HEADER STRUCTURAL GENOMICS 07-DEC-01 1KKG TITLE NMR STRUCTURE OF RIBOSOME-BINDING FACTOR A (RBFA) COMPND MOL_ID: 1; COMPND 2 MOLECULE: RIBOSOME-BINDING FACTOR A; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: RBFA, COLD-SHOCK ADAPTATION PROTEIN; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 GENE: RBFA; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET11A KEYWDS COLD-SHOCK ADAPTATION, RIBOSOME-BINDING FACTOR, NESG PROJECT, KEYWDS 2 STRUCTURAL GENOMICS, PSI, PROTEIN STRUCTURE INITIATIVE, NORTHEAST KEYWDS 3 STRUCTURAL GENOMICS CONSORTIUM EXPDTA SOLUTION NMR NUMMDL 16 AUTHOR Y.J.HUANG,G.V.T.SWAPNA,P.K.RAJAN,H.KE,B.XIA,K.SHUKLA,M.INOUYE, AUTHOR 2 G.T.MONTELIONE,NORTHEAST STRUCTURAL GENOMICS CONSORTIUM (NESG) REVDAT 4 23-FEB-22 1KKG 1 REMARK REVDAT 3 24-FEB-09 1KKG 1 VERSN REVDAT 2 25-JAN-05 1KKG 1 AUTHOR KEYWDS REMARK REVDAT 1 18-MAR-03 1KKG 0 JRNL AUTH Y.J.HUANG,G.V.T.SWAPNA,P.K.RAJAN,H.KE,B.XIA,K.SHUKLA, JRNL AUTH 2 M.INOUYE,G.T.MONTELIONE JRNL TITL SOLUTION NMR STRUCTURE OF RIBOSOME-BINDING FACTOR A (RBFA), JRNL TITL 2 A COLD-SHOCK ADAPTATION PROTEIN FROM ESCHERICHIA COLI JRNL REF J.MOL.BIOL. V. 327 521 2003 JRNL REFN ISSN 0022-2836 JRNL PMID 12628255 JRNL DOI 10.1016/S0022-2836(03)00061-5 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH G.V.SWAPNA,K.SHUKLA,Y.J.HUANG,H.KE,B.XIA,M.INOUYE, REMARK 1 AUTH 2 G.T.MONTELIONE REMARK 1 TITL RESONANCE ASSIGNMENTS FOR COLD-SHOCK PROTEIN REMARK 1 TITL 2 RIBOSOME-BINDING FACTOR A (RBFA) FROM ESCHERICHIA COLI. REMARK 1 REF J.BIOMOL.NMR V. 21 389 2001 REMARK 1 REFN ISSN 0925-2738 REMARK 1 DOI 10.1023/A:1013302924843 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : AUTOASSIGN 1.7.7, DYANA 1.5 REMARK 3 AUTHORS : MOSELEY, H., ZIMMERMANN, D.E., HUANG, Y.J., REMARK 3 KULIKOWSKI, C.G. AND MONTELIONE, G.T. (AUTOASSIGN), REMARK 3 GUNTERT, P., MUMENTHALER, C. AND WUTHRICH, K. REMARK 3 (DYANA) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: THE STRUCTURES ARE BASED ON A TOTAL REMARK 3 OF 1970 RESTRAINTS, 1698 CONFORMATIONALLY-RESTRICTING NOE- REMARK 3 DERIVED DISTANCE CONSTRAINTS, 184 DIHEDRAL ANGLE CONSTRAINTS, REMARK 3 88 DISTANCE RESTRAINTS FROM HYDROGEN BONDS. SUMMARY OF REMARK 3 RBFA STRUCTURE CALCULATION BY AUTOSTRUCTURE: SUMMARY OF REMARK 3 EXPERIMENTAL CONSTRAINTS: DISTANCE CONSTRAINTS: TOTAL = 1698; REMARK 3 INTRA-RESIDUE [I=J] = 175; SEQUENTIAL [(I-J)=1] = 454; MEDIUM REMARK 3 RANGE [1<(I-J)<5] = 595; LONG RANGE [(I-J)>=5] = 474; NUMBER REMARK 3 OF DISTANCE CONSTRAINTS PER RESIDUE = 15.7; DIHEDRAL-ANGLE REMARK 3 CONSTRAINTS = 184; TOTAL HYDROGEN BOND CONSTRAINTS = 88; LONG REMARK 3 RANGE HYDROGEN BOND CONSTRAINTS = 24; TOTAL NUMBER OF REMARK 3 CONSTRAINTS PER RESIDUE = 18.2; NUMBER OF LONG RANGE REMARK 3 CONSTRAINTS PER RESIDUE = 4.6; NUMBER OF STRUCTURES COMPUTED = REMARK 3 200; NUMBER OF STRUCTURES USED = 16. RESIDUAL CONSTRAINT REMARK 3 VIOLATIONS: DISTANCE VIOLATIONS 0.1-0.2ANG = 31; 0.2-0.5ANG REMARK 3 = 9; >0.5ANG = 1. MAX DISTANCE VIOLATION = 0.57ANG; AVERAGE REMARK 3 DISTANCE VIOLATION = 0.00ANG. MAX. VDW VIOLATION = 0.37 ANG. REMARK 3 DIHEDRAL ANGLE VIOLATIONS: 0 - 10 DEG = 6; >10 DEG = 0; MAX REMARK 3 ANGLE VIOLATION = 9 DEG; AVERAGE ANGLE VIOLATION = 0.06 DEG. REMARK 3 RMSD VALUES : ALL BACKBONE ATOMS OF ALL RESIDUES = 0.5 ANG; ALL REMARK 3 BACKBONE ATOMS OF ORDERED RESIDUES = 0.5 ANG; ALL HEAVY ATOMS OF REMARK 3 ALL RESIDUES = 1.0 ANG; ALL HEAVY ATOMS OF ORDERED RESIDUES = REMARK 3 1.0 ANG. PROCHECK USING ALL RESIDUES: MOST FAVORED REGIONS = REMARK 3 73%; ADDITIONAL ALLOWED REGIONS = 23%; GENEROUSLY ALLOWED REMARK 3 REGIONS = 4%; DISALLOWED REGIONS = 0%. NMR R-FACTORS : M = REMARK 3 39% I=46% L=27% . SPECTRAL INFORMATION: TOTAL NUMBER OF PEAKS REMARK 3 IN N15-NOESY = 1536; TOTAL NUMBER OF ASSIGNABLE PEAKS IN N15- REMARK 3 NOESY = 1239; TOTAL NUMBER OF PEAKS ASSIGNED IN N15-NOESY = REMARK 3 814; TOTAL NUMBER OF PEAKS IN C13-NOESY = 3115; TOTAL NUMBER REMARK 3 OF ASSIGNABLE PEAKS IN C13-NOESY = 2494; TOTAL NUMBER OF PEAKS REMARK 3 ASSIGNED IN C13-NOESY = 1802. REMARK 4 REMARK 4 1KKG COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 14-DEC-01. REMARK 100 THE DEPOSITION ID IS D_1000015048. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 293 REMARK 210 PH : 5.05 REMARK 210 IONIC STRENGTH : 10 MM REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : 1.6 MM RBFA, U-15N,13C; 10 MM REMARK 210 SODIUM PHOSPHATE, 0.5 MM SODIUM REMARK 210 AZIDE, 95% H2O, 5% D2O; 1.6 MM REMARK 210 RBFA, U-15N; 10 MM POTASSIUM REMARK 210 ACETATE 95% H2O, 5% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D_13C-SEPARATED_NOESY; 3D_15N REMARK 210 -SEPARATED_NOESY; NH_HSQC_JHAHN; REMARK 210 NH_HSQC_1H/2H_EXCHANGE REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ; 600 MHZ REMARK 210 SPECTROMETER MODEL : INOVA REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : AUTOSTRUCTURE 1.0ALPHA, SPARKY REMARK 210 3.69, VNMR 6.3B, TALOS REMARK 210 98.040.21.02 REMARK 210 METHOD USED : SIMULATED ANNEALING, TORSION REMARK 210 ANGLE DYNAMICS, AUTOMATED REMARK 210 ANALYSIS OF NOESY DATA AND 3D REMARK 210 STRUCTURES. REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 200 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 16 REMARK 210 CONFORMERS, SELECTION CRITERIA : BEST 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 NMR REMARK 210 SPECTROSCOPY, AUTOMATED ANALYSIS OF ASSIGNMENTS AND AUTOMATED REMARK 210 ANALYSIS OF 3D 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 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 ALA A 2 45.71 162.61 REMARK 500 1 ARG A 25 -62.08 -109.04 REMARK 500 1 LYS A 28 73.12 -101.85 REMARK 500 1 SER A 39 33.24 -91.29 REMARK 500 1 LEU A 47 -71.22 -143.89 REMARK 500 1 ALA A 48 61.96 159.67 REMARK 500 1 SER A 76 -74.36 -55.12 REMARK 500 1 ARG A 88 78.51 22.42 REMARK 500 1 LEU A 89 -150.97 -119.25 REMARK 500 1 ARG A 90 -44.69 -148.12 REMARK 500 1 ILE A 91 -36.49 -37.37 REMARK 500 1 VAL A 92 60.12 23.75 REMARK 500 1 GLU A 94 66.47 -67.26 REMARK 500 1 GLU A 105 -38.33 -150.13 REMARK 500 2 ALA A 2 -130.70 -150.83 REMARK 500 2 ARG A 7 177.54 -57.12 REMARK 500 2 GLN A 13 -70.34 -64.79 REMARK 500 2 GLU A 14 -37.38 -38.73 REMARK 500 2 LYS A 28 72.01 -102.68 REMARK 500 2 LEU A 47 -63.45 -148.26 REMARK 500 2 ALA A 48 70.72 163.03 REMARK 500 2 SER A 76 -72.73 -54.57 REMARK 500 2 ARG A 88 79.30 23.06 REMARK 500 2 LEU A 89 -158.08 -120.47 REMARK 500 2 ARG A 90 -42.93 -141.89 REMARK 500 2 ILE A 91 -35.17 -36.98 REMARK 500 2 VAL A 92 59.71 24.14 REMARK 500 2 GLU A 94 66.86 -69.04 REMARK 500 2 GLU A 105 -42.31 -142.63 REMARK 500 2 MET A 107 33.21 -156.11 REMARK 500 3 ALA A 2 167.86 179.43 REMARK 500 3 ARG A 25 -64.13 -107.02 REMARK 500 3 LYS A 28 72.86 -104.42 REMARK 500 3 LEU A 47 -71.70 -143.66 REMARK 500 3 ALA A 48 58.52 159.23 REMARK 500 3 SER A 76 -74.36 -56.65 REMARK 500 3 ARG A 88 77.83 22.34 REMARK 500 3 LEU A 89 -148.68 -116.60 REMARK 500 3 ARG A 90 -43.24 -153.05 REMARK 500 3 ILE A 91 -34.55 -37.48 REMARK 500 3 VAL A 92 60.44 23.42 REMARK 500 3 GLU A 94 64.24 -67.17 REMARK 500 3 LEU A 95 90.54 -69.96 REMARK 500 3 GLU A 105 -39.28 -160.55 REMARK 500 4 LEU A 47 -70.86 -144.06 REMARK 500 4 ALA A 48 63.04 159.80 REMARK 500 4 SER A 76 -75.18 -55.25 REMARK 500 4 ARG A 88 83.41 22.20 REMARK 500 4 LEU A 89 -148.22 -126.58 REMARK 500 4 ARG A 90 -41.57 -155.19 REMARK 500 REMARK 500 THIS ENTRY HAS 213 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5093 RELATED DB: BMRB REMARK 900 BMRB 5093 IS THE 1H, 13C, 15N RESONANCE ASSIGNMENTS FOR RBFA REMARK 900 RELATED ID: WR90EC RELATED DB: TARGETDB DBREF 1KKG A 1 108 UNP P0A7G2 RBFA_ECOLI 0 107 SEQRES 1 A 108 MET ALA LYS GLU PHE GLY ARG PRO GLN ARG VAL ALA GLN SEQRES 2 A 108 GLU MET GLN LYS GLU ILE ALA LEU ILE LEU GLN ARG GLU SEQRES 3 A 108 ILE LYS ASP PRO ARG LEU GLY MET MET THR THR VAL SER SEQRES 4 A 108 GLY VAL GLU MET SER ARG ASP LEU ALA TYR ALA LYS VAL SEQRES 5 A 108 TYR VAL THR PHE LEU ASN ASP LYS ASP GLU ASP ALA VAL SEQRES 6 A 108 LYS ALA GLY ILE LYS ALA LEU GLN GLU ALA SER GLY PHE SEQRES 7 A 108 ILE ARG SER LEU LEU GLY LYS ALA MET ARG LEU ARG ILE SEQRES 8 A 108 VAL PRO GLU LEU THR PHE PHE TYR ASP ASN SER LEU VAL SEQRES 9 A 108 GLU GLY MET ARG HELIX 1 1 GLN A 9 LEU A 23 1 15 HELIX 2 2 GLU A 62 GLU A 74 5 13 HELIX 3 3 SER A 76 ALA A 86 5 11 SHEET 1 A 3 VAL A 41 SER A 44 0 SHEET 2 A 3 TYR A 49 THR A 55 -1 O TYR A 49 N SER A 44 SHEET 3 A 3 GLU A 94 ASP A 100 1 O PHE A 98 N VAL A 54 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