 ASP PHE GLU ILE GLN LEU ARG ASP ALA GLN LYS ASP LYS SEQRES 4 A 159 SER SER LYS LEU ALA ALA LYS SER ASN GLU GLN LEU TRP SEQRES 5 A 159 GLU ILE MET GLN LEU HIS HIS GLN ARG SER ARG TYR ILE SEQRES 6 A 159 TYR THR LEU TYR TYR LYS ARG LYS ALA ILE SER LYS ASP SEQRES 7 A 159 LEU TYR ASP TRP LEU ILE LYS GLU LYS TYR ALA ASP LYS SEQRES 8 A 159 LEU LEU ILE ALA LYS TRP ARG LYS THR GLY TYR GLU LYS SEQRES 9 A 159 LEU CYS CYS LEU ARG CYS ILE GLN LYS ASN GLU THR ASN SEQRES 10 A 159 ASN GLY SER THR CYS ILE CYS ARG VAL PRO ARG ALA GLN SEQRES 11 A 159 LEU GLU GLU GLU ALA ARG LYS LYS GLY THR GLN VAL SER SEQRES 12 A 159 PHE HIS GLN CYS VAL HIS CYS GLY CYS ARG GLY CYS ALA SEQRES 13 A 159 SER THR ASP HET ZN A1000 1 HET ZN A1001 1 HET ZN A1002 1 HETNAM ZN ZINC ION FORMUL 2 ZN 3(ZN 2+) HELIX 1 1 ASP A 14 ILE A 19 1 6 HELIX 2 2 ILE A 19 SER A 39 1 21 HELIX 3 3 SER A 45 LYS A 69 1 25 HELIX 4 4 SER A 74 GLU A 84 1 11 HELIX 5 5 ASP A 88 LYS A 97 1 10 HELIX 6 6 PRO A 125 LYS A 136 1 12 LINK SG CYS A 104 ZN ZN A1000 1555 1555 2.30 LINK SG CYS A 104 ZN ZN A1001 1555 1555 2.32 LINK SG CYS A 105 ZN ZN A1000 1555 1555 2.31 LINK SG CYS A 108 ZN ZN A1000 1555 1555 2.31 LINK SG CYS A 108 ZN ZN A1002 1555 1555 2.31 LINK SG CYS A 120 ZN ZN A1002 1555 1555 2.29 LINK SG CYS A 122 ZN ZN A1001 1555 1555 2.32 LINK SG CYS A 122 ZN ZN A1002 1555 1555 2.30 LINK SG CYS A 145 ZN ZN A1002 1555 1555 2.31 LINK SG CYS A 148 ZN ZN A1000 1555 1555 2.29 LINK SG CYS A 150 ZN ZN A1001 1555 1555 2.31 LINK SG CYS A 153 ZN ZN A1001 1555 1555 2.30 SITE 1 AC1 4 CYS A 104 CYS A 105 CYS A 108 CYS A 148 SITE 1 AC2 4 CYS A 104 CYS A 122 CYS A 150 CYS A 153 SITE 1 AC3 4 CYS A 108 CYS A 120 CYS A 122 CYS A 145 CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 P 1 1 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 1.000000 0.000000 0.000000 0.00000 SCALE2 0.000000 1.000000 0.000000 0.00000 SCALE3 0.000000 0.000000 1.000000 0.00000 MODEL 1