HEADER MEMBRANE PROTEIN 17-JAN-19 6NPK TITLE STRUCTURE OF THE TM DOMAIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: SOLUTE CARRIER FAMILY 12 (SODIUM/POTASSIUM/CHLORIDE COMPND 3 TRANSPORTER), MEMBER 2; COMPND 4 CHAIN: A, B; COMPND 5 FRAGMENT: AA_PERMEASE DOMAIN, RESIDUES 206-677; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: DANIO RERIO; SOURCE 3 ORGANISM_COMMON: ZEBRAFISH; SOURCE 4 ORGANISM_TAXID: 7955; SOURCE 5 GENE: SLC12A2; SOURCE 6 EXPRESSION_SYSTEM: SPODOPTERA FRUGIPERDA; SOURCE 7 EXPRESSION_SYSTEM_COMMON: FALL ARMYWORM; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 7108 KEYWDS MEMBRANE PROTEIN EXPDTA ELECTRON MICROSCOPY AUTHOR L.FENG,M.F.LIAO,B.ORLANDO,J.R.ZHANG REVDAT 3 28-AUG-19 6NPK 1 JRNL REVDAT 2 14-AUG-19 6NPK 1 JRNL REVDAT 1 31-JUL-19 6NPK 0 JRNL AUTH T.A.CHEW,B.J.ORLANDO,J.ZHANG,N.R.LATORRACA,A.WANG, JRNL AUTH 2 S.A.HOLLINGSWORTH,D.H.CHEN,R.O.DROR,M.LIAO,L.FENG JRNL TITL STRUCTURE AND MECHANISM OF THE CATION-CHLORIDE COTRANSPORTER JRNL TITL 2 NKCC1. JRNL REF NATURE V. 572 488 2019 JRNL REFN ESSN 1476-4687 JRNL PMID 31367042 JRNL DOI 10.1038/S41586-019-1438-2 REMARK 2 REMARK 2 RESOLUTION. 3.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 SOFTWARE PACKAGES : SERIALEM 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) : 3.600 REMARK 3 NUMBER OF PARTICLES : 227231 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 6NPK COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 18-JAN-19. REMARK 100 THE DEPOSITION ID IS D_1000239132. 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 : CO-TRANSPORTER WITHOUT N REMARK 245 -TERMINAL REMARK 245 SAMPLE CONCENTRATION (MG ML-1) : 7.90 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 : FEI TITAN KRIOS REMARK 245 DETECTOR TYPE : GATAN K2 QUANTUM (4K X 4K) REMARK 245 MINIMUM DEFOCUS (NM) : NULL REMARK 245 MAXIMUM DEFOCUS (NM) : NULL REMARK 245 MINIMUM TILT ANGLE (DEGREES) : NULL REMARK 245 MAXIMUM TILT ANGLE (DEGREES) : NULL REMARK 245 NOMINAL CS : 2.70 REMARK 245 IMAGING MODE : BRIGHT FIELD REMARK 245 ELECTRON DOSE (ELECTRONS NM**-2) : 53.00 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: 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 ARG A 229 11.96 -143.26 REMARK 500 ASN A 266 53.16 -94.25 REMARK 500 LYS A 384 -9.98 74.67 REMARK 500 PHE A 387 70.23 58.22 REMARK 500 TYR A 491 -12.11 72.51 REMARK 500 ASP A 492 71.26 50.22 REMARK 500 PHE A 515 -2.48 67.58 REMARK 500 PHE A 566 51.85 -91.42 REMARK 500 ASN A 637 71.82 56.85 REMARK 500 TYR A 676 68.30 -101.62 REMARK 500 ASN B 266 52.56 -94.60 REMARK 500 LYS B 384 -10.16 74.11 REMARK 500 PHE B 387 70.36 58.77 REMARK 500 TYR B 491 -12.01 72.63 REMARK 500 ASP B 492 71.35 48.41 REMARK 500 PHE B 515 -4.52 70.46 REMARK 500 ASN B 637 71.72 57.56 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: EMD-0472 RELATED DB: EMDB REMARK 900 CRYOEM STRUCTURE OF A MEMBRANE PROTEIN DBREF1 6NPK A 206 677 UNP A0A0G2KGS0_DANRE DBREF2 6NPK A A0A0G2KGS0 206 677 DBREF1 6NPK B 206 677 UNP A0A0G2KGS0_DANRE DBREF2 6NPK B A0A0G2KGS0 206 677 SEQRES 1 A 472 LYS PHE GLY TRP ILE LYS GLY VAL LEU VAL ARG CYS MET SEQRES 2 A 472 LEU ASN ILE TRP GLY VAL MET LEU PHE ILE ARG MET THR SEQRES 3 A 472 TRP ILE VAL GLY GLN ALA GLY ILE ALA TYR SER CYS ILE SEQRES 4 A 472 ILE VAL ILE MET ALA THR VAL VAL THR THR ILE THR GLY SEQRES 5 A 472 CYS SER THR SER ALA ILE ALA THR ASN GLY PHE VAL ARG SEQRES 6 A 472 GLY GLY GLY ALA TYR TYR LEU ILE SER ARG SER LEU GLY SEQRES 7 A 472 PRO GLU PHE GLY GLY SER ILE GLY LEU ILE PHE ALA PHE SEQRES 8 A 472 ALA ASN ALA VAL ALA VAL ALA MET TYR VAL VAL GLY PHE SEQRES 9 A 472 ALA GLU THR VAL VAL GLU LEU LEU MET ASP SER GLY LEU SEQRES 10 A 472 LEU MET ILE ASP GLN THR ASN ASP ILE ARG VAL ILE GLY SEQRES 11 A 472 THR ILE THR VAL ILE LEU LEU LEU GLY ILE SER VAL ALA SEQRES 12 A 472 GLY MET GLU TRP GLU ALA LYS ALA GLN ILE PHE LEU LEU SEQRES 13 A 472 VAL ILE LEU ILE THR ALA ILE PHE ASN TYR PHE ILE GLY SEQRES 14 A 472 SER PHE ILE ALA VAL ASP SER LYS LYS LYS PHE GLY PHE SEQRES 15 A 472 PHE SER TYR ASP ALA GLY ILE LEU ALA GLU ASN PHE GLY SEQRES 16 A 472 PRO ASP PHE ARG GLY GLN THR PHE PHE SER VAL PHE SER SEQRES 17 A 472 ILE PHE PHE PRO ALA ALA THR GLY ILE LEU ALA GLY ALA SEQRES 18 A 472 ASN ILE SER GLY ASP LEU ALA ASP PRO GLN MET ALA ILE SEQRES 19 A 472 PRO LYS GLY THR LEU LEU ALA ILE LEU ILE THR GLY LEU SEQRES 20 A 472 VAL TYR VAL GLY VAL ALA ILE SER ALA GLY ALA CYS ILE SEQRES 21 A 472 VAL ARG ASP ALA THR GLY ILE GLU SER ASN PHE THR LEU SEQRES 22 A 472 ILE SER ASN CYS THR ASP ALA ALA CYS LYS TYR GLY TYR SEQRES 23 A 472 ASP PHE SER SER CYS ARG PRO THR VAL GLU GLY GLU VAL SEQRES 24 A 472 SER SER CYS LYS PHE GLY LEU HIS ASN ASP PHE GLN VAL SEQRES 25 A 472 MET SER VAL VAL SER GLY PHE SER PRO LEU ILE SER ALA SEQRES 26 A 472 GLY ILE PHE SER ALA THR LEU SER SER ALA LEU ALA SER SEQRES 27 A 472 LEU VAL SER ALA PRO LYS VAL PHE GLN ALA LEU CYS LYS SEQRES 28 A 472 ASP ASN ILE TYR PRO GLY ILE ALA ILE PHE GLY LYS GLY SEQRES 29 A 472 TYR GLY LYS ASN ASN GLU PRO LEU ARG GLY TYR PHE LEU SEQRES 30 A 472 THR PHE GLY ILE ALA LEU ALA PHE ILE LEU ILE ALA GLU SEQRES 31 A 472 LEU ASN VAL ILE ALA PRO ILE ILE SER ASN PHE PHE LEU SEQRES 32 A 472 ALA SER TYR ALA LEU ILE ASN PHE SER VAL PHE HIS ALA SEQRES 33 A 472 SER LEU ALA ASN SER PRO GLY TRP ARG PRO SER PHE LYS SEQRES 34 A 472 TYR TYR ASN MET TRP ALA SER LEU ALA GLY ALA ILE LEU SEQRES 35 A 472 CYS CYS VAL VAL MET PHE ILE ILE ASN TRP TRP ALA ALA SEQRES 36 A 472 LEU LEU THR ASN VAL ILE VAL LEU SER LEU TYR ILE TYR SEQRES 37 A 472 VAL SER TYR LYS SEQRES 1 B 472 LYS PHE GLY TRP ILE LYS GLY VAL LEU VAL ARG CYS MET SEQRES 2 B 472 LEU ASN ILE TRP GLY VAL MET LEU PHE ILE ARG MET THR SEQRES 3 B 472 TRP ILE VAL GLY GLN ALA GLY ILE ALA TYR SER CYS ILE SEQRES 4 B 472 ILE VAL ILE MET ALA THR VAL VAL THR THR ILE THR GLY SEQRES 5 B 472 CYS SER THR SER ALA ILE ALA THR ASN GLY PHE VAL ARG SEQRES 6 B 472 GLY GLY GLY ALA TYR TYR LEU ILE SER ARG SER LEU GLY SEQRES 7 B 472 PRO GLU PHE GLY GLY SER ILE GLY LEU ILE PHE ALA PHE SEQRES 8 B 472 ALA ASN ALA VAL ALA VAL ALA MET TYR VAL VAL GLY PHE SEQRES 9 B 472 ALA GLU THR VAL VAL GLU LEU LEU MET ASP SER GLY LEU SEQRES 10 B 472 LEU MET ILE ASP GLN THR ASN ASP ILE ARG VAL ILE GLY SEQRES 11 B 472 THR ILE THR VAL ILE LEU LEU LEU GLY ILE SER VAL ALA SEQRES 12 B 472 GLY MET GLU TRP GLU ALA LYS ALA GLN ILE PHE LEU LEU SEQRES 13 B 472 VAL ILE LEU ILE THR ALA ILE PHE ASN TYR PHE ILE GLY SEQRES 14 B 472 SER PHE ILE ALA VAL ASP SER LYS LYS LYS PHE GLY PHE SEQRES 15 B 472 PHE SER TYR ASP ALA GLY ILE LEU ALA GLU ASN PHE GLY SEQRES 16 B 472 PRO ASP PHE ARG GLY GLN THR PHE PHE SER VAL PHE SER SEQRES 17 B 472 ILE PHE PHE PRO ALA ALA THR GLY ILE LEU ALA GLY ALA SEQRES 18 B 472 ASN ILE SER GLY ASP LEU ALA ASP PRO GLN MET ALA ILE SEQRES 19 B 472 PRO LYS GLY THR LEU LEU ALA ILE LEU ILE THR GLY LEU SEQRES 20 B 472 VAL TYR VAL GLY VAL ALA ILE SER ALA GLY ALA CYS ILE SEQRES 21 B 472 VAL ARG ASP ALA THR GLY ILE GLU SER ASN PHE THR LEU SEQRES 22 B 472 ILE SER ASN CYS THR ASP ALA ALA CYS LYS TYR GLY TYR SEQRES 23 B 472 ASP PHE SER SER CYS ARG PRO THR VAL GLU GLY GLU VAL SEQRES 24 B 472 SER SER CYS LYS PHE GLY LEU HIS ASN ASP PHE GLN VAL SEQRES 25 B 472 MET SER VAL VAL SER GLY PHE SER PRO LEU ILE SER ALA SEQRES 26 B 472 GLY ILE PHE SER ALA THR LEU SER SER ALA LEU ALA SER SEQRES 27 B 472 LEU VAL SER ALA PRO LYS VAL PHE GLN ALA LEU CYS LYS SEQRES 28 B 472 ASP ASN ILE TYR PRO GLY ILE ALA ILE PHE GLY LYS GLY SEQRES 29 B 472 TYR GLY LYS ASN ASN GLU PRO LEU ARG GLY TYR PHE LEU SEQRES 30 B 472 THR PHE GLY ILE ALA LEU ALA PHE ILE LEU ILE ALA GLU SEQRES 31 B 472 LEU ASN VAL ILE ALA PRO ILE ILE SER ASN PHE PHE LEU SEQRES 32 B 472 ALA SER TYR ALA LEU ILE ASN PHE SER VAL PHE HIS ALA SEQRES 33 B 472 SER LEU ALA ASN SER PRO GLY TRP ARG PRO SER PHE LYS SEQRES 34 B 472 TYR TYR ASN MET TRP ALA SER LEU ALA GLY ALA ILE LEU SEQRES 35 B 472 CYS CYS VAL VAL MET PHE ILE ILE ASN TRP TRP ALA ALA SEQRES 36 B 472 LEU LEU THR ASN VAL ILE VAL LEU SER LEU TYR ILE TYR SEQRES 37 B 472 VAL SER TYR LYS HELIX 1 AA1 VAL A 213 TRP A 222 1 10 HELIX 2 AA2 ARG A 229 ALA A 237 1 9 HELIX 3 AA3 GLY A 238 THR A 265 1 28 HELIX 4 AA4 GLY A 273 LEU A 282 1 10 HELIX 5 AA5 GLY A 283 MET A 318 1 36 HELIX 6 AA6 ASP A 326 GLY A 349 1 24 HELIX 7 AA7 GLY A 349 ILE A 377 1 29 HELIX 8 AA8 VAL A 379 LYS A 383 5 5 HELIX 9 AA9 ASP A 391 PHE A 399 1 9 HELIX 10 AB1 VAL A 411 PHE A 416 1 6 HELIX 11 AB2 PRO A 417 ALA A 419 5 3 HELIX 12 AB3 GLY A 421 GLY A 425 5 5 HELIX 13 AB4 ASP A 434 ALA A 463 1 30 HELIX 14 AB5 VAL A 517 SER A 522 1 6 HELIX 15 AB6 GLY A 531 VAL A 545 1 15 HELIX 16 AB7 SER A 546 ASP A 557 1 12 HELIX 17 AB8 TYR A 560 ALA A 564 5 5 HELIX 18 AB9 LEU A 577 LEU A 592 1 16 HELIX 19 AC1 GLU A 595 ASN A 625 1 31 HELIX 20 AC2 ASN A 637 ASN A 656 1 20 HELIX 21 AC3 ASN A 656 TYR A 676 1 21 HELIX 22 AC4 TRP B 209 TRP B 222 1 14 HELIX 23 AC5 MET B 230 ALA B 237 1 8 HELIX 24 AC6 GLY B 238 THR B 265 1 28 HELIX 25 AC7 ALA B 274 LEU B 282 1 9 HELIX 26 AC8 GLY B 283 SER B 320 1 38 HELIX 27 AC9 ASP B 326 GLY B 349 1 24 HELIX 28 AD1 GLY B 349 ILE B 377 1 29 HELIX 29 AD2 ASP B 391 PHE B 399 1 9 HELIX 30 AD3 VAL B 411 PHE B 416 1 6 HELIX 31 AD4 PRO B 417 ALA B 419 5 3 HELIX 32 AD5 GLY B 421 GLY B 425 5 5 HELIX 33 AD6 ASP B 434 ALA B 463 1 30 HELIX 34 AD7 GLN B 516 SER B 522 1 7 HELIX 35 AD8 ALA B 530 VAL B 545 1 16 HELIX 36 AD9 SER B 546 ASP B 557 1 12 HELIX 37 AE1 TYR B 560 ALA B 564 5 5 HELIX 38 AE2 PRO B 576 LEU B 592 1 17 HELIX 39 AE3 GLU B 595 ASN B 625 1 31 HELIX 40 AE4 ASN B 637 ASN B 656 1 20 HELIX 41 AE5 ASN B 656 TYR B 676 1 21 SHEET 1 AA1 2 GLY A 569 TYR A 570 0 SHEET 2 AA1 2 GLU A 575 PRO A 576 -1 O GLU A 575 N TYR A 570 SSBOND 1 CYS A 496 CYS A 507 1555 1555 2.03 SSBOND 2 CYS B 496 CYS B 507 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