HEADER TRANSFERASE 28-FEB-14 4CRP TITLE SOLUTION STRUCTURE OF A TRKAIG2 DOMAIN CONSTRUCT FOR USE IN DRUG TITLE 2 DISCOVERY COMPND MOL_ID: 1; COMPND 2 MOLECULE: HIGH AFFINITY NERVE GROWTH FACTOR RECEPTOR; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: EXTRACELLULAR NGF BINDING DOMAIN, RESIDUES 270-383; COMPND 5 SYNONYM: NEUROTROPHIC TYROSINE KINASE RECEPTOR TYPE 1, TRK1- COMPND 6 TRANSFORMING TYROSINE KINASE PROTEIN, TROPOMYOSIN-RELATED KINASE A, COMPND 7 TYROSINE KINASE RECEPTOR, TYROSINE KINASE RECEPTOR A, TRK-A, COMPND 8 GP140TRK, P140-TRKA; COMPND 9 EC: 2.7.10.1; COMPND 10 ENGINEERED: YES; COMPND 11 MUTATION: YES; COMPND 12 OTHER_DETAILS: P285C, F367C INTRODUCED TO ADD A DISULPHIDE BOND TO COMPND 13 IMPROVE PROTEIN STABILITY SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR: PET SYSTEM; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET24A KEYWDS TRANSFERASE, TRKAIG2, NMR CONSTRUCT, PAIN, ALZHEIMERS EXPDTA SOLUTION NMR NUMMDL 25 AUTHOR D.K.SHOEMARK,M.FAHEY,C.WILLIAMS,R.B.SESSIONS,M.P.CRUMP,S.J.ALLEN-BIRT REVDAT 4 14-JUN-23 4CRP 1 REMARK REVDAT 3 27-APR-16 4CRP 1 ATOM TER CONECT MASTER REVDAT 2 04-FEB-15 4CRP 1 JRNL REVDAT 1 14-JAN-15 4CRP 0 JRNL AUTH S.J.ALLEN,J.J.WATSON,D.K.SHOEMARK,N.U.BARUA,N.K.PATEL JRNL TITL DESIGN AND NUCLEAR MAGNETIC RESONANCE (NMR) STRUCTURE JRNL TITL 2 DETERMINATION OF THE SECOND EXTRACELLULAR IMMUNOGLOBULIN JRNL TITL 3 TYROSINE KINASE A (TRKAIG2) DOMAIN CONSTRUCT FOR BINDING JRNL TITL 4 SITE ELUCIDATION IN DRUG DISCOVERY JRNL REF J.MED.CHEM. V. 58 767 2015 JRNL REFN ISSN 0022-2623 JRNL PMID 25454499 JRNL DOI 10.1021/JM501307E REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE-KUNSTLEVE, REMARK 3 JIANG,KUSZEWSKI,NILGES,PANNU,READ,RICE,SIMONSON, REMARK 3 WARREN REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: WATER REFINED USING THE RECOORD REMARK 3 PROTOCOL REMARK 4 REMARK 4 4CRP COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 28-FEB-14. REMARK 100 THE DEPOSITION ID IS D_1290059825. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 293.0 REMARK 210 PH : 6.9 REMARK 210 IONIC STRENGTH : 10 REMARK 210 PRESSURE : 1.0 ATM REMARK 210 SAMPLE CONTENTS : 90% H2O, 10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : NOESY; TOCSY; HNCA; HNCACB; REMARK 210 CCONH; HCCH-TOCSY; HCCONH REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : VNMRS REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : CNS 1.2 REMARK 210 METHOD USED : ARIA 2.3 REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 250 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 25 REMARK 210 CONFORMERS, SELECTION CRITERIA : LOWEST ENERGY, LEAST VIOLATION 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 ON 15N AND 13C, 15N-LABELED SAMPLES 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PQS 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 HH12 ARG A 38 OE1 GLU A 48 1.59 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 8 TYR A 83 CE1 TYR A 83 CZ -0.088 REMARK 500 16 TYR A 83 CE1 TYR A 83 CZ -0.080 REMARK 500 21 TYR A 83 CE1 TYR A 83 CZ -0.094 REMARK 500 21 TYR A 83 CZ TYR A 83 CE2 0.081 REMARK 500 24 TYR A 83 CE1 TYR A 83 CZ -0.099 REMARK 500 24 TYR A 83 CZ TYR A 83 CE2 0.089 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 THR A 49 -165.69 -126.26 REMARK 500 1 HIS A 77 -6.40 -58.54 REMARK 500 1 PHE A 102 78.43 -100.07 REMARK 500 2 ASP A 4 54.89 38.60 REMARK 500 2 ASN A 42 17.70 59.58 REMARK 500 2 THR A 49 -165.97 -127.16 REMARK 500 2 ASN A 79 26.97 -78.58 REMARK 500 2 ASN A 80 53.47 -110.86 REMARK 500 3 ASP A 2 -72.30 -93.74 REMARK 500 3 VAL A 6 99.55 -50.04 REMARK 500 3 CYS A 9 -159.39 -92.40 REMARK 500 4 THR A 49 -165.44 -103.90 REMARK 500 5 ASP A 3 46.73 -87.87 REMARK 500 5 GLU A 19 89.43 -68.54 REMARK 500 5 THR A 49 -167.39 -106.67 REMARK 500 5 GLU A 58 102.88 -50.94 REMARK 500 5 PHE A 102 -87.46 -103.47 REMARK 500 6 ASP A 2 -61.20 -166.07 REMARK 500 6 GLU A 58 102.05 -47.56 REMARK 500 6 PHE A 102 -79.12 -93.68 REMARK 500 7 ASP A 2 79.97 58.53 REMARK 500 7 ASP A 4 -51.57 -157.61 REMARK 500 7 PHE A 102 -78.93 -111.77 REMARK 500 8 ASP A 4 14.14 59.98 REMARK 500 8 THR A 49 -163.84 -108.21 REMARK 500 8 PHE A 102 -71.76 -65.54 REMARK 500 9 ASP A 2 130.78 68.89 REMARK 500 9 THR A 49 -166.96 -120.77 REMARK 500 9 PHE A 102 73.95 -156.99 REMARK 500 10 MET A 20 -169.84 -169.70 REMARK 500 10 PHE A 102 -84.05 -99.29 REMARK 500 11 MET A 20 -177.65 -170.30 REMARK 500 11 ASN A 79 26.87 -78.03 REMARK 500 12 ASP A 2 -51.13 -135.29 REMARK 500 12 PHE A 102 -78.56 -92.64 REMARK 500 13 THR A 49 -162.89 -104.13 REMARK 500 14 THR A 49 -163.79 -123.87 REMARK 500 15 MET A 20 -162.46 -166.26 REMARK 500 15 PHE A 102 -72.80 -84.37 REMARK 500 16 THR A 49 -166.87 -118.48 REMARK 500 16 PHE A 102 -70.87 -78.02 REMARK 500 17 VAL A 6 99.33 -68.34 REMARK 500 17 GLU A 19 92.26 -67.78 REMARK 500 17 GLN A 32 -51.94 -122.55 REMARK 500 18 MET A 20 -171.70 -170.61 REMARK 500 19 PHE A 102 92.75 -161.33 REMARK 500 20 ASP A 2 77.81 -150.67 REMARK 500 20 THR A 49 -163.69 -126.64 REMARK 500 21 MET A 20 -166.91 -176.86 REMARK 500 21 PHE A 102 -76.88 -84.97 REMARK 500 REMARK 500 THIS ENTRY HAS 59 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 23 ARG A 71 0.07 SIDE CHAIN REMARK 500 23 TYR A 83 0.06 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 19824 RELATED DB: BMRB REMARK 999 REMARK 999 SEQUENCE REMARK 999 ENGINEERED N-TERMINAL ASP TAG (RESIDUES 1-5) AND REMARK 999 DISULPHIDE BOND. DBREF 4CRP A 6 107 UNP P04629 NTRK1_HUMAN 282 383 SEQADV 4CRP ASP A 1 UNP P04629 EXPRESSION TAG SEQADV 4CRP ASP A 2 UNP P04629 EXPRESSION TAG SEQADV 4CRP ASP A 4 UNP P04629 EXPRESSION TAG SEQADV 4CRP ASP A 5 UNP P04629 EXPRESSION TAG SEQADV 4CRP CYS A 9 UNP P04629 PRO 285 ENGINEERED MUTATION SEQADV 4CRP CYS A 91 UNP P04629 PHE 367 ENGINEERED MUTATION SEQRES 1 A 107 ASP ASP ASP ASP ASP VAL SER PHE CYS ALA SER VAL GLN SEQRES 2 A 107 LEU HIS THR ALA VAL GLU MET HIS HIS TRP CYS ILE PRO SEQRES 3 A 107 PHE SER VAL ASP GLY GLN PRO ALA PRO SER LEU ARG TRP SEQRES 4 A 107 LEU PHE ASN GLY SER VAL LEU ASN GLU THR SER PHE ILE SEQRES 5 A 107 PHE THR GLU PHE LEU GLU PRO ALA ALA ASN GLU THR VAL SEQRES 6 A 107 ARG HIS GLY CYS LEU ARG LEU ASN GLN PRO THR HIS VAL SEQRES 7 A 107 ASN ASN GLY ASN TYR THR LEU LEU ALA ALA ASN PRO CYS SEQRES 8 A 107 GLY GLN ALA SER ALA SER ILE MET ALA ALA PHE MET ASP SEQRES 9 A 107 ASN PRO PHE SHEET 1 AA 4 SER A 11 LEU A 14 0 SHEET 2 AA 4 TRP A 23 ASP A 30 -1 O SER A 28 N GLN A 13 SHEET 3 AA 4 VAL A 65 LEU A 72 -1 O ARG A 66 N VAL A 29 SHEET 4 AA 4 ILE A 52 LEU A 57 -1 O PHE A 53 N ARG A 71 SHEET 1 AB 4 SER A 44 VAL A 45 0 SHEET 2 AB 4 SER A 36 PHE A 41 -1 O PHE A 41 N SER A 44 SHEET 3 AB 4 ASN A 82 ALA A 88 -1 O THR A 84 N LEU A 40 SHEET 4 AB 4 GLN A 93 MET A 99 -1 O ALA A 94 N ALA A 87 SSBOND 1 CYS A 9 CYS A 91 1555 1555 2.02 SSBOND 2 CYS A 24 CYS A 69 1555 1555 2.02 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