HEADER NEUROPEPTIDE 16-JUL-20 6ZSO TITLE SOLUTION STRUCTURE OF THE WATER-SOLUBLE LU-DOMAIN OF HUMAN LYPD6B TITLE 2 PROTEIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: LY6/PLAUR DOMAIN-CONTAINING PROTEIN 6B; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: LYPD6B; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET22B(+) KEYWDS LYPD6B, LY6/UPAR, NICOTINIC ACETYLCHOLINE RECEPTOR MODULATOR, THREE- KEYWDS 2 FINGER PROTEINS, NEUROPEPTIDE EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR A.V.TSAREV,D.S.KULBATSKII,A.S.PARAMONOV,E.N.LYUKMANOVA,Z.O.SHENKAREV REVDAT 1 13-JAN-21 6ZSO 0 JRNL AUTH A.S.PARAMONOV,M.V.KOCHAROVSKAYA,A.V.TSAREV,D.S.KULBATSKII, JRNL AUTH 2 E.V.LOKTYUSHOV,M.A.SHULEPKO,M.P.KIRPICHNIKOV,E.N.LYUKMANOVA, JRNL AUTH 3 Z.O.SHENKAREV JRNL TITL STRUCTURAL DIVERSITY AND DYNAMICS OF HUMAN THREE-FINGER JRNL TITL 2 PROTEINS ACTING ON NICOTINIC ACETYLCHOLINE RECEPTORS. JRNL REF INT J MOL SCI V. 21 2020 JRNL REFN ESSN 1422-0067 JRNL PMID 33019770 JRNL DOI 10.3390/IJMS21197280 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CYANA 3.98.5 REMARK 3 AUTHORS : GUNTERT, MUMENTHALER AND WUTHRICH REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 6ZSO COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 16-JUL-20. REMARK 100 THE DEPOSITION ID IS D_1292109307. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 303 REMARK 210 PH : 5.5 REMARK 210 IONIC STRENGTH : 10 REMARK 210 PRESSURE : AMBIENT PA REMARK 210 SAMPLE CONTENTS : 0.2 MM [U-13C; U-15N] LYPD6, 95% REMARK 210 H2O/5% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D 1H-15N NOESY; 3D HNCO; 3D REMARK 210 HNCACB; 3D HN(CO)CA; 3D HNHA; 3D REMARK 210 HNHB; 3D HCCH-TOCSY; 2D 1H-13C REMARK 210 HSQC ALIPHATIC; 2D 1H-15N HSQC; REMARK 210 2D 1H-13C TROSY AROMATIC; 3D REMARK 210 CBCA(CO)NH REMARK 210 SPECTROMETER FIELD STRENGTH : 800 MHZ; 600 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE III REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : TOPSPIN 3, MDDNMR, CARA 1.8 REMARK 210 METHOD USED : TORSION ANGLE DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 500 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 0 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 7410 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 0.0 KCAL/MOL 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: 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 105 48.23 -105.14 REMARK 500 1 GLU A 107 -76.55 -108.07 REMARK 500 1 ASN A 127 48.76 -89.14 REMARK 500 1 GLN A 129 15.37 -147.87 REMARK 500 1 LYS A 149 164.69 179.74 REMARK 500 1 VAL A 159 -178.81 -65.24 REMARK 500 1 GLU A 168 30.68 -98.46 REMARK 500 1 ILE A 180 41.17 38.59 REMARK 500 1 VAL A 183 -74.72 -72.33 REMARK 500 1 PRO A 186 84.13 -69.76 REMARK 500 2 THR A 105 47.58 -108.90 REMARK 500 2 GLU A 107 -70.29 -111.42 REMARK 500 2 PRO A 125 171.61 -51.55 REMARK 500 2 ASN A 127 48.17 -89.56 REMARK 500 2 GLN A 129 14.29 -147.47 REMARK 500 2 ARG A 142 176.79 -55.71 REMARK 500 2 THR A 144 -68.81 -99.11 REMARK 500 2 LYS A 149 155.54 179.61 REMARK 500 2 VAL A 159 -177.75 -63.01 REMARK 500 2 ASN A 182 49.05 -89.40 REMARK 500 2 VAL A 183 -77.88 -64.53 REMARK 500 2 LEU A 185 160.38 60.56 REMARK 500 3 THR A 105 46.90 -108.33 REMARK 500 3 GLU A 107 -159.29 -89.46 REMARK 500 3 ASN A 108 100.35 -46.73 REMARK 500 3 ASN A 127 48.42 -89.21 REMARK 500 3 GLN A 129 18.50 -149.43 REMARK 500 3 THR A 144 112.65 -163.27 REMARK 500 3 LYS A 149 155.91 179.55 REMARK 500 3 PHE A 158 49.37 -105.14 REMARK 500 3 VAL A 159 172.68 -58.49 REMARK 500 3 ILE A 180 40.62 38.66 REMARK 500 3 VAL A 183 -72.36 -63.25 REMARK 500 4 THR A 105 47.59 -109.63 REMARK 500 4 GLU A 107 -74.95 -121.54 REMARK 500 4 ASN A 127 40.97 -89.37 REMARK 500 4 GLN A 129 14.44 -146.88 REMARK 500 4 HIS A 140 -76.95 -88.20 REMARK 500 4 LYS A 149 156.73 179.69 REMARK 500 4 PHE A 158 53.79 -109.10 REMARK 500 4 VAL A 159 178.65 -59.77 REMARK 500 4 GLU A 168 40.23 -100.08 REMARK 500 4 ILE A 180 41.72 38.51 REMARK 500 4 ASN A 182 47.00 -87.47 REMARK 500 4 VAL A 183 -72.59 -55.55 REMARK 500 4 LEU A 185 151.94 -48.63 REMARK 500 5 THR A 105 48.91 -102.59 REMARK 500 5 GLU A 107 -76.36 -93.81 REMARK 500 5 ASP A 121 58.29 -92.73 REMARK 500 5 PRO A 125 172.99 -54.71 REMARK 500 REMARK 500 THIS ENTRY HAS 186 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 34531 RELATED DB: BMRB REMARK 900 SOLUTION STRUCTURE OF THE WATER-SOLUBLE LU-DOMAIN OF HUMAN LYPD6B REMARK 900 PROTEIN DBREF 6ZSO A 101 195 UNP Q8NI32 LPD6B_HUMAN 60 154 SEQADV 6ZSO MET A 100 UNP Q8NI32 INITIATING METHIONINE SEQRES 1 A 96 MET PHE LYS CYS PHE THR CYS GLU ASN ALA GLY ASP ASN SEQRES 2 A 96 TYR ASN CYS ASN ARG TRP ALA GLU ASP LYS TRP CYS PRO SEQRES 3 A 96 GLN ASN THR GLN TYR CYS LEU THR VAL HIS HIS PHE THR SEQRES 4 A 96 SER HIS GLY ARG SER THR SER ILE THR LYS LYS CYS ALA SEQRES 5 A 96 SER ARG SER GLU CYS HIS PHE VAL GLY CYS HIS HIS SER SEQRES 6 A 96 ARG ASP SER GLU HIS THR GLU CYS ARG SER CYS CYS GLU SEQRES 7 A 96 GLY MET ILE CYS ASN VAL GLU LEU PRO THR ASN HIS THR SEQRES 8 A 96 ASN ALA VAL PHE ALA HELIX 1 AA1 ASP A 111 ALA A 119 1 9 SHEET 1 AA1 4 ILE A 146 ALA A 151 0 SHEET 2 AA1 4 TYR A 130 THR A 138 -1 N TYR A 130 O ALA A 151 SHEET 3 AA1 4 HIS A 169 CYS A 176 -1 O THR A 170 N PHE A 137 SHEET 4 AA1 4 GLY A 160 HIS A 163 -1 N GLY A 160 O ARG A 173 SSBOND 1 CYS A 103 CYS A 131 1555 1555 1.96 SSBOND 2 CYS A 106 CYS A 115 1555 1555 2.10 SSBOND 3 CYS A 124 CYS A 150 1555 1555 1.92 SSBOND 4 CYS A 156 CYS A 175 1555 1555 1.93 SSBOND 5 CYS A 161 CYS A 172 1555 1555 2.06 SSBOND 6 CYS A 176 CYS A 181 1555 1555 1.88 CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 P 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