HEADER TRANSPORT PROTEIN 24-OCT-24 9K88 TITLE STRUCTURE OF PFENT1(T144C,K375C) WITH INOSINE COMPND MOL_ID: 1; COMPND 2 MOLECULE: NUCLEOSIDE TRANSPORTER 1; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: EQUILIBRATIVE NUCLEOSIDE TRANSPORTER 1,PFNT1,EQUILIBRATIVE COMPND 5 NUCLEOSIDE TRANSPORTER TYPE 1,PFENT1; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PLASMODIUM FALCIPARUM 3D7; SOURCE 3 ORGANISM_TAXID: 36329; SOURCE 4 GENE: NT1, PF3D7_1347200; SOURCE 5 EXPRESSION_SYSTEM: SPODOPTERA FRUGIPERDA; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 7108 KEYWDS COMPLEX, MEMBRANE PROTEIN, INOSINE, TRANSPORT PROTEIN EXPDTA ELECTRON MICROSCOPY AUTHOR X.Y.CHEN,J.L.LI,X.WANG,D.DENG REVDAT 1 29-APR-26 9K88 0 JRNL AUTH X.Y.CHEN,J.L.LI,X.WANG,D.DENG JRNL TITL STRUCTURE OF PFENT1(T144C,K375C) WITH INOSINE JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 3.93 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 SOFTWARE PACKAGES : CRYOSPARC, PHENIX, 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 : NULL 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) : 3.930 REMARK 3 NUMBER OF PARTICLES : 131234 REMARK 3 CTF CORRECTION METHOD : NONE REMARK 3 REMARK 3 EM RECONSTRUCTION MAGNIFICATION CALIBRATION: NULL REMARK 3 REMARK 3 OTHER DETAILS: NULL REMARK 4 REMARK 4 9K88 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBC ON 30-OCT-24. REMARK 100 THE DEPOSITION ID IS D_1300052961. 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 : STRUCTURE OF REMARK 245 PFENT1(S143C,S382C) WITH INOSINE REMARK 245 SAMPLE CONCENTRATION (MG ML-1) : NULL REMARK 245 SAMPLE SUPPORT DETAILS : NULL REMARK 245 SAMPLE VITRIFICATION DETAILS : NULL REMARK 245 SAMPLE BUFFER : NULL REMARK 245 PH : 8.00 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 : TFS KRIOS REMARK 245 DETECTOR TYPE : GATAN K2 SUMMIT (4K X 4K) REMARK 245 MINIMUM DEFOCUS (NM) : 1100.00 REMARK 245 MAXIMUM DEFOCUS (NM) : 1800.00 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) : 5123.40 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: 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 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 LYS A 215 REMARK 465 ASN A 216 REMARK 465 ASN A 217 REMARK 465 LYS A 218 REMARK 465 LYS A 219 REMARK 465 ASP A 220 REMARK 465 GLU A 221 REMARK 465 GLU A 222 REMARK 465 ASN A 223 REMARK 465 LYS A 224 REMARK 465 GLU A 225 REMARK 465 ASN A 226 REMARK 465 ASN A 227 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 ASP A 113 CG OD1 OD2 REMARK 470 LEU A 170 CG CD1 CD2 REMARK 470 ASN A 209 CG OD1 ND2 REMARK 470 ASN A 358 CG OD1 ND2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT 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 OH TYR A 65 OD1 ASP A 117 2.09 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 ASN A 148 136.87 -39.42 REMARK 500 LYS A 338 56.22 -93.14 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: EMD-62164 RELATED DB: EMDB REMARK 900 STRUCTURE OF PFENT1(T144C,K375C) WITH INOSINE DBREF 9K88 A 30 413 UNP Q8IDM6 ENT1_PLAF7 30 413 SEQADV 9K88 CYS A 144 UNP Q8IDM6 THR 144 ENGINEERED MUTATION SEQADV 9K88 CYS A 375 UNP Q8IDM6 LYS 375 ENGINEERED MUTATION SEQRES 1 A 384 LEU SER SER LYS GLN HIS PHE MET LEU SER LEU THR PHE SEQRES 2 A 384 ILE LEU ILE GLY LEU SER SER LEU ASN VAL TRP ASN THR SEQRES 3 A 384 ALA LEU GLY LEU ASN ILE ASN PHE LYS TYR ASN THR PHE SEQRES 4 A 384 GLN ILE THR GLY LEU VAL CYS SER SER ILE VAL ALA LEU SEQRES 5 A 384 PHE VAL GLU ILE PRO LYS ILE MET LEU PRO PHE LEU LEU SEQRES 6 A 384 GLY GLY LEU SER ILE LEU CYS ALA GLY PHE GLN ILE SER SEQRES 7 A 384 HIS SER PHE PHE THR ASP THR GLN PHE ASP THR TYR CYS SEQRES 8 A 384 LEU VAL ALA PHE ILE VAL ILE GLY VAL VAL ALA GLY LEU SEQRES 9 A 384 ALA GLN THR ILE ALA PHE ASN ILE GLY SER CYS MET GLU SEQRES 10 A 384 ASP ASN MET GLY GLY TYR MET SER ALA GLY ILE GLY ILE SEQRES 11 A 384 SER GLY VAL PHE ILE PHE VAL ILE ASN LEU LEU LEU ASP SEQRES 12 A 384 GLN PHE VAL SER PRO GLU LYS HIS TYR GLY VAL ASN LYS SEQRES 13 A 384 ALA LYS LEU LEU TYR LEU TYR ILE ILE CYS GLU LEU CYS SEQRES 14 A 384 LEU ILE LEU ALA ILE VAL PHE CYS VAL CYS ASN LEU ASP SEQRES 15 A 384 LEU THR ASN LYS ASN ASN LYS LYS ASP GLU GLU ASN LYS SEQRES 16 A 384 GLU ASN ASN ALA THR LEU SER TYR MET GLU LEU PHE LYS SEQRES 17 A 384 ASP SER TYR LYS ALA ILE LEU THR MET PHE LEU VAL ASN SEQRES 18 A 384 TRP LEU THR LEU GLN LEU PHE PRO GLY VAL GLY HIS LYS SEQRES 19 A 384 LYS TRP GLN GLU SER HIS ASN ILE SER ASP TYR ASN VAL SEQRES 20 A 384 THR ILE ILE VAL GLY MET PHE GLN VAL PHE ASP PHE LEU SEQRES 21 A 384 SER ARG TYR PRO PRO ASN LEU THR HIS ILE LYS ILE PHE SEQRES 22 A 384 LYS ASN PHE THR PHE SER LEU ASN LYS LEU LEU VAL ALA SEQRES 23 A 384 ASN SER LEU ARG LEU LEU PHE ILE PRO TRP PHE ILE LEU SEQRES 24 A 384 ASN ALA CYS VAL ASP HIS PRO PHE PHE LYS ASN ILE VAL SEQRES 25 A 384 GLN GLN CYS VAL CYS MET ALA MET LEU ALA PHE THR ASN SEQRES 26 A 384 GLY TRP PHE ASN THR VAL PRO PHE LEU VAL PHE VAL LYS SEQRES 27 A 384 GLU LEU LYS LYS ALA LYS LYS CYS LYS GLU ILE GLU ILE SEQRES 28 A 384 ILE SER THR PHE LEU VAL ILE ALA MET PHE VAL GLY LEU SEQRES 29 A 384 PHE CYS GLY ILE TRP THR THR TYR ILE TYR ASN LEU PHE SEQRES 30 A 384 ASN ILE VAL LEU PRO LYS PRO HET NOS A 501 19 HETNAM NOS INOSINE FORMUL 2 NOS C10 H12 N4 O5 HELIX 1 AA1 SER A 31 LEU A 59 1 29 HELIX 2 AA2 ASN A 62 PHE A 82 1 21 HELIX 3 AA3 PRO A 86 ILE A 88 5 3 HELIX 4 AA4 MET A 89 PHE A 111 1 23 HELIX 5 AA5 THR A 112 CYS A 144 1 33 HELIX 6 AA6 MET A 149 ASP A 172 1 24 HELIX 7 AA7 ASN A 184 LEU A 210 1 27 HELIX 8 AA8 SER A 231 SER A 239 1 9 HELIX 9 AA9 TYR A 240 PHE A 257 1 18 HELIX 10 AB1 LYS A 264 ASN A 270 1 7 HELIX 11 AB2 SER A 272 SER A 290 1 19 HELIX 12 AB3 ILE A 299 THR A 306 5 8 HELIX 13 AB4 LEU A 309 ASN A 316 1 8 HELIX 14 AB5 SER A 317 LEU A 320 5 4 HELIX 15 AB6 LEU A 321 VAL A 332 1 12 HELIX 16 AB7 ASN A 339 VAL A 360 1 22 HELIX 17 AB8 PRO A 361 LEU A 363 5 3 HELIX 18 AB9 VAL A 364 LEU A 369 1 6 HELIX 19 AC1 LYS A 374 THR A 399 1 26 HELIX 20 AC2 THR A 400 PHE A 406 5 7 SSBOND 1 CYS A 144 CYS A 375 1555 1555 2.03 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 CONECT 875 2633 CONECT 2633 875 CONECT 2946 2947 2955 2960 CONECT 2947 2946 2948 2953 CONECT 2948 2947 2949 CONECT 2949 2948 2950 CONECT 2950 2949 2951 CONECT 2951 2950 2952 2953 CONECT 2952 2951 CONECT 2953 2947 2951 2954 CONECT 2954 2953 2955 CONECT 2955 2946 2954 CONECT 2956 2957 2958 CONECT 2957 2956 CONECT 2958 2956 2959 2963 CONECT 2959 2958 2960 CONECT 2960 2946 2959 2961 CONECT 2961 2960 2962 2963 CONECT 2962 2961 CONECT 2963 2958 2961 2964 CONECT 2964 2963 MASTER 156 0 1 20 0 0 0 6 2963 1 21 30 END