HEADER HYDROLASE 29-JUN-23 8JWH TITLE CRYO-EM STRUCTURE OF APO-STATE HUAMN ANGIOTENSIN-CONVERTING ENZYME 2 TITLE 2 (ACE2) COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROCESSED ANGIOTENSIN-CONVERTING ENZYME 2; 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: ACE2, UNQ868/PRO1885; SOURCE 6 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 9606 KEYWDS RECEPTOR, SARS-COV-2, VIRAL INFECTION, HYDROLASE EXPDTA ELECTRON MICROSCOPY AUTHOR Z.YANG,H.W.WANG REVDAT 2 23-OCT-24 8JWH 1 REMARK REVDAT 1 03-JUL-24 8JWH 0 JRNL AUTH Z.YANG,H.W.WANG JRNL TITL CRYO-EM STRUCTURE OF APO-STATE HUAMN ANGIOTENSIN-CONVERTING JRNL TITL 2 ENZYME 2 (ACE2) JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 3.34 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 SOFTWARE PACKAGES : UCSF CHIMERAX, RELION, COOT, PHENIX REMARK 3 RECONSTRUCTION SCHEMA : FOURIER SPACE REMARK 3 REMARK 3 EM MAP-MODEL FITTING AND REFINEMENT REMARK 3 PDB ENTRY : NULL REMARK 3 REFINEMENT SPACE : NULL REMARK 3 REFINEMENT PROTOCOL : OTHER REMARK 3 REFINEMENT TARGET : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE : 83.570 REMARK 3 REMARK 3 FITTING PROCEDURE : INITIAL LOCAL FITTING WAS DONE WITH A DEEP REMARK 3 -LEARNING BASED SOFTWARE CRYONET. 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) : 3.340 REMARK 3 NUMBER OF PARTICLES : 121524 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 8JWH COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBC ON 04-JUL-23. REMARK 100 THE DEPOSITION ID IS D_1300039028. 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 : HUMAN ANGIOTENSIN-CONVERTING REMARK 245 ENZYME 2 (ACE2) REMARK 245 SAMPLE CONCENTRATION (MG ML-1) : 0.88 REMARK 245 SAMPLE SUPPORT DETAILS : THE CHAMBER WAS AIR-PUMPED BY A REMARK 245 SUCTION PUMP FOR 2 MINUTES. REMARK 245 SAMPLE VITRIFICATION DETAILS : VITRIFICATION CARRIED OUT REMARK 245 THROUGH ESI-CRYOPREP METHOD. REMARK 245 SAMPLE BUFFER : NULL REMARK 245 PH : 7.00 REMARK 245 SAMPLE DETAILS : NULL REMARK 245 REMARK 245 DATA ACQUISITION REMARK 245 DATE OF EXPERIMENT : NULL REMARK 245 NUMBER OF MICROGRAPHS-IMAGES : 1000 REMARK 245 TEMPERATURE (KELVIN) : NULL REMARK 245 MICROSCOPE MODEL : FEI TITAN KRIOS REMARK 245 DETECTOR TYPE : GATAN K3 (6K X 4K) REMARK 245 MINIMUM DEFOCUS (NM) : 1000.00 REMARK 245 MAXIMUM DEFOCUS (NM) : 1400.00 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) : 5000.00 REMARK 245 ILLUMINATION MODE : FLOOD BEAM REMARK 245 NOMINAL MAGNIFICATION : 81000 REMARK 245 CALIBRATED MAGNIFICATION : 81000 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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: 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 219 O VAL A 467 2.14 REMARK 500 OE1 GLU A 209 OH TYR A 436 2.19 REMARK 500 O THR A 107 OG1 THR A 111 2.19 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 PRO A 128 125.87 -33.92 REMARK 500 ASP A 195 47.07 32.94 REMARK 500 GLN A 454 -19.21 -48.49 REMARK 500 ASP A 476 -168.96 -78.16 REMARK 500 THR A 530 -37.35 -36.74 REMARK 500 PHE A 570 49.13 -91.60 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 ASN A 119 PRO A 120 -146.08 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: EMD-36683 RELATED DB: EMDB REMARK 900 CRYO-EM STRUCTURE OF APO-STATE HUAMN ANGIOTENSIN-CONVERTING ENZYME REMARK 900 2 (ACE2) DBREF 8JWH A 1 597 UNP Q9BYF1 ACE2_HUMAN 19 615 SEQRES 1 A 597 SER THR ILE GLU GLU GLN ALA LYS THR PHE LEU ASP LYS SEQRES 2 A 597 PHE ASN HIS GLU ALA GLU ASP LEU PHE TYR GLN SER SER SEQRES 3 A 597 LEU ALA SER TRP ASN TYR ASN THR ASN ILE THR GLU GLU SEQRES 4 A 597 ASN VAL GLN ASN MET ASN ASN ALA GLY ASP LYS TRP SER SEQRES 5 A 597 ALA PHE LEU LYS GLU GLN SER THR LEU ALA GLN MET TYR SEQRES 6 A 597 PRO LEU GLN GLU ILE GLN ASN LEU THR VAL LYS LEU GLN SEQRES 7 A 597 LEU GLN ALA LEU GLN GLN ASN GLY SER SER VAL LEU SER SEQRES 8 A 597 GLU ASP LYS SER LYS ARG LEU ASN THR ILE LEU ASN THR SEQRES 9 A 597 MET SER THR ILE TYR SER THR GLY LYS VAL CYS ASN PRO SEQRES 10 A 597 ASP ASN PRO GLN GLU CYS LEU LEU LEU GLU PRO GLY LEU SEQRES 11 A 597 ASN GLU ILE MET ALA ASN SER LEU ASP TYR ASN GLU ARG SEQRES 12 A 597 LEU TRP ALA TRP GLU SER TRP ARG SER GLU VAL GLY LYS SEQRES 13 A 597 GLN LEU ARG PRO LEU TYR GLU GLU TYR VAL VAL LEU LYS SEQRES 14 A 597 ASN GLU MET ALA ARG ALA ASN HIS TYR GLU ASP TYR GLY SEQRES 15 A 597 ASP TYR TRP ARG GLY ASP TYR GLU VAL ASN GLY VAL ASP SEQRES 16 A 597 GLY TYR ASP TYR SER ARG GLY GLN LEU ILE GLU ASP VAL SEQRES 17 A 597 GLU HIS THR PHE GLU GLU ILE LYS PRO LEU TYR GLU HIS SEQRES 18 A 597 LEU HIS ALA TYR VAL ARG ALA LYS LEU MET ASN ALA TYR SEQRES 19 A 597 PRO SER TYR ILE SER PRO ILE GLY CYS LEU PRO ALA HIS SEQRES 20 A 597 LEU LEU GLY ASP MET TRP GLY ARG PHE TRP THR ASN LEU SEQRES 21 A 597 TYR SER LEU THR VAL PRO PHE GLY GLN LYS PRO ASN ILE SEQRES 22 A 597 ASP VAL THR ASP ALA MET VAL ASP GLN ALA TRP ASP ALA SEQRES 23 A 597 GLN ARG ILE PHE LYS GLU ALA GLU LYS PHE PHE VAL SER SEQRES 24 A 597 VAL GLY LEU PRO ASN MET THR GLN GLY PHE TRP GLU ASN SEQRES 25 A 597 SER MET LEU THR ASP PRO GLY ASN VAL GLN LYS ALA VAL SEQRES 26 A 597 CYS HIS PRO THR ALA TRP ASP LEU GLY LYS GLY ASP PHE SEQRES 27 A 597 ARG ILE LEU MET CYS THR LYS VAL THR MET ASP ASP PHE SEQRES 28 A 597 LEU THR ALA HIS HIS GLU MET GLY HIS ILE GLN TYR ASP SEQRES 29 A 597 MET ALA TYR ALA ALA GLN PRO PHE LEU LEU ARG ASN GLY SEQRES 30 A 597 ALA ASN GLU GLY PHE HIS GLU ALA VAL GLY GLU ILE MET SEQRES 31 A 597 SER LEU SER ALA ALA THR PRO LYS HIS LEU LYS SER ILE SEQRES 32 A 597 GLY LEU LEU SER PRO ASP PHE GLN GLU ASP ASN GLU THR SEQRES 33 A 597 GLU ILE ASN PHE LEU LEU LYS GLN ALA LEU THR ILE VAL SEQRES 34 A 597 GLY THR LEU PRO PHE THR TYR MET LEU GLU LYS TRP ARG SEQRES 35 A 597 TRP MET VAL PHE LYS GLY GLU ILE PRO LYS ASP GLN TRP SEQRES 36 A 597 MET LYS LYS TRP TRP GLU MET LYS ARG GLU ILE VAL GLY SEQRES 37 A 597 VAL VAL GLU PRO VAL PRO HIS ASP GLU THR TYR CYS ASP SEQRES 38 A 597 PRO ALA SER LEU PHE HIS VAL SER ASN ASP TYR SER PHE SEQRES 39 A 597 ILE ARG TYR TYR THR ARG THR LEU TYR GLN PHE GLN PHE SEQRES 40 A 597 GLN GLU ALA LEU CYS GLN ALA ALA LYS HIS GLU GLY PRO SEQRES 41 A 597 LEU HIS LYS CYS ASP ILE SER ASN SER THR GLU ALA GLY SEQRES 42 A 597 GLN LYS LEU PHE ASN MET LEU ARG LEU GLY LYS SER GLU SEQRES 43 A 597 PRO TRP THR LEU ALA LEU GLU ASN VAL VAL GLY ALA LYS SEQRES 44 A 597 ASN MET ASN VAL ARG PRO LEU LEU ASN TYR PHE GLU PRO SEQRES 45 A 597 LEU PHE THR TRP LEU LYS ASP GLN ASN LYS ASN SER PHE SEQRES 46 A 597 VAL GLY TRP SER THR ASP TRP SER PRO TYR ALA ASP HELIX 1 AA1 THR A 2 ASN A 35 1 34 HELIX 2 AA2 THR A 37 MET A 64 1 28 HELIX 3 AA3 PRO A 66 ILE A 70 5 5 HELIX 4 AA4 ASN A 72 GLN A 83 1 12 HELIX 5 AA5 GLY A 86 LEU A 90 5 5 HELIX 6 AA6 SER A 91 GLY A 112 1 22 HELIX 7 AA7 GLY A 129 SER A 137 1 9 HELIX 8 AA8 ASP A 139 ASN A 176 1 38 HELIX 9 AA9 ASP A 180 ASP A 188 1 9 HELIX 10 AB1 ARG A 201 TYR A 234 1 34 HELIX 11 AB2 LEU A 260 VAL A 265 1 6 HELIX 12 AB3 THR A 276 GLN A 282 1 7 HELIX 13 AB4 ASP A 285 VAL A 300 1 16 HELIX 14 AB5 THR A 306 SER A 313 1 8 HELIX 15 AB6 THR A 347 TYR A 367 1 21 HELIX 16 AB7 ALA A 368 GLN A 370 5 3 HELIX 17 AB8 PRO A 371 ARG A 375 5 5 HELIX 18 AB9 ASN A 379 ALA A 395 1 17 HELIX 19 AC1 THR A 396 ILE A 403 1 8 HELIX 20 AC2 ASP A 413 GLY A 448 1 36 HELIX 21 AC3 ASP A 453 ILE A 466 1 14 HELIX 22 AC4 ASP A 481 SER A 484 5 4 HELIX 23 AC5 LEU A 485 ASN A 490 1 6 HELIX 24 AC6 PHE A 494 ALA A 515 1 22 HELIX 25 AC7 PRO A 520 CYS A 524 5 5 HELIX 26 AC8 SER A 529 GLY A 543 1 15 HELIX 27 AC9 PRO A 547 VAL A 556 1 10 HELIX 28 AD1 VAL A 563 PHE A 570 1 8 HELIX 29 AD2 PHE A 570 ASN A 581 1 12 HELIX 30 AD3 LYS A 582 SER A 584 5 3 SHEET 1 AA1 2 VAL A 114 ASN A 116 0 SHEET 2 AA1 2 GLU A 122 LEU A 124 -1 O LEU A 124 N VAL A 114 SHEET 1 AA2 2 LEU A 244 PRO A 245 0 SHEET 2 AA2 2 VAL A 469 VAL A 470 1 O VAL A 470 N LEU A 244 SHEET 1 AA3 2 THR A 329 ASP A 332 0 SHEET 2 AA3 2 PHE A 338 LEU A 341 -1 O ARG A 339 N TRP A 331 SSBOND 1 CYS A 115 CYS A 123 1555 1555 2.03 SSBOND 2 CYS A 326 CYS A 343 1555 1555 2.03 SSBOND 3 CYS A 512 CYS A 524 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