HEADER TRANSFERASE 08-MAR-02 1L6E TITLE SOLUTION STRUCTURE OF THE DOCKING AND DIMERIZATION DOMAIN OF PROTEIN TITLE 2 KINASE A II-ALPHA (RIIALPHA D/D). ALTERNATIVELY CALLED THE N-TERMINAL TITLE 3 DIMERIZATION DOMAIN OF THE REGULATORY SUBUNIT OF PROTEIN KINASE A. COMPND MOL_ID: 1; COMPND 2 MOLECULE: CAMP-DEPENDENT PROTEIN KINASE TYPE II-ALPHA REGULATORY COMPND 3 CHAIN; COMPND 4 CHAIN: A, B; COMPND 5 FRAGMENT: N-TERMINAL DOCKING AND DIMERIZATION DOMAIN; COMPND 6 EC: 2.7.1.37; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_COMMON: HOUSE MOUSE; SOURCE 4 ORGANISM_TAXID: 10090; SOURCE 5 GENE: RIIA(1-44); SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET-16B KEYWDS FOUR-HELIX BUNDLE, HELIX-LOOP-HELIX, REGULATORY SUBUNIT, KEYWDS 2 DIMERIZATION, DOCKING, ANCHORING, TRANSFERASE EXPDTA SOLUTION NMR NUMMDL 24 AUTHOR D.MORIKIS,M.ROY,M.G.NEWLON,J.D.SCOTT,P.A.JENNINGS REVDAT 5 23-FEB-22 1L6E 1 REMARK SEQADV REVDAT 4 24-FEB-09 1L6E 1 VERSN REVDAT 3 01-APR-03 1L6E 1 JRNL REVDAT 2 28-AUG-02 1L6E 1 JRNL REVDAT 1 03-APR-02 1L6E 0 JRNL AUTH D.MORIKIS,M.ROY,M.G.NEWLON,J.D.SCOTT,P.A.JENNINGS JRNL TITL ELECTROSTATIC PROPERTIES OF THE STRUCTURE OF THE DOCKING AND JRNL TITL 2 DIMERIZATION DOMAIN OF PROTEIN KINASE A IIALPHA JRNL REF EUR.J.BIOCHEM. V. 269 2040 2002 JRNL REFN ISSN 0014-2956 JRNL PMID 11985580 JRNL DOI 10.1046/J.1432-1033.2002.02852.X REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH M.G.NEWLON,M.ROY,D.MORIKIS,Z.E.HAUSKEN,V.COGHLAN,J.D.SCOTT, REMARK 1 AUTH 2 P.A.JENNINGS REMARK 1 TITL THE MOLECULAR BASIS FOR PROTEIN KINASE A ANCHORING REVEALED REMARK 1 TITL 2 BY SOLUTION NMR. REMARK 1 REF NAT.STRUCT.BIOL. V. 6 222 1999 REMARK 1 REFN ISSN 1072-8368 REMARK 1 DOI 10.1038/6663 REMARK 1 REFERENCE 2 REMARK 1 AUTH M.G.NEWLON,M.ROY,Z.E.HAUSKEN,J.D.SCOTT,P.A.JENNINGS REMARK 1 TITL THE A-KINASE ANCHORING DOMAIN OF TYPE II-ALPHA REMARK 1 TITL 2 CAMP-DEPENDENT PROTEIN KINASE IS HIGHLY HELICAL. REMARK 1 REF J.BIOL.CHEM. V. 272 23637 1997 REMARK 1 REFN ISSN 0021-9258 REMARK 1 DOI 10.1074/JBC.272.38.23637 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR 3.851, X-PLOR 3.851 REMARK 3 AUTHORS : BRUNGER, A.T. (X-PLOR), BRUNGER, A.T. (X-PLOR) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REMARK 3 FILTERED NOESY SPECTRUM ON A 50% UNLABELED-50% 13C-15N-LABELED REMARK 3 SAMPLE WAS REMARK 3 USED TO OBTAIN INTER-MOLECULAR NOE CONTACTS OF THE HOMODIMER. REMARK 3 OTHER NOES WERE REMARK 3 CLASSIFIED AS INTRA-MOLECULAR AND AMBIGUOUS. REMARK 4 REMARK 4 1L6E COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 13-MAR-02. REMARK 100 THE DEPOSITION ID IS D_1000015682. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298; 298; 298; 298 REMARK 210 PH : 4; 4; 4; 4 REMARK 210 IONIC STRENGTH : 0.012; 0.012; 0.012; 0.012 REMARK 210 PRESSURE : 1 ATM; 1 ATM; 1 ATM; 1 ATM REMARK 210 SAMPLE CONTENTS : 2MM DIMER PROTEIN IN 20 MM REMARK 210 SODIUM PHOSPHATE BUFFER, 90%H2O- REMARK 210 10% D2O, AT PH 4 AND TEMPERATURE REMARK 210 298K; 1MM DIMER PROTEIN 15N IN REMARK 210 20 MM SODIUM PHOSPHATE BUFFER, REMARK 210 90%H2O-10% D2O, AT PH 4 AND REMARK 210 TEMPERATURE 298K; 1MM DIMER REMARK 210 PROTEIN 13C-15N IN 20 MM SODIUM REMARK 210 PHOSPHATE BUFFER, 90%H2O-10% D2O, REMARK 210 AT PH 4 AND TEMPERATURE 298K; REMARK 210 MIXTURE OF 2MM UNLABELED AND 2 REMARK 210 MM 13C-15N LABELED SAMPLE REMARK 210 UNFOLDED IN 5 M GUANADINE REMARK 210 HYDROCHLORIDE AND REFOLDED IN 20 REMARK 210 MM SODIUM PHOSPHATE BUFFER, 90% REMARK 210 H2O-10% D2O, AT PH 4 AND REMARK 210 TEMPERATURE 298K REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : NULL REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ; 600 MHZ REMARK 210 SPECTROMETER MODEL : DMX; DRX REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NULL REMARK 210 METHOD USED : HYBRID DISTANCE GEOMETRY REMARK 210 -DYNAMICAL SIMULATED ANNEALING REMARK 210 AND REFINEMENT PROTOCOL FOR REMARK 210 MONOMER STRUCTURE DETERMINATION, REMARK 210 WITH 457 NOE-DERIVED DISTANCE REMARK 210 RESTRAINTS (185 INTRA-RESIDUE, I- REMARK 210 J=0; 136 SEQUENTIAL, |I-J|=1; 95 REMARK 210 MEDIUM RANGE, 1<|I-J|<5; 41 LONG REMARK 210 RANGE, |I-J|>4), 19 DISTANCE REMARK 210 RESTRAINTS REPRESENTING HYDROGEN REMARK 210 BONDS (ENTERED AS 2 DISTANCES REMARK 210 EACH), 25 PHI- AND 5 CHI1- REMARK 210 TORSION ANGLE RESTRAINTS. REMARK 210 MOLECULAR DYNAMICAL SIMULATED REMARK 210 ANNEALING PROTOCOL FOR DIMER REMARK 210 STRUCTURE DETERMINATION, USING REMARK 210 505 NOE-DERIVED DISTANCE REMARK 210 RESTRAINTS (185 INTRA-RESIDUE, I- REMARK 210 J=0; 136 SEQUENTIAL, |I-J|=1; 95 REMARK 210 MEDIUM RANGE, 1<|I-J|<5; 25 LONG REMARK 210 RANGE, |I-J|>4; 38 INTER- REMARK 210 MOLECULAR; 26 AMBIGUOUS), 19 REMARK 210 DISTANCE RESTRAINTS REPRESENTING REMARK 210 HYDROGEN BONDS (ENTERED AS 2 REMARK 210 DISTANCES EACH), 25 PHI- AND 5 REMARK 210 CHI1-TORSION ANGLE RESTRAINTS. REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 49 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 24 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LEAST REMARK 210 RESTRAINT VIOLATIONS,STRUCTURES REMARK 210 WITH THE LOWEST ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: REMARK 210 THIS STRUCTURE WAS DETERMINED USING STANDARD HOMONUCLEAR, REMARK 210 HETERONUCLEAR, AND TRIPLE RESONANCE SPECTROSCOPY, REMARK 210 AND 3D 13C-EDITED(W2)-12C-FILTERED(W1)/13C-FILTERED(W3) NOESY. 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: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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 O LEU B 30 H ALA B 34 1.55 REMARK 500 O LEU A 30 H ALA A 34 1.56 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 GLN A 6 48.65 -143.69 REMARK 500 1 THR A 12 -70.70 -59.06 REMARK 500 1 GLU A 21 -64.32 -90.86 REMARK 500 1 GLN A 25 20.58 -159.20 REMARK 500 1 GLN A 26 89.42 0.59 REMARK 500 1 ARG A 45 -36.84 -32.93 REMARK 500 1 GLN B 6 49.73 -143.28 REMARK 500 1 THR B 12 -70.63 -59.04 REMARK 500 1 GLU B 21 -64.80 -90.84 REMARK 500 1 GLN B 25 19.68 -158.74 REMARK 500 1 GLN B 26 89.30 1.72 REMARK 500 1 ARG B 45 -36.60 -32.81 REMARK 500 2 LEU A 11 -73.97 -58.66 REMARK 500 2 VAL A 31 -54.05 -27.98 REMARK 500 2 ALA A 44 -73.40 -124.00 REMARK 500 2 ARG A 45 84.23 -15.80 REMARK 500 2 LEU B 11 -73.63 -58.69 REMARK 500 2 VAL B 31 -54.24 -27.91 REMARK 500 2 ALA B 44 -73.44 -123.92 REMARK 500 2 ARG B 45 84.33 -15.81 REMARK 500 3 MET A 2 54.16 -110.84 REMARK 500 3 GLU A 13 -78.44 -53.62 REMARK 500 3 GLN A 26 70.24 37.82 REMARK 500 3 VAL A 31 -66.61 -22.73 REMARK 500 3 ALA A 44 -70.87 -51.41 REMARK 500 3 ARG A 45 133.89 -22.14 REMARK 500 3 MET B 2 54.39 -110.40 REMARK 500 3 GLU B 13 -78.38 -52.48 REMARK 500 3 GLN B 26 70.08 37.73 REMARK 500 3 VAL B 31 -66.78 -22.99 REMARK 500 3 ALA B 44 -70.87 -51.40 REMARK 500 3 ARG B 45 134.17 -22.24 REMARK 500 4 GLN A 26 72.67 36.47 REMARK 500 4 ASP A 29 119.65 -160.62 REMARK 500 4 ALA A 44 -70.48 -56.14 REMARK 500 4 ARG A 45 -92.09 -28.02 REMARK 500 4 GLN B 26 72.89 36.60 REMARK 500 4 ASP B 29 119.54 -160.84 REMARK 500 4 ARG B 45 -91.74 -30.54 REMARK 500 5 MET A 2 -56.11 68.97 REMARK 500 5 HIS A 4 -89.97 -143.62 REMARK 500 5 THR A 12 -73.47 -55.19 REMARK 500 5 GLU A 21 -61.25 -94.03 REMARK 500 5 GLN A 25 20.68 -165.10 REMARK 500 5 GLN A 26 91.08 -3.35 REMARK 500 5 LEU A 30 -70.41 -90.62 REMARK 500 5 ARG A 45 -89.24 -20.83 REMARK 500 5 MET B 2 -56.23 68.82 REMARK 500 5 HIS B 4 -89.78 -143.36 REMARK 500 5 THR B 12 -73.53 -53.71 REMARK 500 REMARK 500 THIS ENTRY HAS 327 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 1 ARG A 40 0.13 SIDE CHAIN REMARK 500 1 ARG A 42 0.31 SIDE CHAIN REMARK 500 1 ARG A 45 0.11 SIDE CHAIN REMARK 500 1 ARG A 46 0.23 SIDE CHAIN REMARK 500 1 ARG B 40 0.13 SIDE CHAIN REMARK 500 1 ARG B 42 0.31 SIDE CHAIN REMARK 500 1 ARG B 45 0.12 SIDE CHAIN REMARK 500 1 ARG B 46 0.23 SIDE CHAIN REMARK 500 2 ARG A 24 0.30 SIDE CHAIN REMARK 500 2 ARG A 40 0.19 SIDE CHAIN REMARK 500 2 ARG A 42 0.11 SIDE CHAIN REMARK 500 2 ARG A 45 0.18 SIDE CHAIN REMARK 500 2 ARG B 24 0.30 SIDE CHAIN REMARK 500 2 ARG B 40 0.19 SIDE CHAIN REMARK 500 2 ARG B 42 0.10 SIDE CHAIN REMARK 500 2 ARG B 45 0.18 SIDE CHAIN REMARK 500 3 ARG A 24 0.32 SIDE CHAIN REMARK 500 3 ARG A 40 0.16 SIDE CHAIN REMARK 500 3 ARG A 42 0.08 SIDE CHAIN REMARK 500 3 ARG A 45 0.23 SIDE CHAIN REMARK 500 3 ARG A 46 0.08 SIDE CHAIN REMARK 500 3 ARG B 24 0.32 SIDE CHAIN REMARK 500 3 ARG B 40 0.16 SIDE CHAIN REMARK 500 3 ARG B 42 0.09 SIDE CHAIN REMARK 500 3 ARG B 45 0.24 SIDE CHAIN REMARK 500 3 ARG B 46 0.08 SIDE CHAIN REMARK 500 4 ARG A 24 0.30 SIDE CHAIN REMARK 500 4 ARG A 40 0.20 SIDE CHAIN REMARK 500 4 ARG A 42 0.30 SIDE CHAIN REMARK 500 4 ARG A 45 0.16 SIDE CHAIN REMARK 500 4 ARG A 46 0.32 SIDE CHAIN REMARK 500 4 ARG B 24 0.30 SIDE CHAIN REMARK 500 4 ARG B 40 0.20 SIDE CHAIN REMARK 500 4 ARG B 42 0.29 SIDE CHAIN REMARK 500 4 ARG B 45 0.16 SIDE CHAIN REMARK 500 4 ARG B 46 0.32 SIDE CHAIN REMARK 500 5 ARG A 24 0.32 SIDE CHAIN REMARK 500 5 ARG A 40 0.29 SIDE CHAIN REMARK 500 5 ARG A 42 0.27 SIDE CHAIN REMARK 500 5 ARG A 45 0.29 SIDE CHAIN REMARK 500 5 ARG A 46 0.22 SIDE CHAIN REMARK 500 5 ARG B 24 0.32 SIDE CHAIN REMARK 500 5 ARG B 40 0.30 SIDE CHAIN REMARK 500 5 ARG B 42 0.27 SIDE CHAIN REMARK 500 5 ARG B 45 0.29 SIDE CHAIN REMARK 500 5 ARG B 46 0.22 SIDE CHAIN REMARK 500 6 ARG A 24 0.14 SIDE CHAIN REMARK 500 6 ARG A 40 0.16 SIDE CHAIN REMARK 500 6 ARG A 42 0.32 SIDE CHAIN REMARK 500 6 ARG A 45 0.24 SIDE CHAIN REMARK 500 REMARK 500 THIS ENTRY HAS 222 PLANE DEVIATIONS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1R2A RELATED DB: PDB REMARK 900 1R2A CONTAINS THE SAME PROTEIN. REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE FIRST 3 RESIDUES ARE DIFFERENT DUE TO REMARK 999 RECOMBINANT EXPRESSION AND PROTEOLYTIC REMARK 999 CLEAVAGE. DBREF 1L6E A 4 46 UNP P12367 KAP2_MOUSE 2 43 DBREF 1L6E B 4 46 UNP P12367 KAP2_MOUSE 2 43 SEQADV 1L6E HIS A 1 UNP P12367 SEE REMARK 999 SEQADV 1L6E MET A 2 UNP P12367 SEE REMARK 999 SEQADV 1L6E GLY A 3 UNP P12367 SEE REMARK 999 SEQADV 1L6E LEU A 23A UNP P12367 INSERTION SEQADV 1L6E ARG A 24 UNP P12367 GLY 21 VARIANT SEQADV 1L6E HIS B 1 UNP P12367 SEE REMARK 999 SEQADV 1L6E MET B 2 UNP P12367 SEE REMARK 999 SEQADV 1L6E GLY B 3 UNP P12367 SEE REMARK 999 SEQADV 1L6E LEU B 23B UNP P12367 INSERTION SEQADV 1L6E ARG B 24 UNP P12367 GLY 21 VARIANT SEQRES 1 A 46 HIS MET GLY HIS ILE GLN ILE PRO PRO GLY LEU THR GLU SEQRES 2 A 46 LEU LEU GLN GLY TYR THR VAL GLU VAL LEU ARG GLN GLN SEQRES 3 A 46 PRO PRO ASP LEU VAL ASP PHE ALA VAL GLU TYR PHE THR SEQRES 4 A 46 ARG LEU ARG GLU ALA ARG ARG SEQRES 1 B 46 HIS MET GLY HIS ILE GLN ILE PRO PRO GLY LEU THR GLU SEQRES 2 B 46 LEU LEU GLN GLY TYR THR VAL GLU VAL LEU ARG GLN GLN SEQRES 3 B 46 PRO PRO ASP LEU VAL ASP PHE ALA VAL GLU TYR PHE THR SEQRES 4 B 46 ARG LEU ARG GLU ALA ARG ARG HELIX 1 1 GLY A 10 GLN A 25 1 16 HELIX 2 2 ASP A 29 ARG A 42 1 14 HELIX 3 3 GLY B 10 GLN B 25 1 16 HELIX 4 4 ASP B 29 ARG B 42 1 14 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