HEADER METAL BINDING PROTEIN 31-JAN-08 2K0A TITLE 1H, 15N AND 13C CHEMICAL SHIFT ASSIGNMENTS FOR RDS3 PROTEIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: PRE-MRNA-SPLICING FACTOR RDS3; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: REGULATOR OF DRUG SENSITIVITY 3; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE; SOURCE 3 ORGANISM_COMMON: BAKER'S YEAST; SOURCE 4 GENE: RDS3; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: BL21 (DE3); SOURCE 7 EXPRESSION_SYSTEM_VECTOR: PRK172; SOURCE 8 OTHER_DETAILS: PROTEIN WAS EXPRESSED AS AN N-TERMINAL GLUTATHIONE-S- SOURCE 9 TRANSFERASE FUSION PROTEIN KEYWDS ZINC FINGER, TOPOLOGICAL KNOT, MRNA PROCESSING, MRNA SPLICING, KEYWDS 2 NUCLEUS, SPLICEOSOME, RNA BINDING PROTEIN, METAL BINDING PROTEIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR N.LOENING,A.VAN ROON,J.YANG,K.NAGAI,D.NEUHAUS REVDAT 4 16-MAR-22 2K0A 1 REMARK SEQADV REVDAT 3 24-FEB-09 2K0A 1 VERSN REVDAT 2 12-AUG-08 2K0A 1 JRNL REVDAT 1 22-JUL-08 2K0A 0 JRNL AUTH A.M.VAN ROON,N.M.LOENING,E.OBAYASHI,J.C.YANG,A.J.NEWMAN, JRNL AUTH 2 H.HERNANDEZ,K.NAGAI,D.NEUHAUS JRNL TITL SOLUTION STRUCTURE OF THE U2 SNRNP PROTEIN RDS3P REVEALS A JRNL TITL 2 KNOTTED ZINC-FINGER MOTIF. JRNL REF PROC.NATL.ACAD.SCI.USA V. 105 9621 2008 JRNL REFN ISSN 0027-8424 JRNL PMID 18621724 JRNL DOI 10.1073/PNAS.0802494105 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : XWINNMR 3.5, ARIA 1.1.2 REMARK 3 AUTHORS : BRUKER BIOSPIN (XWINNMR), LINGE, O'DONOGHUE AND REMARK 3 NILGES (ARIA) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: ARIA 1.1.2 (MODIFIED TO ALLOW USE OF REMARK 3 ZINC IONS), CNS 1.1, ARIA 1.1.2 (MODIFIED TO ALLOW USE OF ZINC REMARK 3 IONS), CNS 1.1 REMARK 4 REMARK 4 2K0A COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 04-FEB-08. REMARK 100 THE DEPOSITION ID IS D_1000100513. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 300 REMARK 210 PH : 7.0 REMARK 210 IONIC STRENGTH : 200 REMARK 210 PRESSURE : AMBIENT ATM REMARK 210 SAMPLE CONTENTS : 350 UM [U-98% 15N] RDS3P, 20 MM REMARK 210 [U-99% 2H] TRIS BUFFER, 200 MM REMARK 210 SODIUM CHLORIDE, 1 MM [U-99% 2H] REMARK 210 DTT, 93% H2O/7% D2O; 700 UM [U- REMARK 210 98% 13C; U-98% 15N] RDS3P, 20 MM REMARK 210 [U-99% 2H] TRIS BUFFER, 200 MM REMARK 210 SODIUM CHLORIDE, 1 MM [U-99% 2H] REMARK 210 DTT, 93% H2O/7% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 2D 15N T1; 2D REMARK 210 15N T2; 2D 15N NOE; 2D 1H-13C REMARK 210 HSQC FULL WIDTH; 2D 1H-13C HSQC REMARK 210 AROMATIC; 2D 1H-13C HSQC REMARK 210 ALIPHATIC; 2D 1H-1H NOESY; 2D 1H- REMARK 210 1H NOESY FILTERED (15N COUPLED REMARK 210 1H REMOVED FROM F2); 3D HNCACB; REMARK 210 3D CBCA(CO)NH; 3D HNCO; 3D REMARK 210 HNHAHB; 3D HBHA(CO)NH; 3D HCCH- REMARK 210 TOCSY; 3D HNHB; 3D 1H-15N NOESY; REMARK 210 3D 1H-13C NOESY; 3D HACAHB-COSY REMARK 210 SPECTROMETER FIELD STRENGTH : 800 MHZ; 600 MHZ; 500 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE; DMX; DRX REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : CCPN_ANALYSIS 1.0.15, CNS 1.1 REMARK 210 METHOD USED : TORSION ANGLE DYNAMICS, REMARK 210 SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 50 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 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: CLOSE CONTACTS 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 HB VAL A 43 HG3 PRO A 87 1.34 REMARK 500 HZ1 LYS A 105 O VAL A 107 1.59 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 1 SER A 2 -121.31 -167.13 REMARK 500 1 HIS A 4 36.86 -152.11 REMARK 500 1 PHE A 6 -23.21 77.36 REMARK 500 1 ILE A 9 98.79 -61.06 REMARK 500 1 LYS A 13 -155.38 -95.62 REMARK 500 1 CYS A 33 -34.46 -137.98 REMARK 500 1 ASP A 34 86.86 64.35 REMARK 500 1 SER A 35 25.35 -154.36 REMARK 500 1 TYR A 36 50.11 36.79 REMARK 500 1 PRO A 39 -154.22 -76.64 REMARK 500 1 LYS A 40 -49.04 -176.40 REMARK 500 1 LYS A 53 -48.80 69.48 REMARK 500 1 ASN A 62 58.24 22.26 REMARK 500 1 LEU A 63 -67.61 -155.25 REMARK 500 1 ASN A 95 70.62 62.42 REMARK 500 1 ASP A 98 -135.05 55.11 REMARK 500 1 LYS A 104 40.13 -145.00 REMARK 500 1 LYS A 105 -60.98 69.18 REMARK 500 1 LYS A 106 -30.77 178.77 REMARK 500 2 SER A 2 -47.05 71.27 REMARK 500 2 GLN A 5 136.73 -173.56 REMARK 500 2 CYS A 26 41.42 -104.48 REMARK 500 2 ASP A 34 81.55 63.91 REMARK 500 2 PRO A 39 -164.54 -73.98 REMARK 500 2 LYS A 40 -42.84 -172.17 REMARK 500 2 ALA A 55 -53.37 -136.24 REMARK 500 2 ASN A 62 47.30 36.36 REMARK 500 2 LEU A 63 -66.27 -143.21 REMARK 500 2 CYS A 86 109.56 -58.84 REMARK 500 2 PRO A 87 39.89 -87.97 REMARK 500 2 SER A 94 -43.39 74.26 REMARK 500 2 ARG A 96 35.25 -140.80 REMARK 500 2 GLU A 102 -59.78 64.93 REMARK 500 2 LYS A 104 -144.05 60.95 REMARK 500 2 LYS A 106 38.92 -95.84 REMARK 500 3 SER A 1 -60.06 67.69 REMARK 500 3 PHE A 6 34.67 -76.10 REMARK 500 3 ILE A 9 79.21 -68.94 REMARK 500 3 ASP A 34 84.05 67.10 REMARK 500 3 PRO A 39 -161.23 -78.83 REMARK 500 3 LYS A 40 -50.55 -171.57 REMARK 500 3 CYS A 49 43.53 -90.00 REMARK 500 3 SER A 50 -38.68 -155.62 REMARK 500 3 LYS A 53 -59.46 52.99 REMARK 500 3 GLN A 54 44.64 -77.05 REMARK 500 3 ALA A 55 -45.32 -134.79 REMARK 500 3 ASN A 62 53.10 29.25 REMARK 500 3 LEU A 63 -59.49 -155.64 REMARK 500 3 PRO A 87 39.59 -83.17 REMARK 500 3 ASN A 95 -71.91 74.21 REMARK 500 REMARK 500 THIS ENTRY HAS 400 RAMACHANDRAN OUTLIERS. 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 8 PHE A 6 -10.28 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 A 108 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 11 SG REMARK 620 2 CYS A 46 SG 110.1 REMARK 620 3 CYS A 49 SG 110.6 110.0 REMARK 620 4 CYS A 86 SG 106.8 109.1 110.1 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 109 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 23 SG REMARK 620 2 CYS A 26 SG 108.8 REMARK 620 3 CYS A 58 SG 109.4 110.1 REMARK 620 4 CYS A 61 SG 109.7 111.1 107.8 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 110 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 30 SG REMARK 620 2 CYS A 33 SG 107.7 REMARK 620 3 CYS A 73 SG 108.5 110.5 REMARK 620 4 CYS A 76 SG 109.8 110.9 109.4 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 108 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 109 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 110 DBREF 2K0A A 2 107 UNP Q06835 RDS3_YEAST 2 107 SEQADV 2K0A GLY A -1 UNP Q06835 EXPRESSION TAG SEQADV 2K0A GLY A 0 UNP Q06835 EXPRESSION TAG SEQADV 2K0A SER A 1 UNP Q06835 EXPRESSION TAG SEQRES 1 A 109 GLY GLY SER SER ARG HIS GLN PHE ASP LEU ILE MET CYS SEQRES 2 A 109 LEU LYS GLN PRO GLY VAL GLN THR GLY LEU LEU CYS GLU SEQRES 3 A 109 LYS CYS ASP GLY LYS CYS PRO ILE CYS ASP SER TYR VAL SEQRES 4 A 109 ARG PRO LYS ARG LYS VAL ARG VAL CYS GLU ASN CYS SER SEQRES 5 A 109 PHE GLY LYS GLN ALA LYS ASN CYS ILE ILE CYS ASN LEU SEQRES 6 A 109 ASN VAL GLY VAL ASN ASP ALA PHE TYR CYS TRP GLU CYS SEQRES 7 A 109 CYS ARG LEU GLY LYS ASP LYS ASP GLY CYS PRO ARG ILE SEQRES 8 A 109 LEU ASN LEU GLY SER ASN ARG LEU ASP ARG HIS PHE GLU SEQRES 9 A 109 LYS LYS LYS LYS VAL HET ZN A 108 1 HET ZN A 109 1 HET ZN A 110 1 HETNAM ZN ZINC ION FORMUL 2 ZN 3(ZN 2+) HELIX 1 1 CYS A 23 ASP A 27 5 5 HELIX 2 2 GLU A 47 PHE A 51 1 5 HELIX 3 3 CYS A 73 GLY A 80 1 8 SHEET 1 A 2 PRO A 15 THR A 19 0 SHEET 2 A 2 ARG A 44 CYS A 46 -1 O VAL A 45 N GLY A 16 SHEET 1 B 2 LEU A 21 LEU A 22 0 SHEET 2 B 2 ASN A 68 ASP A 69 -1 O ASN A 68 N LEU A 22 SHEET 1 C 2 ARG A 41 LYS A 42 0 SHEET 2 C 2 PHE A 71 TYR A 72 -1 O TYR A 72 N ARG A 41 LINK SG CYS A 11 ZN ZN A 108 1555 1555 2.29 LINK SG CYS A 23 ZN ZN A 109 1555 1555 2.30 LINK SG CYS A 26 ZN ZN A 109 1555 1555 2.29 LINK SG CYS A 30 ZN ZN A 110 1555 1555 2.30 LINK SG CYS A 33 ZN ZN A 110 1555 1555 2.30 LINK SG CYS A 46 ZN ZN A 108 1555 1555 2.29 LINK SG CYS A 49 ZN ZN A 108 1555 1555 2.30 LINK SG CYS A 58 ZN ZN A 109 1555 1555 2.30 LINK SG CYS A 61 ZN ZN A 109 1555 1555 2.30 LINK SG CYS A 73 ZN ZN A 110 1555 1555 2.30 LINK SG CYS A 76 ZN ZN A 110 1555 1555 2.30 LINK SG CYS A 86 ZN ZN A 108 1555 1555 2.30 SITE 1 AC1 3 CYS A 11 LYS A 13 CYS A 49 SITE 1 AC2 5 LEU A 22 CYS A 23 CYS A 26 CYS A 58 SITE 2 AC2 5 CYS A 61 SITE 1 AC3 4 CYS A 30 ILE A 32 CYS A 33 CYS A 73 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