PDB Short entry for 1ZKH HEADER GENE REGULATION 02-MAY-05 1ZKH TITLE SOLUTION STRUCTURE OF A HUMAN UBIQUITIN-LIKE DOMAIN IN SF3A1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: SPLICING FACTOR 3 SUBUNIT 1; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UBIQUITIN-LIKE DOMAIN; COMPND 5 SYNONYM: SPLICEOSOME ASSOCIATED PROTEIN 114, SAP 114, SF3A120, SF3A1; COMPND 6 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: SF3A1, SAP114; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: B21 (DE3) GOLD MAGIC; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET11 KEYWDS UBIQUITIN, SPLICING FACTOR, STRUCTURAL GENOMICS, STRUCTURAL GENOMICS KEYWDS 2 CONSORTIUM, SGC, GENE REGULATION EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR J.A.LUKIN,S.DHE-PAGANON,V.GUIDO,A.LEMAK,G.V.AVVAKUMOV,S.XUE, AUTHOR 2 E.M.NEWMAN,F.MACKENZIE,M.SUNDSTROM,A.EDWARDS,C.H.ARROWSMITH, AUTHOR 3 STRUCTURAL GENOMICS CONSORTIUM (SGC) REVDAT 4 02-MAR-22 1ZKH 1 REMARK REVDAT 3 24-FEB-09 1ZKH 1 VERSN REVDAT 2 07-JUN-05 1ZKH 1 AUTHOR REVDAT 1 10-MAY-05 1ZKH 0 JRNL AUTH J.A.LUKIN,S.DHE-PAGANON,V.GUIDO,A.LEMAK,G.V.AVVAKUMOV,S.XUE, JRNL AUTH 2 E.M.NEWMAN,F.MACKENZIE,M.SUNDSTROM,A.EDWARDS,C.H.ARROWSMITH JRNL TITL SOLUTION STRUCTURE OF A HUMAN UBIQUITIN-LIKE DOMAIN IN SF3A1 JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : XWINNMR 3.6, CNS 1.1 REMARK 3 AUTHORS : BRUKER BIOSPIN, INC. (XWINNMR), BRUNGER, A. ET AL. REMARK 3 (CNS) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1ZKH COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 04-MAY-05. REMARK 100 THE DEPOSITION ID IS D_1000032821. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 5.0 REMARK 210 IONIC STRENGTH : 300 MM NACL REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 2MM PROTEIN, U-15N, U-13C; 300 REMARK 210 MM NACL, 1MM BENZAMIDINE, 10MM REMARK 210 DTT, 0.01% NAN3, 10MM SODIUM REMARK 210 ACETATE, 0.01MM ZNSO4, 90%H2O, REMARK 210 10%D2O; 2MM PROTEIN, U-15N, U- REMARK 210 13C; 300 MM NACL, 1MM REMARK 210 BENZAMIDINE, 10MM DTT, 0.01% REMARK 210 NAN3, 10MM SODIUM ACETATE, REMARK 210 0.01MM ZNSO4, 99.9% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D_15N-SEPARATED_NOESY; 3D_13C REMARK 210 -SEPARATED_NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ; 600 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NMRPIPE 2.1, CYANA 2.0 REMARK 210 METHOD USED : 100 STRUCTURES WERE CALCULATED REMARK 210 BY CYANA 2.0 USING 2667 NOE- REMARK 210 DERIVED DISTANCE CONSTRAINTS, REMARK 210 121 DIHEDRAL ANGLE CONSTRAINTS, REMARK 210 AND 50 DISTANCE CONSTRAINTS FROM REMARK 210 HYDROGEN BONDS. THE 20 REMARK 210 STRUCTURES WITH LOWEST TARGET REMARK 210 FUNCTIONS WERE SUBJECTED TO REMARK 210 REFINEMENT WITH CNS 1.1. REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : TARGET FUNCTION REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 11 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 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 PHE A 60 94.31 -68.49 REMARK 500 1 MET A 72 87.46 -69.96 REMARK 500 2 MET A 72 93.28 -64.27 REMARK 500 3 ASN A 20 10.10 -146.96 REMARK 500 3 MET A 72 84.89 -69.18 REMARK 500 4 MET A 72 89.45 -67.24 REMARK 500 4 ALA A 73 -169.65 -77.06 REMARK 500 5 ASN A 20 11.84 -143.41 REMARK 500 5 MET A 72 90.29 -63.75 REMARK 500 6 MET A 72 86.30 -68.01 REMARK 500 7 LYS A 18 30.79 -94.88 REMARK 500 7 MET A 72 82.44 -66.05 REMARK 500 8 ASN A 20 15.67 -142.27 REMARK 500 8 MET A 72 97.13 -59.72 REMARK 500 8 GLU A 84 140.83 -179.94 REMARK 500 9 LYS A 18 26.82 -78.84 REMARK 500 9 ASN A 20 15.74 -140.99 REMARK 500 9 MET A 72 88.14 -65.27 REMARK 500 10 MET A 72 84.73 -67.24 REMARK 500 10 GLU A 84 -153.09 -149.42 REMARK 500 10 ARG A 85 -63.09 -109.41 REMARK 500 11 LYS A 18 31.64 -84.93 REMARK 500 11 MET A 72 92.83 -67.16 REMARK 500 11 GLU A 84 138.17 -173.05 REMARK 500 12 LYS A 18 30.46 -88.82 REMARK 500 12 MET A 72 85.40 -65.09 REMARK 500 12 ARG A 85 -58.04 -154.94 REMARK 500 13 MET A 72 92.31 -63.78 REMARK 500 13 GLU A 84 119.96 -165.01 REMARK 500 13 ARG A 85 93.86 -167.02 REMARK 500 14 ASN A 20 14.38 -142.43 REMARK 500 14 MET A 72 87.69 -63.01 REMARK 500 15 LYS A 18 30.64 -89.35 REMARK 500 15 ASN A 20 15.84 -143.12 REMARK 500 15 PHE A 60 92.75 -68.62 REMARK 500 15 MET A 72 88.03 -67.96 REMARK 500 15 LYS A 83 107.40 -49.70 REMARK 500 15 ARG A 85 -73.72 67.00 REMARK 500 17 MET A 72 87.13 -67.48 REMARK 500 17 LYS A 83 -179.75 -58.10 REMARK 500 18 MET A 72 94.27 -62.80 REMARK 500 18 ARG A 85 -31.87 -138.43 REMARK 500 19 MET A 72 87.79 -62.04 REMARK 500 19 ARG A 85 29.72 -148.78 REMARK 500 20 LYS A 18 31.43 -81.96 REMARK 500 20 ASN A 20 19.27 -147.29 REMARK 500 20 MET A 72 90.09 -69.08 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: HS00002 RELATED DB: TARGETDB DBREF 1ZKH A 1 86 UNP Q15459 SF3A1_HUMAN 704 789 SEQRES 1 A 86 PRO VAL SER ILE LYS VAL GLN VAL PRO ASN MET GLN ASP SEQRES 2 A 86 LYS THR GLU TRP LYS LEU ASN GLY GLN VAL LEU VAL PHE SEQRES 3 A 86 THR LEU PRO LEU THR ASP GLN VAL SER VAL ILE LYS VAL SEQRES 4 A 86 LYS ILE HIS GLU ALA THR GLY MET PRO ALA GLY LYS GLN SEQRES 5 A 86 LYS LEU GLN TYR GLU GLY ILE PHE ILE LYS ASP SER ASN SEQRES 6 A 86 SER LEU ALA TYR TYR ASN MET ALA ASN GLY ALA VAL ILE SEQRES 7 A 86 HIS LEU ALA LEU LYS GLU ARG GLY HELIX 1 1 GLN A 33 THR A 45 1 13 HELIX 2 2 SER A 66 ASN A 71 1 6 SHEET 1 A 5 VAL A 23 LEU A 28 0 SHEET 2 A 5 VAL A 2 GLN A 7 -1 N ILE A 4 O PHE A 26 SHEET 3 A 5 ALA A 76 LEU A 82 1 O ILE A 78 N GLN A 7 SHEET 4 A 5 GLN A 52 TYR A 56 -1 N GLN A 55 O HIS A 79 SHEET 5 A 5 ILE A 59 ILE A 61 -1 O ILE A 59 N TYR A 56 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