HEADER SIGNALING PROTEIN 04-NOV-99 1DC8 TITLE STRUCTURE OF A TRANSIENTLY PHOSPHORYLATED "SWITCH" IN BACTERIAL SIGNAL TITLE 2 TRANSDUCTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: NITROGEN REGULATION PROTEIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: N-TERMINAL RECEIVER DOMAIN(1-124); COMPND 5 SYNONYM: NTRC; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SALMONELLA TYPHIMURIUM; SOURCE 3 ORGANISM_TAXID: 602; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 7 EXPRESSION_SYSTEM_VECTOR: PJES592 KEYWDS RECEIVER DOMAIN, PHOSPHORYLATION, SIGNAL TRANSDUCTION, CONFORMATIONAL KEYWDS 2 REARRANGEMENT, TWO-COMPONENT SYSTEM, SIGNALING PROTEIN EXPDTA SOLUTION NMR AUTHOR D.KERN,B.F.VOLKMAN,P.LUGINBUHL,M.J.NOHAILE,S.KUSTU,D.E.WEMMER REVDAT 4 21-DEC-22 1DC8 1 SEQADV REVDAT 3 16-FEB-22 1DC8 1 REMARK LINK REVDAT 2 24-FEB-09 1DC8 1 VERSN REVDAT 1 05-JAN-00 1DC8 0 JRNL AUTH D.KERN,B.F.VOLKMAN,P.LUGINBUHL,M.J.NOHAILE,S.KUSTU, JRNL AUTH 2 D.E.WEMMER JRNL TITL STRUCTURE OF A TRANSIENTLY PHOSPHORYLATED SWITCH IN JRNL TITL 2 BACTERIAL SIGNAL TRANSDUCTION. JRNL REF NATURE V. 402 894 1999 JRNL REFN ISSN 0028-0836 JRNL PMID 10622255 JRNL DOI 10.1038/47273 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH B.F.VOLKMAN,M.J.NOHAILE,N.K.AMY,S.KUSTU,D.E.WEMMER REMARK 1 TITL THREE-DIMENSIONAL SOLUTION STRUCTURE OF THE N-TERMINAL REMARK 1 TITL 2 RECEIVER DOMAIN OF NTRC REMARK 1 REF BIOCHEMISTRY V. 34 1413 1995 REMARK 1 REFN ISSN 0006-2960 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : DYANA 1.5, DYANA 1.5 REMARK 3 AUTHORS : PETER GUENTERT (DYANA), PETER GUENTERT (DYANA) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REMARK 3 STRUCTURE BASED ON A TOTAL OF 1301 UNIQUE DISTANCE CONSTRAINTS REMARK 3 (OBTAINED FROM REMARK 3 3095 NOE CROSSPEAKS), INCLUDING 374 INTRARESIDUE, 405 SHORT-RANGE, REMARK 3 228 MEDIUM REMARK 3 RANGE AND 294 LONG-RANGE CONSTRAINTS. DYANA 1.5 ANNEAL COMMAND REMARK 3 (10000 STEPS) REMARK 3 USED TO GENERATE 40 CONFORMERS. 20 LOWEST TARGET FUNCTION REMARK 3 STRUCTURES ANALYZED. REMARK 3 CONFORMER 4 CHOSEN FOR DEPOSITION AS CLOSEST TO MEAN COORDINATES REMARK 3 OF THE REMARK 3 ENSEMBLE. REMARK 4 REMARK 4 1DC8 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 11-NOV-99. REMARK 100 THE DEPOSITION ID IS D_1000009966. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 6.75 REMARK 210 IONIC STRENGTH : 250-500 MM REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : 0.3 MM NTRC(1-124) U-15N; 200 MM REMARK 210 SODIUM PHOSPHATE, PH 6.75; 50 MM REMARK 210 MAGNESIUM CHLORIDE; 200 MM REMARK 210 CARBAMOYLPHOSPHATE; 0.3 MM REMARK 210 NTRC(1-124) U-15N,13C; 200 MM REMARK 210 SODIUM PHOSPHATE, PH 6.75; 50 MM REMARK 210 MAGNESIUM CHLORIDE; 200 MM REMARK 210 CARBAMOYLPHOSPHATE; 0.3 MM REMARK 210 NTRC(1-124) U-15N; 200 MM SODIUM REMARK 210 PHOSPHATE, PH 6.75; 50 MM REMARK 210 MAGNESIUM CHLORIDE; 200 MM REMARK 210 CARBAMOYLPHOSPHATE REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D_15N-SEPARATED_NOESY; 3D_13C REMARK 210 -SEPARATED_NOESY; 2D NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ; 750 MHZ REMARK 210 SPECTROMETER MODEL : DMX REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : FELIX 95.0, XWINNMR 1.5, DYANA REMARK 210 1.5, XEASY 1.3.13 REMARK 210 METHOD USED : TORSION ANGLE DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : NULL REMARK 210 CONFORMERS, NUMBER SUBMITTED : 1 REMARK 210 CONFORMERS, SELECTION CRITERIA : NULL REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : NULL REMARK 210 REMARK 210 REMARK: REMARK 210 PHOSPHORYLATION (>95%) COULD BE MAINTAINED FOR 36 HR. TO OBTAIN REMARK 210 SUFFICIENT S/N REMARK 210 IN 3D NOESY EXPERIMENTS, MULTIPLE (TYPICALLY 4) COMPLETE 3D REMARK 210 DATASETS WERE REMARK 210 ACQUIRED ON FRESHLY PREPARED SAMPLES AND THEN COADDED TO YIELD REMARK 210 HIGH-QUALITY REMARK 210 DATASETS FOR STRUCTURE DETERMINATION. 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 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (RES=RESIDUE NAME; REMARK 470 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 470 RES CSSEQI ATOMS REMARK 470 PHD A 54 P OP1 OP2 OP3 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 O ILE A 108 H VAL A 112 1.49 REMARK 500 O ILE A 15 H LEU A 19 1.54 REMARK 500 O ASP A 109 H ALA A 113 1.57 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 ASP A 11 31.46 -166.49 REMARK 500 ASP A 12 -79.73 -62.13 REMARK 500 SER A 13 -44.69 -154.99 REMARK 500 SER A 14 41.73 -174.95 REMARK 500 LEU A 28 147.88 174.95 REMARK 500 THR A 29 109.33 55.61 REMARK 500 GLU A 34 -76.87 -95.82 REMARK 500 ASN A 37 -74.16 -59.81 REMARK 500 LYS A 46 -78.25 -97.65 REMARK 500 THR A 47 103.78 71.31 REMARK 500 PRO A 48 -162.46 -75.00 REMARK 500 LEU A 52 -157.62 -104.78 REMARK 500 SER A 53 89.73 167.01 REMARK 500 ILE A 55 -146.17 -176.04 REMARK 500 ARG A 56 38.98 175.50 REMARK 500 MET A 60 -82.26 -139.57 REMARK 500 ASP A 61 165.04 50.41 REMARK 500 ALA A 64 -139.33 34.23 REMARK 500 LEU A 65 -89.98 -46.19 REMARK 500 LEU A 66 -25.20 154.84 REMARK 500 LYS A 67 -72.39 -80.13 REMARK 500 LYS A 70 -91.81 -52.23 REMARK 500 HIS A 73 84.00 -165.39 REMARK 500 ILE A 79 -147.73 35.37 REMARK 500 THR A 82 120.67 161.85 REMARK 500 ALA A 83 -143.94 -83.93 REMARK 500 HIS A 84 -156.80 45.96 REMARK 500 ASP A 86 55.69 179.30 REMARK 500 VAL A 91 -60.26 -137.62 REMARK 500 GLN A 95 44.94 -179.06 REMARK 500 GLN A 96 -89.93 -174.47 REMARK 500 ALA A 98 131.98 93.97 REMARK 500 TYR A 101 140.97 -176.29 REMARK 500 LYS A 104 171.30 55.52 REMARK 500 PHE A 106 -171.52 -51.61 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1NTR RELATED DB: PDB REMARK 900 THREE-DIMENSIONAL SOLUTION STRUCTURE OF THE N-TERMINAL RECEIVER REMARK 900 DOMAIN OF NTRC REMARK 900 RELATED ID: 1DC7 RELATED DB: PDB REMARK 900 UNPHOSPHORYLATED NTRC RECEIVER DOMAIN DBREF 1DC8 A 1 124 UNP P41789 NTRC_SALTY 1 124 SEQADV 1DC8 PHD A 54 UNP P41789 ASP 54 MODIFIED RESIDUE SEQRES 1 A 124 MET GLN ARG GLY ILE VAL TRP VAL VAL ASP ASP ASP SER SEQRES 2 A 124 SER ILE ARG TRP VAL LEU GLU ARG ALA LEU ALA GLY ALA SEQRES 3 A 124 GLY LEU THR CYS THR THR PHE GLU ASN GLY ASN GLU VAL SEQRES 4 A 124 LEU ALA ALA LEU ALA SER LYS THR PRO ASP VAL LEU LEU SEQRES 5 A 124 SER PHD ILE ARG MET PRO GLY MET ASP GLY LEU ALA LEU SEQRES 6 A 124 LEU LYS GLN ILE LYS GLN ARG HIS PRO MET LEU PRO VAL SEQRES 7 A 124 ILE ILE MET THR ALA HIS SER ASP LEU ASP ALA ALA VAL SEQRES 8 A 124 SER ALA TYR GLN GLN GLY ALA PHE ASP TYR LEU PRO LYS SEQRES 9 A 124 PRO PHE ASP ILE ASP GLU ALA VAL ALA LEU VAL GLU ARG SEQRES 10 A 124 ALA ILE SER HIS TYR GLN GLU MODRES 1DC8 PHD A 54 ASP ASPARTYL PHOSPHATE HET PHD A 54 12 HETNAM PHD ASPARTYL PHOSPHATE FORMUL 1 PHD C4 H8 N O7 P HELIX 1 1 ILE A 15 ALA A 24 1 10 HELIX 2 2 GLY A 25 GLY A 27 5 3 HELIX 3 3 GLY A 36 ALA A 42 1 7 HELIX 4 4 GLN A 68 HIS A 73 1 6 HELIX 5 5 ILE A 108 SER A 120 1 13 HELIX 6 6 HIS A 121 GLN A 123 5 3 LINK C SER A 53 N PHD A 54 1555 1555 1.33 LINK C PHD A 54 N ILE A 55 1555 1555 1.33 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