HEADER STRUCTURAL PROTEIN 04-DEC-19 6V5V TITLE STRUCTURE OF GAMMA-TUBULIN IN THE NATIVE HUMAN GAMMA-TUBULIN RING TITLE 2 COMPLEX COMPND MOL_ID: 1; COMPND 2 MOLECULE: TUBULIN GAMMA-1 CHAIN; COMPND 3 CHAIN: g; COMPND 4 SYNONYM: GAMMA-1-TUBULIN,GAMMA-TUBULIN COMPLEX COMPONENT 1,GCP-1 SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606 KEYWDS TUBULIN, GAMMA-TUBULIN, GAMMA-TUBULIN RING COMPLEX, GTURC, G-TURC, KEYWDS 2 MICROTUBULE, MICROTUBULE NUCLEATION, SINGLE PARTICLE CRYO-EM KEYWDS 3 STRUCTURE, STRUCTURAL PROTEIN EXPDTA ELECTRON MICROSCOPY AUTHOR M.WIECZOREK,L.URNAVICIUS,S.TI,K.R.MOLLOY,B.T.CHAIT,T.M.KAPOOR REVDAT 3 06-MAR-24 6V5V 1 REMARK REVDAT 2 22-JAN-20 6V5V 1 JRNL REVDAT 1 01-JAN-20 6V5V 0 JRNL AUTH M.WIECZOREK,L.URNAVICIUS,S.C.TI,K.R.MOLLOY,B.T.CHAIT, JRNL AUTH 2 T.M.KAPOOR JRNL TITL ASYMMETRIC MOLECULAR ARCHITECTURE OF THE HUMAN GAMMA-TUBULIN JRNL TITL 2 RING COMPLEX. JRNL REF CELL V. 180 165 2020 JRNL REFN ISSN 1097-4172 JRNL PMID 31862189 JRNL DOI 10.1016/J.CELL.2019.12.007 REMARK 2 REMARK 2 RESOLUTION. 3.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 SOFTWARE PACKAGES : NULL 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) : 3.800 REMARK 3 NUMBER OF PARTICLES : 103340 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 6V5V COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 09-DEC-19. REMARK 100 THE DEPOSITION ID IS D_1000245633. 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 : NATIVE HUMAN GAMMA-TUBULIN RING REMARK 245 COMPLEX 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 : 7.50 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 SUMMIT (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 : NULL REMARK 245 IMAGING MODE : BRIGHT FIELD REMARK 245 ELECTRON DOSE (ELECTRONS NM**-2) : 4500.00 REMARK 245 ILLUMINATION MODE : OTHER 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: g 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 MET g 1 REMARK 465 PRO g 2 REMARK 465 ALA g 41 REMARK 465 THR g 42 REMARK 465 GLU g 43 REMARK 465 GLY g 44 REMARK 465 ALA g 55 REMARK 465 ASP g 56 REMARK 465 ASP g 57 REMARK 465 GLU g 58 REMARK 465 HIS g 59 REMARK 465 ASP g 68 REMARK 465 LEU g 69 REMARK 465 GLU g 70 REMARK 465 PRO g 71 REMARK 465 ASN g 87 REMARK 465 PRO g 88 REMARK 465 GLU g 89 REMARK 465 ASN g 90 REMARK 465 ILE g 91 REMARK 465 TYR g 92 REMARK 465 LEU g 93 REMARK 465 SER g 94 REMARK 465 GLU g 95 REMARK 465 HIS g 96 REMARK 465 GLY g 97 REMARK 465 GLY g 98 REMARK 465 GLY g 99 REMARK 465 ALA g 100 REMARK 465 GLY g 143 REMARK 465 ASN g 174 REMARK 465 GLN g 175 REMARK 465 ASP g 176 REMARK 465 GLU g 177 REMARK 465 MET g 178 REMARK 465 SER g 179 REMARK 465 ASP g 180 REMARK 465 VAL g 181 REMARK 465 VAL g 182 REMARK 465 ASN g 222 REMARK 465 PRO g 223 REMARK 465 THR g 277 REMARK 465 THR g 278 REMARK 465 ASP g 279 REMARK 465 GLN g 280 REMARK 465 SER g 281 REMARK 465 VAL g 282 REMARK 465 ALA g 283 REMARK 465 SER g 284 REMARK 465 VAL g 285 REMARK 465 ARG g 286 REMARK 465 LYS g 287 REMARK 465 THR g 307 REMARK 465 GLY g 308 REMARK 465 ARG g 309 REMARK 465 ASP g 310 REMARK 465 ARG g 311 REMARK 465 GLN g 312 REMARK 465 THR g 313 REMARK 465 PRO g 368 REMARK 465 SER g 369 REMARK 465 ALA g 370 REMARK 465 HIS g 371 REMARK 465 ALA g 403 REMARK 465 PHE g 404 REMARK 465 LEU g 405 REMARK 465 GLU g 406 REMARK 465 GLN g 407 REMARK 465 PHE g 408 REMARK 465 ARG g 409 REMARK 465 LYS g 410 REMARK 465 GLU g 411 REMARK 465 ASP g 412 REMARK 465 MET g 413 REMARK 465 PHE g 414 REMARK 465 LYS g 415 REMARK 465 TRP g 446 REMARK 465 GLY g 447 REMARK 465 THR g 448 REMARK 465 GLN g 449 REMARK 465 GLU g 450 REMARK 465 GLN g 451 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 GLN g 221 CG CD OE1 NE2 REMARK 470 LEU g 367 CG CD1 CD2 REMARK 470 ASP g 416 CG OD1 OD2 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 g 81 -9.08 -59.30 REMARK 500 THR g 240 35.30 -98.48 REMARK 500 GLU g 327 32.29 -94.94 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GDP g 501 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: EMD-21054 RELATED DB: EMDB REMARK 900 STRUCTURE OF GAMMA-TUBULIN IN THE NATIVE HUMAN GAMMA-TUBULIN RING REMARK 900 COMPLEX DBREF 6V5V g 1 451 UNP P23258 TBG1_HUMAN 1 451 SEQADV 6V5V ALA g 35 UNP P23258 GLY 35 CONFLICT SEQADV 6V5V LEU g 202 UNP P23258 VAL 202 CONFLICT SEQRES 1 g 451 MET PRO ARG GLU ILE ILE THR LEU GLN LEU GLY GLN CYS SEQRES 2 g 451 GLY ASN GLN ILE GLY PHE GLU PHE TRP LYS GLN LEU CYS SEQRES 3 g 451 ALA GLU HIS GLY ILE SER PRO GLU ALA ILE VAL GLU GLU SEQRES 4 g 451 PHE ALA THR GLU GLY THR ASP ARG LYS ASP VAL PHE PHE SEQRES 5 g 451 TYR GLN ALA ASP ASP GLU HIS TYR ILE PRO ARG ALA VAL SEQRES 6 g 451 LEU LEU ASP LEU GLU PRO ARG VAL ILE HIS SER ILE LEU SEQRES 7 g 451 ASN SER PRO TYR ALA LYS LEU TYR ASN PRO GLU ASN ILE SEQRES 8 g 451 TYR LEU SER GLU HIS GLY GLY GLY ALA GLY ASN ASN TRP SEQRES 9 g 451 ALA SER GLY PHE SER GLN GLY GLU LYS ILE HIS GLU ASP SEQRES 10 g 451 ILE PHE ASP ILE ILE ASP ARG GLU ALA ASP GLY SER ASP SEQRES 11 g 451 SER LEU GLU GLY PHE VAL LEU CYS HIS SER ILE ALA GLY SEQRES 12 g 451 GLY THR GLY SER GLY LEU GLY SER TYR LEU LEU GLU ARG SEQRES 13 g 451 LEU ASN ASP ARG TYR PRO LYS LYS LEU VAL GLN THR TYR SEQRES 14 g 451 SER VAL PHE PRO ASN GLN ASP GLU MET SER ASP VAL VAL SEQRES 15 g 451 VAL GLN PRO TYR ASN SER LEU LEU THR LEU LYS ARG LEU SEQRES 16 g 451 THR GLN ASN ALA ASP CYS LEU VAL VAL LEU ASP ASN THR SEQRES 17 g 451 ALA LEU ASN ARG ILE ALA THR ASP ARG LEU HIS ILE GLN SEQRES 18 g 451 ASN PRO SER PHE SER GLN ILE ASN GLN LEU VAL SER THR SEQRES 19 g 451 ILE MET SER ALA SER THR THR THR LEU ARG TYR PRO GLY SEQRES 20 g 451 TYR MET ASN ASN ASP LEU ILE GLY LEU ILE ALA SER LEU SEQRES 21 g 451 ILE PRO THR PRO ARG LEU HIS PHE LEU MET THR GLY TYR SEQRES 22 g 451 THR PRO LEU THR THR ASP GLN SER VAL ALA SER VAL ARG SEQRES 23 g 451 LYS THR THR VAL LEU ASP VAL MET ARG ARG LEU LEU GLN SEQRES 24 g 451 PRO LYS ASN VAL MET VAL SER THR GLY ARG ASP ARG GLN SEQRES 25 g 451 THR ASN HIS CYS TYR ILE ALA ILE LEU ASN ILE ILE GLN SEQRES 26 g 451 GLY GLU VAL ASP PRO THR GLN VAL HIS LYS SER LEU GLN SEQRES 27 g 451 ARG ILE ARG GLU ARG LYS LEU ALA ASN PHE ILE PRO TRP SEQRES 28 g 451 GLY PRO ALA SER ILE GLN VAL ALA LEU SER ARG LYS SER SEQRES 29 g 451 PRO TYR LEU PRO SER ALA HIS ARG VAL SER GLY LEU MET SEQRES 30 g 451 MET ALA ASN HIS THR SER ILE SER SER LEU PHE GLU ARG SEQRES 31 g 451 THR CYS ARG GLN TYR ASP LYS LEU ARG LYS ARG GLU ALA SEQRES 32 g 451 PHE LEU GLU GLN PHE ARG LYS GLU ASP MET PHE LYS ASP SEQRES 33 g 451 ASN PHE ASP GLU MET ASP THR SER ARG GLU ILE VAL GLN SEQRES 34 g 451 GLN LEU ILE ASP GLU TYR HIS ALA ALA THR ARG PRO ASP SEQRES 35 g 451 TYR ILE SER TRP GLY THR GLN GLU GLN HET GDP g 501 28 HETNAM GDP GUANOSINE-5'-DIPHOSPHATE FORMUL 2 GDP C10 H15 N5 O11 P2 HELIX 1 AA1 LEU g 10 HIS g 29 1 20 HELIX 2 AA2 VAL g 73 SER g 80 1 8 HELIX 3 AA3 TYR g 82 TYR g 86 5 5 HELIX 4 AA4 ASN g 103 ILE g 114 1 12 HELIX 5 AA5 ILE g 114 GLY g 128 1 15 HELIX 6 AA6 THR g 145 TYR g 161 1 17 HELIX 7 AA7 GLN g 184 THR g 196 1 13 HELIX 8 AA8 ASP g 206 LEU g 218 1 13 HELIX 9 AA9 PHE g 225 THR g 240 1 16 HELIX 10 AB1 THR g 240 TYR g 245 1 6 HELIX 11 AB2 ASP g 252 ILE g 261 1 10 HELIX 12 AB3 THR g 289 LEU g 298 1 10 HELIX 13 AB4 GLN g 332 LYS g 344 1 13 HELIX 14 AB5 ILE g 384 LYS g 400 1 17 HELIX 15 AB6 ASP g 419 THR g 439 1 21 SHEET 1 AA1 3 ALA g 64 LEU g 66 0 SHEET 2 AA1 3 GLU g 4 GLN g 9 1 N GLN g 9 O VAL g 65 SHEET 3 AA1 3 LEU g 132 CYS g 138 1 O VAL g 136 N LEU g 8 SHEET 1 AA2 2 PHE g 52 TYR g 53 0 SHEET 2 AA2 2 ILE g 61 PRO g 62 -1 O ILE g 61 N TYR g 53 SHEET 1 AA3 4 MET g 270 TYR g 273 0 SHEET 2 AA3 4 GLY g 375 HIS g 381 -1 O ALA g 379 N MET g 270 SHEET 3 AA3 4 TYR g 317 ILE g 324 -1 N ILE g 323 O LEU g 376 SHEET 4 AA3 4 ILE g 356 LEU g 360 1 O GLN g 357 N ILE g 320 SITE 1 AC1 12 GLN g 12 CYS g 13 GLN g 16 GLY g 101 SITE 2 AC1 12 SER g 140 ALA g 142 GLY g 144 THR g 145 SITE 3 AC1 12 GLY g 146 ASN g 207 PHE g 225 ASN g 229 CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 P 1 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