HEADER SIGNALING PROTEIN 10-JAN-06 2FN5 TITLE NMR STRUCTURE OF THE NEURABIN PDZ DOMAIN (502-594) COMPND MOL_ID: 1; COMPND 2 MOLECULE: NEURABIN-1; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: PDZ DOMAIN; COMPND 5 SYNONYM: NEURABIN-I, NEURAL TISSUE-SPECIFIC F-ACTIN BINDING PROTEIN COMPND 6 I, PROTEIN PHOSPHATASE 1 REGULATORY SUBUNIT 9A, P180, PP1BP175; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: RATTUS NORVEGICUS; SOURCE 3 ORGANISM_COMMON: NORWAY RAT; SOURCE 4 ORGANISM_TAXID: 10116; SOURCE 5 GENE: PPP1R9A; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 9 EXPRESSION_SYSTEM_CELL_LINE: IRL; SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: RP1B KEYWDS PDZ, NEURABIN, SIGNALING PROTEIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR B.DANCHECK,W.PETI REVDAT 6 08-MAY-24 2FN5 1 REMARK REVDAT 5 14-JUN-23 2FN5 1 REMARK REVDAT 4 05-FEB-20 2FN5 1 REMARK SEQADV REVDAT 3 24-FEB-09 2FN5 1 VERSN REVDAT 2 27-MAR-07 2FN5 1 JRNL REVDAT 1 09-JAN-07 2FN5 0 JRNL AUTH M.S.KELKER,B.DANCHECK,T.JU,R.P.KESSLER,J.HUDAK,A.C.NAIRN, JRNL AUTH 2 W.PETI JRNL TITL STRUCTURAL BASIS FOR SPINOPHILIN-NEURABIN RECEPTOR JRNL TITL 2 INTERACTION. JRNL REF BIOCHEMISTRY V. 46 2333 2007 JRNL REFN ISSN 0006-2960 JRNL PMID 17279777 JRNL DOI 10.1021/BI602341C REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : TOPSPIN 1.3, CNS 1.2 REMARK 3 AUTHORS : BRUKER (TOPSPIN), BRUNGER (CNS) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: WATER SHELL USING RECOORD SKRIPTS REMARK 4 REMARK 4 2FN5 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 26-JAN-06. REMARK 100 THE DEPOSITION ID IS D_1000036074. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 6.5 REMARK 210 IONIC STRENGTH : 50 MM NACL REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 3.5 MM NEURABIN PDZ 502-594 U REMARK 210 -15N,13C, 20 MM NAPHOSPHATE REMARK 210 BUFFER PH 6.5, 50 MM NACL, 90% REMARK 210 H2O, 10% D2O; 3.5 MM NEURABIN REMARK 210 PDZ 502-594 U-15N, 20 MM REMARK 210 NAPHOSPHATE BUFFER PH 6.5, 50 MM REMARK 210 NACL, 90% H2O, 10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D_13C-SEPARATED_NOESY; 3D_15N REMARK 210 -SEPARATED_NOESY; 2D NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ; 500 MHZ REMARK 210 SPECTROMETER MODEL : DRX; AVANCE II REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : TOPSPIN 1.3, CARA 1.3, REMARK 210 ATNOS/CANDID 1, CYANA 2 REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 50 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LOWEST REMARK 210 ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 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: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 3 GLY A 46 N GLY A 46 CA -0.091 REMARK 500 8 GLY A 46 N GLY A 46 CA -0.090 REMARK 500 15 GLY A 46 N GLY A 46 CA -0.107 REMARK 500 17 GLY A 46 N GLY A 46 CA -0.097 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 ASP A 29 -32.07 76.13 REMARK 500 1 GLU A 33 75.79 60.03 REMARK 500 1 SER A 67 80.97 39.34 REMARK 500 1 LEU A 68 36.78 -92.24 REMARK 500 1 LYS A 84 -161.24 -118.90 REMARK 500 2 MET A 3 93.81 69.38 REMARK 500 2 GLU A 33 97.15 64.22 REMARK 500 2 ASP A 58 -168.37 -100.66 REMARK 500 2 SER A 67 83.84 49.01 REMARK 500 2 VAL A 69 93.43 -56.13 REMARK 500 2 LYS A 84 -155.57 -139.25 REMARK 500 3 MET A 3 112.09 -160.41 REMARK 500 3 LEU A 17 -62.77 -108.10 REMARK 500 3 GLU A 33 77.32 54.64 REMARK 500 3 ALA A 47 -8.12 -56.61 REMARK 500 3 SER A 67 95.24 54.59 REMARK 500 3 VAL A 69 93.56 -61.84 REMARK 500 3 LYS A 84 -167.50 -107.07 REMARK 500 4 LEU A 17 -63.68 -108.49 REMARK 500 4 GLU A 33 82.88 54.45 REMARK 500 4 LYS A 34 -155.60 -126.63 REMARK 500 4 THR A 43 -170.50 53.91 REMARK 500 4 GLU A 44 -153.37 -81.84 REMARK 500 4 SER A 67 84.96 48.20 REMARK 500 4 VAL A 69 97.25 -58.16 REMARK 500 4 LYS A 84 -157.48 -120.71 REMARK 500 5 GLU A 33 78.46 57.77 REMARK 500 5 ALA A 47 0.59 -58.59 REMARK 500 5 ASP A 64 -22.56 73.03 REMARK 500 5 SER A 67 81.57 49.03 REMARK 500 5 LEU A 68 30.22 -95.58 REMARK 500 5 LEU A 80 0.42 -68.41 REMARK 500 5 LYS A 84 -164.91 -111.51 REMARK 500 6 GLU A 33 72.84 53.66 REMARK 500 6 LEU A 35 170.90 -56.00 REMARK 500 6 ALA A 47 -25.61 170.44 REMARK 500 6 SER A 67 79.71 49.09 REMARK 500 6 VAL A 69 92.34 -58.11 REMARK 500 7 GLU A 33 84.35 61.55 REMARK 500 7 SER A 67 76.48 47.97 REMARK 500 7 LEU A 68 32.20 -88.90 REMARK 500 7 VAL A 69 95.81 -69.69 REMARK 500 7 LYS A 84 -163.41 -113.42 REMARK 500 8 LEU A 17 -61.51 -103.50 REMARK 500 8 GLU A 33 82.86 60.01 REMARK 500 8 ALA A 47 0.87 -58.73 REMARK 500 8 ASP A 64 -9.96 71.42 REMARK 500 8 SER A 67 81.41 50.87 REMARK 500 8 VAL A 69 98.08 -57.62 REMARK 500 9 HIS A 2 102.64 69.53 REMARK 500 REMARK 500 THIS ENTRY HAS 137 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 9 ARG A 53 0.07 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 6933 RELATED DB: BMRB REMARK 900 RELATED ID: 1WF8 RELATED DB: PDB DBREF 2FN5 A 4 94 UNP O35867 NEB1_RAT 502 594 SEQADV 2FN5 GLY A 1 UNP O35867 CLONING ARTIFACT SEQADV 2FN5 HIS A 2 UNP O35867 CLONING ARTIFACT SEQADV 2FN5 MET A 3 UNP O35867 CLONING ARTIFACT SEQRES 1 A 94 GLY HIS MET GLU LEU PHE PRO VAL GLU LEU GLU LYS ASP SEQRES 2 A 94 GLU ASP GLY LEU GLY ILE SER ILE ILE GLY MET GLY VAL SEQRES 3 A 94 GLY ALA ASP ALA GLY LEU GLU LYS LEU GLY ILE PHE VAL SEQRES 4 A 94 LYS THR VAL THR GLU GLY GLY ALA ALA GLN ARG ASP GLY SEQRES 5 A 94 ARG ILE GLN VAL ASN ASP GLN ILE VAL GLU VAL ASP GLY SEQRES 6 A 94 ILE SER LEU VAL GLY VAL THR GLN ASN PHE ALA ALA THR SEQRES 7 A 94 VAL LEU ARG ASN THR LYS GLY ASN VAL ARG PHE VAL ILE SEQRES 8 A 94 GLY ARG GLU HELIX 1 1 THR A 72 THR A 83 1 12 SHEET 1 A 3 GLU A 4 GLU A 11 0 SHEET 2 A 3 ASN A 86 ARG A 93 -1 O ILE A 91 N PHE A 6 SHEET 3 A 3 ILE A 60 VAL A 63 -1 N GLU A 62 O VAL A 90 SHEET 1 B 2 SER A 20 GLY A 23 0 SHEET 2 B 2 ILE A 37 THR A 41 -1 O THR A 41 N SER A 20 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