HEADER MEMBRANE PROTEIN 12-DEC-13 2MIC TITLE NMR STRUCTURE OF P75 TRANSMEMBRANE DOMAIN IN DPC MICELLES COMPND MOL_ID: 1; COMPND 2 MOLECULE: TUMOR NECROSIS FACTOR RECEPTOR SUPERFAMILY MEMBER 16; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: UNP RESIDUES 245-284; COMPND 5 SYNONYM: GP80-LNGFR, LOW AFFINITY NEUROTROPHIN RECEPTOR P75NTR, LOW- COMPND 6 AFFINITY NERVE GROWTH FACTOR RECEPTOR, NGF RECEPTOR, P75 ICD; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: RATTUS NORVEGICUS; SOURCE 3 ORGANISM_COMMON: BROWN RAT,RAT,RATS; SOURCE 4 ORGANISM_TAXID: 10116; SOURCE 5 GENE: NGFR, TNFRSF16; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PGEMEX-1 KEYWDS DIMER, TRANSMEMBRANE, P75, MEMBRANE PROTEIN EXPDTA SOLUTION NMR NUMMDL 10 AUTHOR K.NADEZHDIN,A.ARSENIEV,S.GONCHARUK,K.MINEEV REVDAT 2 06-SEP-17 2MIC 1 JRNL REVDAT 1 24-DEC-14 2MIC 0 JRNL AUTH K.D.NADEZHDIN,I.GARCIA-CARPIO,S.A.GONCHARUK,K.S.MINEEV, JRNL AUTH 2 A.S.ARSENIEV,M.VILAR JRNL TITL STRUCTURAL BASIS OF P75 TRANSMEMBRANE DOMAIN DIMERIZATION. JRNL REF J. BIOL. CHEM. V. 291 12346 2016 JRNL REFN ESSN 1083-351X JRNL PMID 27056327 JRNL DOI 10.1074/JBC.M116.723585 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : TOPSPIN 3.0, CYANA REMARK 3 AUTHORS : BRUKER BIOSPIN (TOPSPIN), GUNTERT, MUMENTHALER AND REMARK 3 WUTHRICH (CYANA) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2MIC COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 13-DEC-13. REMARK 100 THE DEPOSITION ID IS D_1000103648. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 318 REMARK 210 PH : 5.9 REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1.9 MM [U-100% 13C; U-100% 15N] REMARK 210 P75-TM-WT, 95 MM [U-98% 2H] DPC, REMARK 210 20 MM SODIUM PHOSPHATE, 95% H2O/ REMARK 210 5% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 2D 1H-13C HSQC REMARK 210 ALIPHATIC; 2D 1H-13C HSQC AROMATIC; 3D HNCO; 3D HNCA; 3D HN(CO) REMARK 210 CA; 3D 1H-15N NOESY; 3D 1H-15N TOCSY; 3D 1H-13C NOESY ALIPHATIC; REMARK 210 3D 15N- AND 13C-EDITED NOESY AND 15N,13C-F1-FILTERED/F3-EDITED- REMARK 210 NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 800 MHZ; 600 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : TOPSPIN 3.0, CYANA 3.0, CARA, REMARK 210 TALOS-N REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 10 REMARK 210 CONFORMERS, SELECTION CRITERIA : TARGET FUNCTION 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: 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: 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 7 74.24 50.30 REMARK 500 1 ASN A 8 89.62 50.77 REMARK 500 1 LEU A 9 -74.22 -176.91 REMARK 500 1 PRO A 11 52.54 -69.69 REMARK 500 1 SER A 35 -34.60 -179.57 REMARK 500 1 GLN A 38 -60.62 -95.90 REMARK 500 1 LYS A 40 97.45 61.01 REMARK 500 1 ASP B 107 83.23 50.18 REMARK 500 1 ASN B 108 93.36 54.46 REMARK 500 1 LEU B 109 -62.73 -161.04 REMARK 500 1 PRO B 111 53.09 -69.81 REMARK 500 1 SER B 135 -34.84 -179.48 REMARK 500 1 GLN B 138 -60.43 -96.09 REMARK 500 1 LYS B 140 97.36 61.19 REMARK 500 2 ARG A 3 -74.75 -65.68 REMARK 500 2 ASP A 7 -65.47 -122.22 REMARK 500 2 SER A 36 43.91 -93.03 REMARK 500 2 LYS A 37 -170.26 56.56 REMARK 500 2 LYS A 40 103.67 -57.56 REMARK 500 2 ARG B 103 -74.86 -65.42 REMARK 500 2 ASP B 107 -65.45 -122.27 REMARK 500 2 SER B 136 43.93 -92.98 REMARK 500 2 LYS B 137 -170.32 56.84 REMARK 500 2 LYS B 140 103.72 -57.74 REMARK 500 3 ARG A 3 40.04 -144.24 REMARK 500 3 ASN A 8 32.06 -179.56 REMARK 500 3 LEU A 9 -74.92 -151.58 REMARK 500 3 GLN A 38 70.98 -153.63 REMARK 500 3 ASN A 39 86.70 -169.27 REMARK 500 3 ARG B 103 40.02 -144.08 REMARK 500 3 ASN B 108 31.96 -179.31 REMARK 500 3 LEU B 109 -74.79 -151.57 REMARK 500 3 ASN B 134 -70.16 -69.74 REMARK 500 3 GLN B 138 70.79 -153.23 REMARK 500 3 ASN B 139 86.84 -169.11 REMARK 500 4 SER A 35 -40.00 -152.30 REMARK 500 4 ASN A 39 -74.59 -127.56 REMARK 500 4 ASN B 139 -74.21 -127.07 REMARK 500 5 THR A 2 112.37 65.18 REMARK 500 5 ASP A 7 82.02 50.92 REMARK 500 5 ASN A 8 92.66 54.20 REMARK 500 5 LEU A 9 -64.66 -170.54 REMARK 500 5 LYS A 37 93.06 62.85 REMARK 500 5 THR B 102 112.42 65.07 REMARK 500 5 ASP B 107 82.03 50.89 REMARK 500 5 ASN B 108 92.64 54.03 REMARK 500 5 LEU B 109 -64.34 -170.25 REMARK 500 5 LYS B 137 94.03 63.11 REMARK 500 6 SER A 36 90.30 -68.25 REMARK 500 6 LYS A 37 -174.06 63.00 REMARK 500 REMARK 500 THIS ENTRY HAS 99 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 19673 RELATED DB: BMRB DBREF 2MIC A 2 41 UNP P07174 TNR16_RAT 245 284 DBREF 2MIC B 102 141 UNP P07174 TNR16_RAT 245 284 SEQADV 2MIC MET A 1 UNP P07174 INITIATING METHIONINE SEQADV 2MIC SER A 36 UNP P07174 CYS 279 ENGINEERED MUTATION SEQADV 2MIC MET B 101 UNP P07174 INITIATING METHIONINE SEQADV 2MIC SER B 136 UNP P07174 CYS 279 ENGINEERED MUTATION SEQRES 1 A 41 MET THR ARG GLY THR THR ASP ASN LEU ILE PRO VAL TYR SEQRES 2 A 41 CYS SER ILE LEU ALA ALA VAL VAL VAL GLY LEU VAL ALA SEQRES 3 A 41 TYR ILE ALA PHE LYS ARG TRP ASN SER SER LYS GLN ASN SEQRES 4 A 41 LYS GLN SEQRES 1 B 41 MET THR ARG GLY THR THR ASP ASN LEU ILE PRO VAL TYR SEQRES 2 B 41 CYS SER ILE LEU ALA ALA VAL VAL VAL GLY LEU VAL ALA SEQRES 3 B 41 TYR ILE ALA PHE LYS ARG TRP ASN SER SER LYS GLN ASN SEQRES 4 B 41 LYS GLN HELIX 1 1 PRO A 11 TRP A 33 1 23 HELIX 2 2 PRO B 111 TRP B 133 1 23 SSBOND 1 CYS A 14 CYS B 114 1555 1555 1.90 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