HEADER MEMBRANE PROTEIN 17-MAR-23 8OFY TITLE MOLECULAR MECHANISM OF TRYPANOSOMAL AQP2 COMPND MOL_ID: 1; COMPND 2 MOLECULE: AQUAGLYCEROPORIN 2; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 OTHER_DETAILS: PENTAMIDINE SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: TRYPANOSOMA BRUCEI BRUCEI; SOURCE 3 ORGANISM_TAXID: 5702; SOURCE 4 GENE: AQP2; SOURCE 5 EXPRESSION_SYSTEM: SPODOPTERA FRUGIPERDA; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 7108; SOURCE 7 EXPRESSION_SYSTEM_CELL_LINE: SF9; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PFASTBAC KEYWDS AQUAPORIN, TETRAMER, DRUG UPTAKE, GLYCEROL, MEMBRANE PROTEIN EXPDTA ELECTRON MICROSCOPY AUTHOR S.N.WEYAND,M.MATUSEVICIUS,K.YAMASHITA REVDAT 1 02-OCT-24 8OFY 0 JRNL AUTH S.N.WEYAND JRNL TITL MOLECULAR MECHANISM OF TRYPANOSOMAL AQP2 JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 3.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 SOFTWARE PACKAGES : EPU, GCTF, CRYOSPARC, CRYOSPARC REMARK 3 RECONSTRUCTION SCHEMA : NULL REMARK 3 REMARK 3 EM MAP-MODEL FITTING AND REFINEMENT REMARK 3 PDB ENTRY : NULL REMARK 3 REFINEMENT SPACE : RECIPROCAL REMARK 3 REFINEMENT PROTOCOL : NULL REMARK 3 REFINEMENT TARGET : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE : NULL REMARK 3 REMARK 3 FITTING PROCEDURE : NULL REMARK 3 REMARK 3 EM IMAGE RECONSTRUCTION STATISTICS REMARK 3 NOMINAL PIXEL SIZE (ANGSTROMS) : NULL REMARK 3 ACTUAL PIXEL SIZE (ANGSTROMS) : NULL REMARK 3 EFFECTIVE RESOLUTION (ANGSTROMS) : 3.700 REMARK 3 NUMBER OF PARTICLES : 83845 REMARK 3 CTF CORRECTION METHOD : PHASE FLIPPING AND AMPLITUDE REMARK 3 CORRECTION REMARK 3 REMARK 3 EM RECONSTRUCTION MAGNIFICATION CALIBRATION: NULL REMARK 3 REMARK 3 OTHER DETAILS: NULL REMARK 4 REMARK 4 8OFY COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 20-MAR-23. REMARK 100 THE DEPOSITION ID IS D_1292128885. REMARK 245 REMARK 245 EXPERIMENTAL DETAILS REMARK 245 RECONSTRUCTION METHOD : SINGLE PARTICLE REMARK 245 SPECIMEN TYPE : NULL REMARK 245 REMARK 245 ELECTRON MICROSCOPE SAMPLE REMARK 245 SAMPLE TYPE : PARTICLE REMARK 245 PARTICLE TYPE : POINT REMARK 245 NAME OF SAMPLE : AQUAPORIN 2 TETRAMER WILDTYPE REMARK 245 SAMPLE CONCENTRATION (MG ML-1) : 0.80 REMARK 245 SAMPLE SUPPORT DETAILS : NULL REMARK 245 SAMPLE VITRIFICATION DETAILS : NULL REMARK 245 SAMPLE BUFFER : NULL REMARK 245 PH : 7.20 REMARK 245 SAMPLE DETAILS : NULL REMARK 245 REMARK 245 DATA ACQUISITION REMARK 245 DATE OF EXPERIMENT : NULL REMARK 245 NUMBER OF MICROGRAPHS-IMAGES : NULL REMARK 245 TEMPERATURE (KELVIN) : NULL REMARK 245 MICROSCOPE MODEL : FEI TITAN KRIOS REMARK 245 DETECTOR TYPE : GATAN K3 BIOQUANTUM (6K X REMARK 245 4K) REMARK 245 MINIMUM DEFOCUS (NM) : 1000.00 REMARK 245 MAXIMUM DEFOCUS (NM) : 3000.00 REMARK 245 MINIMUM TILT ANGLE (DEGREES) : NULL REMARK 245 MAXIMUM TILT ANGLE (DEGREES) : NULL REMARK 245 NOMINAL CS : NULL REMARK 245 IMAGING MODE : BRIGHT FIELD REMARK 245 ELECTRON DOSE (ELECTRONS NM**-2) : 5600.00 REMARK 245 ILLUMINATION MODE : FLOOD BEAM REMARK 245 NOMINAL MAGNIFICATION : NULL REMARK 245 CALIBRATED MAGNIFICATION : NULL REMARK 245 SOURCE : FIELD EMISSION GUN REMARK 245 ACCELERATION VOLTAGE (KV) : 300 REMARK 245 IMAGING DETAILS : NULL REMARK 247 REMARK 247 ELECTRON MICROSCOPY REMARK 247 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM ELECTRON REMARK 247 MICROSCOPY DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE REMARK 247 THAT CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES REMARK 247 ON THESE RECORDS ARE MEANINGLESS EXCEPT FOR THE CALCULATION REMARK 247 OF THE STRUCTURE FACTORS. 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: OCTAMERIC 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 350 BIOMT1 2 0.000000 -1.000000 0.000000 333.44000 REMARK 350 BIOMT2 2 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -1.000000 0.000000 0.000000 333.44000 REMARK 350 BIOMT2 3 0.000000 -1.000000 0.000000 333.44000 REMARK 350 BIOMT3 3 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 4 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT2 4 -1.000000 0.000000 0.000000 333.44000 REMARK 350 BIOMT3 4 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 MET A 1 REMARK 465 GLN A 2 REMARK 465 SER A 3 REMARK 465 GLN A 4 REMARK 465 PRO A 5 REMARK 465 ASP A 6 REMARK 465 ASN A 7 REMARK 465 VAL A 8 REMARK 465 ALA A 9 REMARK 465 TYR A 10 REMARK 465 PRO A 11 REMARK 465 MET A 12 REMARK 465 GLU A 13 REMARK 465 LEU A 14 REMARK 465 GLN A 15 REMARK 465 ALA A 16 REMARK 465 VAL A 17 REMARK 465 ASN A 18 REMARK 465 LYS A 19 REMARK 465 ASP A 20 REMARK 465 GLY A 21 REMARK 465 THR A 22 REMARK 465 VAL A 23 REMARK 465 GLU A 24 REMARK 465 VAL A 25 REMARK 465 ARG A 26 REMARK 465 VAL A 27 REMARK 465 GLN A 28 REMARK 465 GLY A 29 REMARK 465 ASN A 30 REMARK 465 VAL A 31 REMARK 465 ASP A 32 REMARK 465 ASN A 33 REMARK 465 SER A 34 REMARK 465 SER A 35 REMARK 465 ASN A 36 REMARK 465 GLU A 37 REMARK 465 ARG A 38 REMARK 465 TRP A 39 REMARK 465 ASP A 40 REMARK 465 ALA A 41 REMARK 465 ASP A 42 REMARK 465 VAL A 43 REMARK 465 GLN A 44 REMARK 465 LYS A 45 REMARK 465 HIS A 46 REMARK 465 GLU A 47 REMARK 465 VAL A 48 REMARK 465 ALA A 49 REMARK 465 GLU A 50 REMARK 465 ALA A 51 REMARK 465 GLN A 52 REMARK 465 GLU A 53 REMARK 465 LYS A 54 REMARK 465 PRO A 55 REMARK 465 VAL A 56 REMARK 465 GLY A 57 REMARK 465 GLY A 58 REMARK 465 ILE A 59 REMARK 465 ASN A 60 REMARK 465 PHE A 61 REMARK 465 TRP A 62 REMARK 465 ALA A 63 REMARK 465 PRO A 64 REMARK 465 ARG A 65 REMARK 465 GLU A 66 REMARK 465 LEU A 67 REMARK 465 ARG A 68 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 LEU A 69 CG CD1 CD2 REMARK 470 ASN A 70 CG OD1 ND2 REMARK 470 GLU A 187 CG CD OE1 OE2 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 ASN A 130 115.31 -165.44 REMARK 500 ASN A 230 -120.00 -92.03 REMARK 500 MET A 260 13.60 54.85 REMARK 500 ASN A 261 102.61 -168.82 REMARK 500 HIS A 283 -80.03 -47.29 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: EMD-16863 RELATED DB: EMDB REMARK 900 MOLECULAR MECHANISM OF TRYPANOSOMAL AQP2 DBREF 8OFY A 1 312 UNP Q6ZXT3 Q6ZXT3_TRYBB 1 312 SEQRES 1 A 312 MET GLN SER GLN PRO ASP ASN VAL ALA TYR PRO MET GLU SEQRES 2 A 312 LEU GLN ALA VAL ASN LYS ASP GLY THR VAL GLU VAL ARG SEQRES 3 A 312 VAL GLN GLY ASN VAL ASP ASN SER SER ASN GLU ARG TRP SEQRES 4 A 312 ASP ALA ASP VAL GLN LYS HIS GLU VAL ALA GLU ALA GLN SEQRES 5 A 312 GLU LYS PRO VAL GLY GLY ILE ASN PHE TRP ALA PRO ARG SEQRES 6 A 312 GLU LEU ARG LEU ASN TYR ARG ASP TYR VAL ALA GLU PHE SEQRES 7 A 312 LEU GLY ASN PHE VAL LEU ILE TYR ILE ALA LYS GLY ALA SEQRES 8 A 312 VAL ILE THR SER LEU LEU VAL PRO ASP PHE GLY LEU LEU SEQRES 9 A 312 GLY LEU THR ILE GLY ILE GLY VAL ALA VAL THR MET ALA SEQRES 10 A 312 LEU TYR VAL SER LEU GLY ILE SER GLY GLY HIS LEU ASN SEQRES 11 A 312 SER ALA VAL THR VAL GLY ASN ALA VAL PHE GLY ASP PHE SEQRES 12 A 312 PRO TRP ARG LYS VAL PRO GLY TYR ILE ALA ALA GLN MET SEQRES 13 A 312 LEU GLY THR PHE LEU GLY ALA ALA CYS ALA TYR GLY VAL SEQRES 14 A 312 PHE ALA ASP LEU LEU LYS ALA HIS GLY GLY GLY GLU LEU SEQRES 15 A 312 ILE ALA PHE GLY GLU LYS GLY ILE ALA TRP VAL PHE ALA SEQRES 16 A 312 MET TYR PRO ALA GLU GLY ASN GLY ILE PHE TYR PRO ILE SEQRES 17 A 312 PHE ALA GLU LEU ILE SER THR ALA VAL LEU LEU LEU CYS SEQRES 18 A 312 VAL CYS GLY ILE PHE ASP PRO ASN ASN SER PRO ALA LYS SEQRES 19 A 312 GLY TYR GLU THR VAL ALA ILE GLY ALA LEU VAL PHE VAL SEQRES 20 A 312 MET VAL ASN ASN PHE GLY LEU ALA SER PRO LEU ALA MET SEQRES 21 A 312 ASN PRO SER LEU ASP PHE GLY PRO ARG VAL PHE GLY ALA SEQRES 22 A 312 ILE LEU LEU GLY GLY GLU VAL PHE SER HIS ALA ASN TYR SEQRES 23 A 312 TYR PHE TRP VAL PRO LEU VAL VAL PRO PHE PHE GLY ALA SEQRES 24 A 312 ILE LEU GLY LEU PHE LEU TYR LYS TYR PHE LEU PRO HIS HET PNT A 401 25 HETNAM PNT 1,5-BIS(4-AMIDINOPHENOXY)PENTANE FORMUL 2 PNT C19 H24 N4 O2 HELIX 1 AA1 TYR A 71 VAL A 98 1 28 HELIX 2 AA2 GLY A 102 GLY A 126 1 25 HELIX 3 AA3 ASN A 130 PHE A 140 1 11 HELIX 4 AA4 PRO A 144 ARG A 146 5 3 HELIX 5 AA5 LYS A 147 GLY A 178 1 32 HELIX 6 AA6 ILE A 190 ALA A 195 1 6 HELIX 7 AA7 ILE A 204 ASP A 227 1 24 HELIX 8 AA8 TYR A 236 PHE A 252 1 17 HELIX 9 AA9 ASN A 261 GLY A 277 1 17 HELIX 10 AB1 GLY A 278 HIS A 283 1 6 HELIX 11 AB2 PHE A 288 LEU A 310 1 23 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 MTRIX1 1 1.000000 0.000000 0.000000 0.00000 1 MTRIX2 1 0.000000 1.000000 0.000000 0.00000 1 MTRIX3 1 0.000000 0.000000 1.000000 0.00000 1 MTRIX1 2 0.000000 -1.000000 0.000000 333.44000 MTRIX2 2 1.000000 0.000000 0.000000 0.00000 MTRIX3 2 0.000000 0.000000 1.000000 0.00000 MTRIX1 3 -1.000000 0.000000 0.000000 333.44000 MTRIX2 3 0.000000 -1.000000 0.000000 333.44000 MTRIX3 3 0.000000 0.000000 1.000000 0.00000 MTRIX1 4 0.000000 1.000000 0.000000 0.00000 MTRIX2 4 -1.000000 0.000000 0.000000 333.44000 MTRIX3 4 0.000000 0.000000 1.000000 0.00000