HEADER LIGASE 05-MAR-21 7NS4 TITLE CATALYTIC MODULE OF YEAST CHELATOR-GID SR4 E3 UBIQUITIN LIGASE COMPND MOL_ID: 1; COMPND 2 MOLECULE: E3 UBIQUITIN-PROTEIN LIGASE RMD5; COMPND 3 CHAIN: b; COMPND 4 SYNONYM: GLUCOSE-INDUCED DEGRADATION PROTEIN 2,REQUIRED FOR MEIOTIC COMPND 5 NUCLEAR DIVISION PROTEIN 5,SPORULATION PROTEIN RMD5; COMPND 6 EC: 2.3.2.27; COMPND 7 ENGINEERED: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: PROTEIN FYV10; COMPND 10 CHAIN: i; COMPND 11 SYNONYM: FUNCTION REQUIRED FOR YEAST VIABILITY PROTEIN 10,GLUCOSE- COMPND 12 INDUCED DEGRADATION PROTEIN 9,PROBABLE E3 UBIQUITIN-PROTEIN LIGASE COMPND 13 GID9; COMPND 14 EC: 2.3.2.27; COMPND 15 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE (STRAIN ATCC 204508 / SOURCE 3 S288C); SOURCE 4 ORGANISM_COMMON: BAKER'S YEAST; SOURCE 5 ORGANISM_TAXID: 559292; SOURCE 6 STRAIN: ATCC 204508 / S288C; SOURCE 7 GENE: RMD5, GID2, YDR255C, YD9320A.05C; SOURCE 8 EXPRESSION_SYSTEM: TRICHOPLUSIA NI; SOURCE 9 EXPRESSION_SYSTEM_TAXID: 7111; SOURCE 10 MOL_ID: 2; SOURCE 11 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE (STRAIN ATCC 204508 / SOURCE 12 S288C); SOURCE 13 ORGANISM_COMMON: BAKER'S YEAST; SOURCE 14 ORGANISM_TAXID: 559292; SOURCE 15 STRAIN: ATCC 204508 / S288C; SOURCE 16 GENE: FYV10, GID9, YIL097W; SOURCE 17 EXPRESSION_SYSTEM: TRICHOPLUSIA NI; SOURCE 18 EXPRESSION_SYSTEM_TAXID: 7111 KEYWDS GID, CTLH, UBIQUITIN, E3 LIGASE, SUPRAMOLECULAR ASSEMBLY, METABOLISM, KEYWDS 2 GLUCONEOGENESIS, CRYOEM, LIGASE EXPDTA ELECTRON MICROSCOPY AUTHOR D.SHERPA,J.CHRUSTOWICZ,J.R.PRABU,B.A.SCHULMAN REVDAT 4 16-JUN-21 7NS4 1 JRNL REVDAT 3 09-JUN-21 7NS4 1 HELIX REVDAT 2 12-MAY-21 7NS4 1 JRNL SHEET REVDAT 1 05-MAY-21 7NS4 0 JRNL AUTH D.SHERPA,J.CHRUSTOWICZ,S.QIAO,C.R.LANGLOIS,L.A.HEHL, JRNL AUTH 2 K.V.GOTTEMUKKALA,F.M.HANSEN,O.KARAYEL,S.VON GRONAU, JRNL AUTH 3 J.R.PRABU,M.MANN,A.F.ALPI,B.A.SCHULMAN JRNL TITL GID E3 LIGASE SUPRAMOLECULAR CHELATE ASSEMBLY CONFIGURES JRNL TITL 2 MULTIPRONGED UBIQUITIN TARGETING OF AN OLIGOMERIC METABOLIC JRNL TITL 3 ENZYME. JRNL REF MOL.CELL V. 81 2445 2021 JRNL REFN ISSN 1097-2765 JRNL PMID 33905682 JRNL DOI 10.1016/J.MOLCEL.2021.03.025 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH D.SHERPA,J.CHRUSTOWICZ,S.QIAO,C.R.LANGLOIS,L.A.HEHL, REMARK 1 AUTH 2 K.V.GOTTEMUKKALA,F.M.HANSEN,O.KARAYEL,J.R.PRABU,M.MANN, REMARK 1 AUTH 3 A.F.ALPI,B.A.SCHULMAN REMARK 1 TITL GID E3 LIGASE SUPRAMOLECULAR CHELATE ASSEMBLY CONFIGURES REMARK 1 TITL 2 MULTIPRONGED UBIQUITIN TARGETING OF AN OLIGOMERIC METABOLIC REMARK 1 TITL 3 ENZYME REMARK 1 REF BIORXIV 2021 REMARK 1 REFN REMARK 1 DOI 10.1101/2021.04.07.436316 REMARK 2 REMARK 2 RESOLUTION. 3.90 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) : 3.900 REMARK 3 NUMBER OF PARTICLES : 74254 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 7NS4 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 05-MAR-21. REMARK 100 THE DEPOSITION ID IS D_1292114469. 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 : CATALYTIC MODULE OF YEAST REMARK 245 CHELATOR-GID SR4 COMPRISING REMARK 245 GID2 AND GID9 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 : GENERATED BY FOCUSED REFINEMENT REMARK 245 OF CHELATOR-GID SR4 + FBP1 MAP 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) : 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) : 7920.00 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: b, i 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 b 1 REMARK 465 GLU b 57 REMARK 465 VAL b 58 REMARK 465 TYR b 59 REMARK 465 ASN b 60 REMARK 465 LYS b 61 REMARK 465 LEU b 62 REMARK 465 SER b 63 REMARK 465 ASP b 64 REMARK 465 LYS b 65 REMARK 465 GLU b 66 REMARK 465 LYS b 67 REMARK 465 GLN b 68 REMARK 465 LYS b 69 REMARK 465 PHE b 70 REMARK 465 GLU b 204 REMARK 465 SER b 205 REMARK 465 LEU b 206 REMARK 465 SER b 207 REMARK 465 MET b 226 REMARK 465 GLN b 227 REMARK 465 ILE b 228 REMARK 465 VAL b 229 REMARK 465 LYS b 230 REMARK 465 HIS b 231 REMARK 465 GLY b 232 REMARK 465 ASN b 233 REMARK 465 PRO b 234 REMARK 465 VAL b 235 REMARK 465 GLU b 236 REMARK 465 LEU b 237 REMARK 465 TYR b 238 REMARK 465 TYR b 239 REMARK 465 GLN b 240 REMARK 465 ILE b 241 REMARK 465 THR b 242 REMARK 465 GLN b 243 REMARK 465 ASN b 244 REMARK 465 ALA b 245 REMARK 465 PRO b 246 REMARK 465 LEU b 247 REMARK 465 ASP b 248 REMARK 465 CYS b 249 REMARK 465 PHE b 250 REMARK 465 ARG b 251 REMARK 465 HIS b 252 REMARK 465 ARG b 253 REMARK 465 GLU b 254 REMARK 465 LYS b 255 REMARK 465 GLU b 256 REMARK 465 LEU b 257 REMARK 465 MET b 258 REMARK 465 GLN b 259 REMARK 465 ASN b 260 REMARK 465 VAL b 261 REMARK 465 VAL b 262 REMARK 465 PRO b 263 REMARK 465 LEU b 264 REMARK 465 LEU b 265 REMARK 465 THR b 266 REMARK 465 LYS b 267 REMARK 465 SER b 268 REMARK 465 LEU b 269 REMARK 465 ILE b 270 REMARK 465 GLY b 271 REMARK 465 GLN b 272 REMARK 465 PRO b 273 REMARK 465 ILE b 274 REMARK 465 GLU b 275 REMARK 465 ASP b 276 REMARK 465 ILE b 277 REMARK 465 ASP b 278 REMARK 465 SER b 279 REMARK 465 LYS b 280 REMARK 465 LEU b 331 REMARK 465 ALA b 332 REMARK 465 HIS b 333 REMARK 465 VAL b 334 REMARK 465 ASP b 335 REMARK 465 PRO b 402 REMARK 465 TYR b 403 REMARK 465 MET i 1 REMARK 465 ALA i 2 REMARK 465 GLU i 3 REMARK 465 HIS i 61 REMARK 465 ASN i 62 REMARK 465 ASP i 63 REMARK 465 VAL i 64 REMARK 465 GLU i 65 REMARK 465 HIS i 66 REMARK 465 ASN i 119 REMARK 465 SER i 120 REMARK 465 GLY i 121 REMARK 465 THR i 122 REMARK 465 SER i 123 REMARK 465 HIS i 124 REMARK 465 ASN i 125 REMARK 465 GLY i 126 REMARK 465 ASN i 127 REMARK 465 ASN i 128 REMARK 465 GLU i 129 REMARK 465 ASN i 160 REMARK 465 SER i 161 REMARK 465 GLU i 162 REMARK 465 THR i 163 REMARK 465 LYS i 164 REMARK 465 ASP i 165 REMARK 465 LEU i 237 REMARK 465 LEU i 238 REMARK 465 LYS i 239 REMARK 465 VAL i 240 REMARK 465 ASP i 241 REMARK 465 ASN i 242 REMARK 465 TYR i 243 REMARK 465 THR i 244 REMARK 465 ASP i 245 REMARK 465 ALA i 246 REMARK 465 ILE i 247 REMARK 465 VAL i 248 REMARK 465 CYS i 249 REMARK 465 PHE i 250 REMARK 465 GLN i 251 REMARK 465 ARG i 252 REMARK 465 PHE i 253 REMARK 465 LEU i 254 REMARK 465 LEU i 255 REMARK 465 PRO i 256 REMARK 465 PHE i 257 REMARK 465 VAL i 258 REMARK 465 LYS i 259 REMARK 465 SER i 260 REMARK 465 ASN i 261 REMARK 465 PHE i 262 REMARK 465 THR i 263 REMARK 465 ASP i 264 REMARK 465 LEU i 265 REMARK 465 LYS i 266 REMARK 465 LEU i 267 REMARK 465 ALA i 268 REMARK 465 SER i 269 REMARK 465 GLY i 270 REMARK 465 LEU i 271 REMARK 465 LEU i 272 REMARK 465 ILE i 273 REMARK 465 PHE i 274 REMARK 465 ILE i 275 REMARK 465 LYS i 276 REMARK 465 TYR i 277 REMARK 465 CYS i 278 REMARK 465 ASN i 279 REMARK 465 ASP i 280 REMARK 465 GLN i 281 REMARK 465 LYS i 282 REMARK 465 PRO i 283 REMARK 465 THR i 284 REMARK 465 SER i 285 REMARK 465 SER i 286 REMARK 465 THR i 287 REMARK 465 SER i 288 REMARK 465 SER i 289 REMARK 465 GLY i 290 REMARK 465 PHE i 291 REMARK 465 ASP i 292 REMARK 465 THR i 293 REMARK 465 GLU i 294 REMARK 465 GLU i 295 REMARK 465 ILE i 296 REMARK 465 LYS i 297 REMARK 465 SER i 298 REMARK 465 GLN i 299 REMARK 465 SER i 300 REMARK 465 LEU i 301 REMARK 465 PRO i 302 REMARK 465 MET i 303 REMARK 465 LYS i 304 REMARK 465 LYS i 305 REMARK 465 ASP i 306 REMARK 465 ARG i 307 REMARK 465 ILE i 308 REMARK 465 PHE i 309 REMARK 465 GLN i 310 REMARK 465 HIS i 311 REMARK 465 PHE i 312 REMARK 465 PHE i 313 REMARK 465 HIS i 314 REMARK 465 LYS i 315 REMARK 465 SER i 316 REMARK 465 LEU i 317 REMARK 465 PRO i 318 REMARK 465 ARG i 319 REMARK 465 ILE i 320 REMARK 465 THR i 321 REMARK 465 SER i 322 REMARK 465 LYS i 323 REMARK 465 PRO i 324 REMARK 465 ALA i 325 REMARK 465 VAL i 326 REMARK 465 ASN i 327 REMARK 465 THR i 328 REMARK 465 THR i 329 REMARK 465 ASP i 330 REMARK 465 TYR i 331 REMARK 465 ASP i 332 REMARK 465 LYS i 333 REMARK 465 SER i 334 REMARK 465 SER i 335 REMARK 465 LEU i 336 REMARK 465 ILE i 337 REMARK 465 ASN i 338 REMARK 465 LEU i 339 REMARK 465 GLN i 340 REMARK 465 SER i 341 REMARK 465 GLY i 342 REMARK 465 ASP i 343 REMARK 465 PHE i 344 REMARK 465 GLU i 345 REMARK 465 ARG i 346 REMARK 465 TYR i 347 REMARK 465 SER i 399 REMARK 465 ASP i 400 REMARK 465 ASP i 401 REMARK 465 GLU i 402 REMARK 465 ASN i 403 REMARK 465 GLY i 404 REMARK 465 ASN i 405 REMARK 465 GLN i 406 REMARK 465 GLU i 407 REMARK 465 THR i 408 REMARK 465 GLU i 409 REMARK 465 THR i 410 REMARK 465 ALA i 411 REMARK 465 THR i 412 REMARK 465 THR i 413 REMARK 465 ALA i 414 REMARK 465 GLU i 415 REMARK 465 LYS i 416 REMARK 465 GLU i 417 REMARK 465 VAL i 418 REMARK 465 GLU i 419 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 GLU b 3 CG CD OE1 OE2 REMARK 470 ASP b 18 CG OD1 OD2 REMARK 470 SER b 19 OG REMARK 470 GLU b 22 CG CD OE1 OE2 REMARK 470 GLU b 23 CG CD OE1 OE2 REMARK 470 LYS b 28 CG CD CE NZ REMARK 470 GLU b 35 CG CD OE1 OE2 REMARK 470 LYS b 49 CG CD CE NZ REMARK 470 GLN b 52 CG CD OE1 NE2 REMARK 470 ARG b 72 CG CD NE CZ NH1 NH2 REMARK 470 LYS b 94 CG CD CE NZ REMARK 470 LYS b 113 CG CD CE NZ REMARK 470 GLU b 116 CG CD OE1 OE2 REMARK 470 ASP b 118 CG OD1 OD2 REMARK 470 LYS b 129 CG CD CE NZ REMARK 470 GLU b 130 CG CD OE1 OE2 REMARK 470 LYS b 156 CG CD CE NZ REMARK 470 ASN b 157 CG OD1 ND2 REMARK 470 GLU b 158 CG CD OE1 OE2 REMARK 470 LYS b 172 CG CD CE NZ REMARK 470 GLU b 176 CG CD OE1 OE2 REMARK 470 GLU b 193 CG CD OE1 OE2 REMARK 470 ASN b 282 CG OD1 ND2 REMARK 470 LYS b 283 CG CD CE NZ REMARK 470 LYS b 286 CG CD CE NZ REMARK 470 GLU b 287 CG CD OE1 OE2 REMARK 470 LYS b 324 CG CD CE NZ REMARK 470 GLU b 330 CG CD OE1 OE2 REMARK 470 THR b 337 OG1 CG2 REMARK 470 LYS b 339 CG CD CE NZ REMARK 470 GLU b 341 CG CD OE1 OE2 REMARK 470 ASP b 350 CG OD1 OD2 REMARK 470 GLU b 367 CG CD OE1 OE2 REMARK 470 THR b 368 OG1 CG2 REMARK 470 THR b 369 OG1 CG2 REMARK 470 GLU b 371 CG CD OE1 OE2 REMARK 470 ASN b 407 CG OD1 ND2 REMARK 470 LYS b 414 CG CD CE NZ REMARK 470 ARG b 417 CG CD NE CZ NH1 NH2 REMARK 470 LYS i 4 CG CD CE NZ REMARK 470 GLU i 28 CG CD OE1 OE2 REMARK 470 LYS i 43 CG CD CE NZ REMARK 470 GLU i 44 CG CD OE1 OE2 REMARK 470 GLU i 50 CG CD OE1 OE2 REMARK 470 GLN i 57 CG CD OE1 NE2 REMARK 470 GLU i 60 CG CD OE1 OE2 REMARK 470 GLU i 76 CG CD OE1 OE2 REMARK 470 GLU i 111 CG CD OE1 OE2 REMARK 470 ASP i 149 CG OD1 OD2 REMARK 470 LYS i 158 CG CD CE NZ REMARK 470 GLN i 178 CG CD OE1 NE2 REMARK 470 ASP i 180 CG OD1 OD2 REMARK 470 HIS i 200 CG ND1 CD2 CE1 NE2 REMARK 470 GLU i 201 CG CD OE1 OE2 REMARK 470 ARG i 202 CG CD NE CZ NH1 NH2 REMARK 470 ASN i 203 CG OD1 ND2 REMARK 470 LEU i 204 CG CD1 CD2 REMARK 470 GLU i 213 CG CD OE1 OE2 REMARK 470 LYS i 215 CG CD CE NZ REMARK 470 LYS i 216 CG CD CE NZ REMARK 470 LYS i 220 CG CD CE NZ REMARK 470 GLU i 226 CG CD OE1 OE2 REMARK 470 ARG i 230 CG CD NE CZ NH1 NH2 REMARK 470 TYR i 234 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 GLU i 236 CG CD OE1 OE2 REMARK 470 ASN i 349 CG OD1 ND2 REMARK 470 LEU i 350 CG CD1 CD2 REMARK 470 ASP i 420 CG OD1 OD2 REMARK 470 GLU i 439 CG CD OE1 OE2 REMARK 470 LYS i 442 CG CD CE NZ REMARK 470 GLN i 455 CG CD OE1 NE2 REMARK 470 GLU i 460 CG CD OE1 OE2 REMARK 470 LYS i 477 CG CD CE NZ REMARK 470 LYS i 485 CG CD CE NZ REMARK 470 ASP i 501 CG OD1 OD2 REMARK 470 LYS i 503 CG CD CE NZ 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 N SER b 2 OD2 ASP i 13 2.12 REMARK 500 OH TYR i 471 OD1 ASP i 498 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 ASN b 20 -10.12 73.21 REMARK 500 GLU b 22 -2.65 64.29 REMARK 500 GLU b 75 4.20 -64.91 REMARK 500 ASN b 125 64.34 61.30 REMARK 500 ASN b 155 -176.69 -69.42 REMARK 500 VAL b 166 -60.23 -91.42 REMARK 500 ASN b 171 -163.60 -76.19 REMARK 500 LYS b 172 4.07 -61.95 REMARK 500 THR b 192 -164.06 -79.13 REMARK 500 GLU b 202 55.32 -93.62 REMARK 500 ILE b 302 -71.11 -121.68 REMARK 500 PHE b 303 166.93 177.75 REMARK 500 PRO b 307 2.93 -68.01 REMARK 500 THR b 338 17.75 57.15 REMARK 500 ASP b 340 -158.01 -150.47 REMARK 500 GLU b 341 120.54 -38.87 REMARK 500 ASP b 345 60.16 36.88 REMARK 500 LYS b 365 67.52 61.14 REMARK 500 ALA b 378 -6.56 67.79 REMARK 500 ILE b 397 0.10 -62.27 REMARK 500 SER b 412 44.55 -141.63 REMARK 500 SER i 117 32.17 -94.41 REMARK 500 TYR i 185 6.63 55.77 REMARK 500 ASN i 214 34.43 -140.17 REMARK 500 SER i 374 76.21 61.44 REMARK 500 GLN i 375 58.82 -69.93 REMARK 500 LYS i 432 46.78 -81.73 REMARK 500 SER i 438 -75.95 -82.77 REMARK 500 GLU i 439 -19.79 -147.04 REMARK 500 ALA i 447 59.18 -100.24 REMARK 500 PHE i 450 -76.03 -95.44 REMARK 500 ALA i 451 160.28 175.90 REMARK 500 PRO i 466 -14.91 -47.82 REMARK 500 TYR i 471 -72.39 -114.88 REMARK 500 ASP i 472 171.05 175.56 REMARK 500 MET i 502 123.55 -38.27 REMARK 500 ASP i 509 51.27 -91.06 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN i 601 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS b 356 NE2 REMARK 620 2 CYS i 395 SG 107.9 REMARK 620 3 CYS i 434 SG 106.5 120.5 REMARK 620 4 CYS i 437 SG 102.9 111.2 106.4 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN b 501 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS b 379 SG REMARK 620 2 HIS b 381 NE2 108.2 REMARK 620 3 CYS b 401 SG 120.6 106.6 REMARK 620 4 CYS b 404 SG 111.0 101.9 106.8 REMARK 620 N 1 2 3 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: EMD-12541 RELATED DB: EMDB REMARK 900 STRUCTURE OF APO CHELATOR-GID SR4 REMARK 900 RELATED ID: EMD-12557 RELATED DB: EMDB REMARK 900 STRUCTURE OF CHELATOR-GID SR4 BOUND TO FBP1 REMARK 900 RELATED ID: EMD-12548 RELATED DB: EMDB REMARK 900 STRUCTURE OF GID SR4 REMARK 900 RELATED ID: EMD-12538 RELATED DB: EMDB REMARK 900 STRUCTURE OF ENDOGENOUS GID ANT REMARK 900 RELATED ID: EMD-12540 RELATED DB: EMDB REMARK 900 STRUCTURE OF ENDOGENOUS CHELATOR-GID ANT REMARK 900 RELATED ID: EMD-12559 RELATED DB: EMDB REMARK 900 STRUCTURE OF SRS MODULE OF CHELATOR-GID SR4 REMARK 900 RELATED ID: 7NS3 RELATED DB: PDB REMARK 900 MODEL OF SRS MODULE OF CHELATOR-GID SR4 REMARK 900 RELATED ID: EMD-12560 RELATED DB: EMDB REMARK 900 CATALYTIC MODULE OF YEAST CHELATOR-GID SR4 E3 UBIQUITIN LIGASE DBREF 7NS4 b 1 421 UNP Q12508 RMD5_YEAST 1 421 DBREF 7NS4 i 1 516 UNP P40492 FYV10_YEAST 1 516 SEQRES 1 b 421 MET SER GLU LEU LEU ASP SER PHE GLU THR GLU PHE ALA SEQRES 2 b 421 LYS PHE TYR THR ASP SER ASN LEU GLU GLU THR ASN LEU SEQRES 3 b 421 GLN LYS CYS LEU ASP HIS THR HIS GLU PHE LYS SER GLN SEQRES 4 b 421 LEU LYS LYS LEU LYS ALA HIS LEU ASN LYS HIS ILE GLN SEQRES 5 b 421 GLU SER LYS PRO GLU VAL TYR ASN LYS LEU SER ASP LYS SEQRES 6 b 421 GLU LYS GLN LYS PHE LYS ARG LYS ARG GLU LEU ILE ILE SEQRES 7 b 421 GLU LYS LEU SER LYS SER GLN ARG GLN TRP ASP HIS SER SEQRES 8 b 421 VAL LYS LYS GLN ILE LYS TYR VAL SER GLN GLN SER ASN SEQRES 9 b 421 ARG PHE ASN LYS SER THR LEU ASN LYS LEU LYS GLU PHE SEQRES 10 b 421 ASP ILE ASP SER VAL TYR VAL ASN LYS LEU PRO LYS GLU SEQRES 11 b 421 THR MET GLU ASN VAL ASN GLU ALA ILE GLY TYR HIS ILE SEQRES 12 b 421 LEU ARG TYR SER ILE ASP ASN MET PRO LEU GLY ASN LYS SEQRES 13 b 421 ASN GLU ALA PHE GLN TYR LEU LYS ASP VAL TYR GLY ILE SEQRES 14 b 421 THR ASN LYS GLU SER THR GLU PHE ILE GLU MET GLY GLN SEQRES 15 b 421 ILE VAL HIS ASP LEU LYS LYS GLY ASP THR GLU SER CYS SEQRES 16 b 421 LEU LYS TRP CYS SER ASN GLU MET GLU SER LEU SER SER SEQRES 17 b 421 ASN HIS THR ALA LEU SER SER LEU LYS PHE ASP LEU TYR SEQRES 18 b 421 THR LEU SER ALA MET GLN ILE VAL LYS HIS GLY ASN PRO SEQRES 19 b 421 VAL GLU LEU TYR TYR GLN ILE THR GLN ASN ALA PRO LEU SEQRES 20 b 421 ASP CYS PHE ARG HIS ARG GLU LYS GLU LEU MET GLN ASN SEQRES 21 b 421 VAL VAL PRO LEU LEU THR LYS SER LEU ILE GLY GLN PRO SEQRES 22 b 421 ILE GLU ASP ILE ASP SER LYS VAL ASN LYS GLU LEU LYS SEQRES 23 b 421 GLU CYS THR SER LEU PHE ILE LYS GLU TYR CYS ALA ALA SEQRES 24 b 421 LYS HIS ILE PHE PHE ASP SER PRO LEU PHE LEU ILE VAL SEQRES 25 b 421 LEU SER GLY LEU ILE SER PHE GLN PHE PHE ILE LYS TYR SEQRES 26 b 421 LYS THR ILE ARG GLU LEU ALA HIS VAL ASP TRP THR THR SEQRES 27 b 421 LYS ASP GLU LEU PRO PHE ASP VAL LYS LEU PRO ASP PHE SEQRES 28 b 421 LEU THR HIS PHE HIS PRO ILE PHE ILE CYS PRO VAL LEU SEQRES 29 b 421 LYS GLU GLU THR THR THR GLU ASN PRO PRO TYR SER LEU SEQRES 30 b 421 ALA CYS HIS HIS ILE ILE SER LYS LYS ALA LEU ASP ARG SEQRES 31 b 421 LEU SER LYS ASN GLY THR ILE THR PHE LYS CYS PRO TYR SEQRES 32 b 421 CYS PRO VAL ASN THR SER MET SER SER THR LYS LYS VAL SEQRES 33 b 421 ARG PHE VAL MET LEU SEQRES 1 i 516 MET ALA GLU LYS SER ILE PHE ASN GLU PRO ASP VAL ASP SEQRES 2 i 516 PHE HIS LEU LYS LEU ASN GLN GLN LEU PHE HIS ILE PRO SEQRES 3 i 516 TYR GLU LEU LEU SER LYS ARG ILE LYS HIS THR GLN ALA SEQRES 4 i 516 VAL ILE ASN LYS GLU THR LYS SER LEU HIS GLU HIS THR SEQRES 5 i 516 ALA ALA LEU ASN GLN ILE PHE GLU HIS ASN ASP VAL GLU SEQRES 6 i 516 HIS ASP GLU LEU ALA LEU ALA LYS ILE THR GLU MET ILE SEQRES 7 i 516 ARG LYS VAL ASP HIS ILE GLU ARG PHE LEU ASN THR GLN SEQRES 8 i 516 ILE LYS SER TYR CYS GLN ILE LEU ASN ARG ILE LYS LYS SEQRES 9 i 516 ARG LEU GLU PHE PHE HIS GLU LEU LYS ASP ILE LYS SER SEQRES 10 i 516 GLN ASN SER GLY THR SER HIS ASN GLY ASN ASN GLU GLY SEQRES 11 i 516 THR ARG THR LYS LEU ILE GLN TRP TYR GLN SER TYR THR SEQRES 12 i 516 ASN ILE LEU ILE GLY ASP TYR LEU THR ARG ASN ASN PRO SEQRES 13 i 516 ILE LYS TYR ASN SER GLU THR LYS ASP HIS TRP ASN SER SEQRES 14 i 516 GLY VAL VAL PHE LEU LYS GLN SER GLN LEU ASP ASP LEU SEQRES 15 i 516 ILE ASP TYR ASP VAL LEU LEU GLU ALA ASN ARG ILE SER SEQRES 16 i 516 THR SER LEU LEU HIS GLU ARG ASN LEU LEU PRO LEU ILE SEQRES 17 i 516 SER TRP ILE ASN GLU ASN LYS LYS THR LEU THR LYS LYS SEQRES 18 i 516 SER SER ILE LEU GLU PHE GLN ALA ARG LEU GLN GLU TYR SEQRES 19 i 516 ILE GLU LEU LEU LYS VAL ASP ASN TYR THR ASP ALA ILE SEQRES 20 i 516 VAL CYS PHE GLN ARG PHE LEU LEU PRO PHE VAL LYS SER SEQRES 21 i 516 ASN PHE THR ASP LEU LYS LEU ALA SER GLY LEU LEU ILE SEQRES 22 i 516 PHE ILE LYS TYR CYS ASN ASP GLN LYS PRO THR SER SER SEQRES 23 i 516 THR SER SER GLY PHE ASP THR GLU GLU ILE LYS SER GLN SEQRES 24 i 516 SER LEU PRO MET LYS LYS ASP ARG ILE PHE GLN HIS PHE SEQRES 25 i 516 PHE HIS LYS SER LEU PRO ARG ILE THR SER LYS PRO ALA SEQRES 26 i 516 VAL ASN THR THR ASP TYR ASP LYS SER SER LEU ILE ASN SEQRES 27 i 516 LEU GLN SER GLY ASP PHE GLU ARG TYR LEU ASN LEU LEU SEQRES 28 i 516 ASP ASP GLN ARG TRP SER VAL LEU ASN ASP LEU PHE LEU SEQRES 29 i 516 SER ASP PHE TYR SER MET TYR GLY ILE SER GLN ASN ASP SEQRES 30 i 516 PRO LEU LEU ILE TYR LEU SER LEU GLY ILE SER SER LEU SEQRES 31 i 516 LYS THR ARG ASP CYS LEU HIS PRO SER ASP ASP GLU ASN SEQRES 32 i 516 GLY ASN GLN GLU THR GLU THR ALA THR THR ALA GLU LYS SEQRES 33 i 516 GLU VAL GLU ASP LEU GLN LEU PHE THR LEU HIS SER LEU SEQRES 34 i 516 LYS ARG LYS ASN CYS PRO VAL CYS SER GLU THR PHE LYS SEQRES 35 i 516 PRO ILE THR GLN ALA LEU PRO PHE ALA HIS HIS ILE GLN SEQRES 36 i 516 SER GLN LEU PHE GLU ASN PRO ILE LEU LEU PRO ASN GLY SEQRES 37 i 516 ASN VAL TYR ASP SER LYS LYS LEU LYS LYS LEU ALA LYS SEQRES 38 i 516 THR LEU LYS LYS GLN ASN LEU ILE SER LEU ASN PRO GLY SEQRES 39 i 516 GLN ILE MET ASP PRO VAL ASP MET LYS ILE PHE CYS GLU SEQRES 40 i 516 SER ASP SER ILE LYS MET TYR PRO THR HET ZN b 501 1 HET ZN i 601 1 HETNAM ZN ZINC ION FORMUL 3 ZN 2(ZN 2+) HELIX 1 AA1 GLU b 3 PHE b 15 1 13 HELIX 2 AA2 ASN b 25 SER b 54 1 30 HELIX 3 AA3 ARG b 74 LYS b 113 1 40 HELIX 4 AA4 ILE b 119 VAL b 122 1 4 HELIX 5 AA5 ASN b 134 TYR b 146 1 13 HELIX 6 AA6 ASN b 157 VAL b 166 1 10 HELIX 7 AA7 LYS b 172 LYS b 188 1 17 HELIX 8 AA8 GLU b 193 ASN b 201 1 9 HELIX 9 AA9 HIS b 210 LEU b 223 1 14 HELIX 10 AB1 LEU b 285 LYS b 300 1 16 HELIX 11 AB2 LEU b 308 ARG b 329 1 22 HELIX 12 AB3 ASP b 350 HIS b 354 1 5 HELIX 13 AB4 LYS b 386 SER b 392 1 7 HELIX 14 AB5 VAL i 12 ASN i 19 1 8 HELIX 15 AB7 ILE i 25 PHE i 59 1 35 HELIX 16 AB8 GLU i 68 SER i 117 1 50 HELIX 17 AB9 ARG i 132 ARG i 153 1 22 HELIX 18 AC1 SER i 169 SER i 177 1 9 HELIX 19 AC2 ASP i 186 LEU i 199 1 14 HELIX 20 AC3 LEU i 207 GLU i 213 1 7 HELIX 21 AC4 LYS i 215 LYS i 221 1 7 HELIX 22 AC5 GLU i 226 ILE i 235 1 10 HELIX 23 AC6 GLN i 354 TYR i 371 1 18 HELIX 24 AC7 PRO i 378 SER i 389 1 12 HELIX 25 AC8 LEU i 421 SER i 428 1 8 HELIX 26 AC9 PHE i 441 GLN i 446 1 6 HELIX 27 AD1 LYS i 474 LYS i 485 1 12 SHEET 1 AA1 6 ASP i 509 TYR i 514 0 SHEET 2 AA1 6 PRO i 462 LEU i 465 -1 O PRO i 462 N MET i 513 SHEET 3 AA1 6 ASN i 469 TYR i 471 -1 O ASN i 469 N LEU i 465 SHEET 4 AA1 6 THR b 413 VAL b 419 1 O ARG b 417 N VAL i 470 SHEET 5 AA1 6 PRO b 374 LEU b 377 -1 O PRO b 374 N VAL b 416 SHEET 6 AA1 6 HIS b 381 SER b 384 -1 O HIS b 381 N LEU b 377 SHEET 1 AA2 2 GLN i 495 ASP i 498 0 SHEET 2 AA2 2 MET i 502 CYS i 506 -1 O LYS i 503 N ASP i 498 LINK NE2 HIS b 356 ZN ZN i 601 1555 1555 2.04 LINK SG CYS b 379 ZN ZN b 501 1555 1555 2.31 LINK NE2 HIS b 381 ZN ZN b 501 1555 1555 2.03 LINK SG CYS b 401 ZN ZN b 501 1555 1555 2.31 LINK SG CYS b 404 ZN ZN b 501 1555 1555 2.31 LINK SG CYS i 395 ZN ZN i 601 1555 1555 2.31 LINK SG CYS i 434 ZN ZN i 601 1555 1555 2.31 LINK SG CYS i 437 ZN ZN i 601 1555 1555 2.32 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