HEADER RNA BINDING PROTEIN 11-FEB-03 1NY4 TITLE SOLUTION STRUCTURE OF THE 30S RIBOSOMAL PROTEIN S28E FROM PYROCOCCUS TITLE 2 HORIKOSHII. NORTHEAST STRUCTURAL GENOMICS CONSORTIUM TARGET JR19. COMPND MOL_ID: 1; COMPND 2 MOLECULE: 30S RIBOSOMAL PROTEIN S28E; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PYROCOCCUS HORIKOSHII; SOURCE 3 ORGANISM_TAXID: 53953; SOURCE 4 GENE: RPS28E; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21MGK; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET21 KEYWDS JR19, AUTOSTRUCTURE, RIBOSOMAL PROTEIN, NORTHEAST STRUCTURAL GENOMICS KEYWDS 2 CONSORTIUM, PSI, PROTEIN STRUCTURE INITIATIVE, NESG, RNA BINDING KEYWDS 3 PROTEIN EXPDTA SOLUTION NMR NUMMDL 10 AUTHOR J.M.ARAMINI,J.R.CORT,Y.J.HUANG,R.XIAO,T.B.ACTON,C.K.HO,L.-Y.SHIH, AUTHOR 2 M.A.KENNEDY,G.T.MONTELIONE,NORTHEAST STRUCTURAL GENOMICS CONSORTIUM AUTHOR 3 (NESG) REVDAT 5 23-FEB-22 1NY4 1 REMARK SEQADV REVDAT 4 24-FEB-09 1NY4 1 VERSN REVDAT 3 25-JAN-05 1NY4 1 AUTHOR KEYWDS REMARK REVDAT 2 09-DEC-03 1NY4 1 JRNL REVDAT 1 02-SEP-03 1NY4 0 JRNL AUTH J.M.ARAMINI,Y.J.HUANG,J.R.CORT,S.GOLDSMITH-FISCHMAN,R.XIAO, JRNL AUTH 2 L.-Y.SHIH,C.K.HO,J.LIU,B.ROST,B.HONIG,M.A.KENNEDY,T.B.ACTON, JRNL AUTH 3 G.T.MONTELIONE JRNL TITL SOLUTION NMR STRUCTURE OF THE 30S RIBOSOMAL PROTEIN S28E JRNL TITL 2 FROM PYROCOCCUS HORIKOSHII. JRNL REF PROTEIN SCI. V. 12 2823 2003 JRNL REFN ISSN 0961-8368 JRNL PMID 14627742 JRNL DOI 10.1110/PS.03359003 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : VNMR 6.1B, AUTOSTRUCTURE 1.1.2, DYANA 1.5 REMARK 3 AUTHORS : VARIAN (VNMR), HUANG, MONTELIONE (AUTOSTRUCTURE), REMARK 3 GUNTERT (DYANA) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: THE STRUCTURES ARE BASED ON A TOTAL REMARK 3 OF 828 CONFORMATIONALLY-RESTRICTING NOE-DERIVED DISTANCE REMARK 3 RESTRAINTS, 99 DIHEDRAL ANGLE RESTRAINTS, AND 28 HYDROGEN REMARK 3 BOND RESTRAINTS. (13.5 CONSTRAINTS PER RESIDUE; 5.2 LONG-RANGE REMARK 3 RESTRAINTS PER RESIDUE). REMARK 3 STRUCTURE DETERMINATION WAS PERFORMED ITERATIVELY USING REMARK 3 AUTOSTRUCTURE (DYANA). REMARK 3 THE UNSTRUCTURED 11 RESIDUE C-TERMINAL TAG (AAALEHHHHHH) WAS REMARK 3 INCLUDED IN THE REMARK 3 STRUCTURE CALCULATIONS BUT IS OMITTED FROM THIS DEPOSITION. REMARK 4 REMARK 4 1NY4 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 27-FEB-03. REMARK 100 THE DEPOSITION ID IS D_1000018339. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 293 REMARK 210 PH : 6.5 REMARK 210 IONIC STRENGTH : 100 MM NACL REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1.0 MM JR19 U-15N,13C 20 MM MES, REMARK 210 100 MM NACL, 5 MM CACL2, 10 MM REMARK 210 DTT, 0.02% NAN3, PH 6.5; 1.0 MM REMARK 210 JR19 U-15N,13C 20 MM MES, 100 MM REMARK 210 NACL, 5 MM CACL2, 10 MM DTT, REMARK 210 0.02% NAN3, PH 6.5; 1.0 MM JR19 REMARK 210 U-15N, 5%-13C 20 MM MES, 100 MM REMARK 210 NACL, 5 MM CACL2, 10 MM DTT, REMARK 210 0.02% NAN3, PH 6.5 REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D 15N-NOESY, 3D 13C-NOESY REMARK 210 (ALIPHATIC AND AROMATIC); 4D_13C- REMARK 210 SEPARATED_NOESY; HNHA; HIGH REMARK 210 RESOLUTION 13C,1H-HSQC; H/D REMARK 210 EXCHANGE; BACKBONE TR REMARK 210 EXPERIMENTS, AND 3D TOCSYS REMARK 210 SPECTROMETER FIELD STRENGTH : 800 MHZ; 750 MHZ; 600 MHZ; 500 REMARK 210 MHZ REMARK 210 SPECTROMETER MODEL : INOVA; UNITY REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NMRPIPE 2.1, SPARKY 3.106, REMARK 210 AUTOASSIGN 1.9, HYPER 3.2, REMARK 210 PDBSTAT 3.27 REMARK 210 METHOD USED : TORSION ANGLE DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 56 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 10 REMARK 210 CONFORMERS, SELECTION CRITERIA : TARGET FUNCTION REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: THE STRUCTURE WAS DETERMINED USING TRIPLE-RESONANCE REMARK 210 NMR SPECTROSCOPY. AUTOMATIC BACKBONE RESONANCE ASSIGNMENTS REMARK 210 WERE MADE USING AUTOASSIGN. MANUAL SIDE CHAIN ASSIGNMENTS. REMARK 210 AUTOMATIC NOESY ASSIGNMENTS AS WELL AS DISTANCE AND HYDROGEN REMARK 210 BOND RESTRAINTS WERE DETERMINED USING AUTOSTRUCTURE. DIHEDRAL REMARK 210 ANGLE RESTRAINTS WERE DETERMINED USING HYPER AND TALOS. REMARK 210 BACKBONE CONFORMATIONS FOR RESIDUES 1-3, 5-6, 18-20, 22-23, REMARK 210 34-35, 48-49, 57-71, ARE NOT WELL-DEFINED [S(PHI) + S(PSI) < REMARK 210 1.8] IN THIS SOLUTION NMR STRUCTURE. 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 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 465 SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 MODELS 1-10 REMARK 465 RES C SSSEQI REMARK 465 ALA A 72 REMARK 465 ALA A 73 REMARK 465 ALA A 74 REMARK 465 LEU A 75 REMARK 465 GLU A 76 REMARK 465 HIS A 77 REMARK 465 HIS A 78 REMARK 465 HIS A 79 REMARK 465 HIS A 80 REMARK 465 HIS A 81 REMARK 465 HIS A 82 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 ALA A 2 -56.32 80.69 REMARK 500 1 GLU A 3 116.50 -36.65 REMARK 500 1 ASP A 4 20.53 -151.24 REMARK 500 1 THR A 18 -46.56 -135.26 REMARK 500 1 THR A 20 -75.98 63.73 REMARK 500 1 ARG A 35 -75.32 64.50 REMARK 500 1 LYS A 37 89.08 39.01 REMARK 500 1 PRO A 48 -162.56 -74.96 REMARK 500 1 ASP A 53 150.28 -43.67 REMARK 500 1 GLU A 59 -47.93 -150.84 REMARK 500 1 THR A 60 -3.07 79.96 REMARK 500 1 GLU A 61 -175.40 47.84 REMARK 500 1 ARG A 62 -59.77 -150.19 REMARK 500 1 GLU A 63 79.31 65.14 REMARK 500 1 ALA A 64 58.46 -100.11 REMARK 500 1 GLU A 66 65.24 61.27 REMARK 500 1 ARG A 70 88.01 41.27 REMARK 500 2 ALA A 2 -143.38 -74.45 REMARK 500 2 ASP A 4 19.61 -150.34 REMARK 500 2 ILE A 15 -77.65 -80.41 REMARK 500 2 THR A 20 -76.00 64.25 REMARK 500 2 ARG A 35 -76.02 69.99 REMARK 500 2 LYS A 37 89.87 41.31 REMARK 500 2 PRO A 48 -166.89 -75.00 REMARK 500 2 LEU A 57 114.93 -160.00 REMARK 500 2 GLU A 59 144.43 178.70 REMARK 500 2 THR A 60 -34.10 163.87 REMARK 500 2 ALA A 64 -70.21 -155.69 REMARK 500 2 ARG A 65 -54.15 82.33 REMARK 500 2 LYS A 68 37.19 -171.37 REMARK 500 2 ARG A 70 90.72 39.61 REMARK 500 3 GLU A 3 116.72 -36.80 REMARK 500 3 ILE A 15 -81.47 -94.61 REMARK 500 3 THR A 18 45.36 -166.26 REMARK 500 3 THR A 20 -80.65 67.02 REMARK 500 3 ARG A 35 -47.52 84.33 REMARK 500 3 ASP A 36 30.51 -92.54 REMARK 500 3 LYS A 37 88.57 -51.25 REMARK 500 3 THR A 60 7.99 82.18 REMARK 500 3 ALA A 64 -64.60 -175.91 REMARK 500 3 ARG A 65 -61.68 77.99 REMARK 500 3 GLU A 66 69.94 65.73 REMARK 500 4 GLU A 3 118.24 -36.39 REMARK 500 4 ASP A 4 20.34 -150.97 REMARK 500 4 THR A 18 56.31 -145.83 REMARK 500 4 LYS A 37 88.52 37.53 REMARK 500 4 ILE A 56 -135.69 -96.99 REMARK 500 4 LEU A 57 140.63 87.98 REMARK 500 4 GLU A 59 -29.27 -38.55 REMARK 500 4 THR A 60 49.00 -80.89 REMARK 500 REMARK 500 THIS ENTRY HAS 124 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: JR19 RELATED DB: TARGETDB DBREF 1NY4 A 1 71 UNP P61030 RS28_PYRHO 1 71 SEQADV 1NY4 ALA A 72 UNP P61030 EXPRESSION TAG SEQADV 1NY4 ALA A 73 UNP P61030 EXPRESSION TAG SEQADV 1NY4 ALA A 74 UNP P61030 EXPRESSION TAG SEQADV 1NY4 LEU A 75 UNP P61030 EXPRESSION TAG SEQADV 1NY4 GLU A 76 UNP P61030 EXPRESSION TAG SEQADV 1NY4 HIS A 77 UNP P61030 EXPRESSION TAG SEQADV 1NY4 HIS A 78 UNP P61030 EXPRESSION TAG SEQADV 1NY4 HIS A 79 UNP P61030 EXPRESSION TAG SEQADV 1NY4 HIS A 80 UNP P61030 EXPRESSION TAG SEQADV 1NY4 HIS A 81 UNP P61030 EXPRESSION TAG SEQADV 1NY4 HIS A 82 UNP P61030 EXPRESSION TAG SEQRES 1 A 82 MET ALA GLU ASP GLU GLY TYR PRO ALA GLU VAL ILE GLU SEQRES 2 A 82 ILE ILE GLY ARG THR GLY THR THR GLY ASP VAL THR GLN SEQRES 3 A 82 VAL LYS VAL ARG ILE LEU GLU GLY ARG ASP LYS GLY ARG SEQRES 4 A 82 VAL ILE ARG ARG ASN VAL ARG GLY PRO VAL ARG VAL GLY SEQRES 5 A 82 ASP ILE LEU ILE LEU ARG GLU THR GLU ARG GLU ALA ARG SEQRES 6 A 82 GLU ILE LYS SER ARG ARG ALA ALA ALA LEU GLU HIS HIS SEQRES 7 A 82 HIS HIS HIS HIS SHEET 1 A 4 VAL A 40 ARG A 46 0 SHEET 2 A 4 VAL A 24 ILE A 31 -1 N VAL A 29 O ILE A 41 SHEET 3 A 4 PRO A 8 ILE A 14 -1 N GLU A 10 O ARG A 30 SHEET 4 A 4 ILE A 54 ILE A 56 -1 O LEU A 55 N ALA A 9 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