HEADER TRANSCRIPTION 17-JUN-16 5KIZ TITLE SOLUTION STRUCTURE OF A REPACKED VERSION OF HIF-2 ALPHA PAS-B COMPND MOL_ID: 1; COMPND 2 MOLECULE: ENDOTHELIAL PAS DOMAIN-CONTAINING PROTEIN 1; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: RESIDUES 239-349; COMPND 5 SYNONYM: EPAS-1,BASIC-HELIX-LOOP-HELIX-PAS PROTEIN MOP2,CLASS E BASIC COMPND 6 HELIX-LOOP-HELIX PROTEIN 73,BHLHE73,HIF-1-ALPHA-LIKE FACTOR,HLF, COMPND 7 HYPOXIA-INDUCIBLE FACTOR 2-ALPHA,HIF2-ALPHA,MEMBER OF PAS PROTEIN 2, COMPND 8 PAS DOMAIN-CONTAINING PROTEIN 2; COMPND 9 ENGINEERED: YES; COMPND 10 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: EPAS1, BHLHE73, HIF2A, MOP2, PASD2; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS CAVITY, REPACKING, ROSETTA, TRANSCRIPTION EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR F.CORREA,J.KEY,B.KUHLMAN,K.H.GARDNER REVDAT 5 14-JUN-23 5KIZ 1 REMARK REVDAT 4 22-SEP-21 5KIZ 1 JRNL REVDAT 3 04-DEC-19 5KIZ 1 REMARK REVDAT 2 20-SEP-17 5KIZ 1 COMPND REVDAT 1 17-AUG-16 5KIZ 0 JRNL AUTH F.CORREA,J.KEY,B.KUHLMAN,K.H.GARDNER JRNL TITL COMPUTATIONAL REPACKING OF HIF-2 ALPHA CAVITY REPLACES JRNL TITL 2 WATER-BASED STABILIZED CORE. JRNL REF STRUCTURE V. 24 1918 2016 JRNL REFN ISSN 0969-2126 JRNL PMID 27667693 JRNL DOI 10.1016/J.STR.2016.08.014 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : ARIA 2.3, ARIA 2.3 REMARK 3 AUTHORS : LINGE, O'DONOGHUE AND NILGES (ARIA), LINGE, REMARK 3 O'DONOGHUE AND NILGES (ARIA) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 5KIZ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 21-JUN-16. REMARK 100 THE DEPOSITION ID IS D_1000222269. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 7.5 REMARK 210 IONIC STRENGTH : 20 REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : 0.5 MM [U-99% 13C; U-99% 15N] REMARK 210 HIF-2 ALPHA D1, 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D CBCA(CO)NH; 3D HNCACB; 3D REMARK 210 HNCO; 3D HCCH-TOCSY; 3D C(CO)NH; REMARK 210 3D H(CCO)NH; 2D 1H-15N HSQC; 3D REMARK 210 1H-15N NOESY; 3D 1H-13C NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ; 800 MHZ REMARK 210 SPECTROMETER MODEL : INOVA REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : VNMR, NMRPIPE, NMRVIEW REMARK 210 METHOD USED : TORSION ANGLE DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 20 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : ALL CALCULATED STRUCTURES REMARK 210 SUBMITTED REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: NULL REMARK 215 REMARK 215 NMR STUDY REMARK 215 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM SOLUTION REMARK 215 NMR DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE THAT REMARK 215 CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES ON REMARK 215 THESE RECORDS ARE MEANINGLESS. 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 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS 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 HD1 HIS A 282 OD2 ASP A 285 1.59 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 1 PHE A 238 124.93 70.61 REMARK 500 1 LEU A 239 104.52 172.60 REMARK 500 1 ARG A 275 -168.03 -125.30 REMARK 500 1 ASN A 295 -87.45 -73.51 REMARK 500 1 CYS A 297 -22.29 -153.06 REMARK 500 1 GLN A 306 108.64 -54.41 REMARK 500 1 PRO A 334 108.43 -45.85 REMARK 500 2 SER A 241 28.43 -78.17 REMARK 500 2 ARG A 275 -169.66 -119.12 REMARK 500 2 ASN A 295 -88.36 -65.63 REMARK 500 2 LEU A 296 -42.72 68.85 REMARK 500 2 GLN A 306 90.11 -62.52 REMARK 500 3 GLU A 237 -76.49 -124.30 REMARK 500 3 LEU A 239 -63.76 73.35 REMARK 500 3 ASN A 295 -83.46 -68.25 REMARK 500 3 LEU A 296 -178.28 56.93 REMARK 500 3 CYS A 297 -17.35 71.18 REMARK 500 4 LYS A 242 86.67 50.34 REMARK 500 4 ASN A 295 -89.43 -76.09 REMARK 500 5 LEU A 239 25.55 47.92 REMARK 500 5 LYS A 242 82.00 46.41 REMARK 500 5 ARG A 275 -166.19 -129.15 REMARK 500 5 ASN A 295 -93.28 -73.39 REMARK 500 5 LEU A 296 27.81 49.55 REMARK 500 6 ARG A 275 -169.44 -127.69 REMARK 500 6 ASN A 295 -101.30 -73.66 REMARK 500 6 LEU A 296 19.41 57.35 REMARK 500 6 GLN A 306 93.63 -67.38 REMARK 500 6 PRO A 334 108.92 -45.25 REMARK 500 7 GLU A 237 34.93 -83.94 REMARK 500 7 LYS A 242 72.23 52.48 REMARK 500 7 LEU A 296 75.11 -69.03 REMARK 500 7 CYS A 297 -24.56 -179.71 REMARK 500 7 PRO A 334 107.76 -47.09 REMARK 500 8 GLU A 237 -166.74 -102.46 REMARK 500 8 LEU A 296 75.20 -67.96 REMARK 500 8 CYS A 297 -20.67 -176.30 REMARK 500 8 GLN A 306 89.44 -67.18 REMARK 500 9 PHE A 238 151.23 70.04 REMARK 500 9 LEU A 239 77.21 66.33 REMARK 500 9 SER A 241 -48.53 -130.51 REMARK 500 9 LYS A 242 82.32 39.36 REMARK 500 9 ARG A 275 -163.56 -126.75 REMARK 500 9 LEU A 296 -31.93 178.85 REMARK 500 10 LEU A 239 37.45 -73.91 REMARK 500 10 SER A 241 27.68 -75.67 REMARK 500 10 ASN A 295 -83.06 -71.34 REMARK 500 10 CYS A 297 -27.01 -146.40 REMARK 500 10 GLN A 306 107.45 -51.61 REMARK 500 10 PRO A 334 108.76 -44.96 REMARK 500 REMARK 500 THIS ENTRY HAS 93 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 30118 RELATED DB: BMRB DBREF 5KIZ A 239 349 UNP Q99814 EPAS1_HUMAN 239 349 SEQADV 5KIZ GLY A 236 UNP Q99814 EXPRESSION TAG SEQADV 5KIZ GLU A 237 UNP Q99814 EXPRESSION TAG SEQADV 5KIZ PHE A 238 UNP Q99814 EXPRESSION TAG SEQADV 5KIZ PHE A 248 UNP Q99814 HIS 248 ENGINEERED MUTATION SEQADV 5KIZ SER A 278 UNP Q99814 TYR 278 ENGINEERED MUTATION SEQADV 5KIZ TRP A 281 UNP Q99814 TYR 281 ENGINEERED MUTATION SEQADV 5KIZ MET A 323 UNP Q99814 GLY 323 ENGINEERED MUTATION SEQADV 5KIZ ALA A 339 UNP Q99814 CYS 339 ENGINEERED MUTATION SEQRES 1 A 114 GLY GLU PHE LEU ASP SER LYS THR PHE LEU SER ARG PHE SEQRES 2 A 114 SER MET ASP MET LYS PHE THR TYR CYS ASP ASP ARG ILE SEQRES 3 A 114 THR GLU LEU ILE GLY TYR HIS PRO GLU GLU LEU LEU GLY SEQRES 4 A 114 ARG SER ALA SER GLU PHE TRP HIS ALA LEU ASP SER GLU SEQRES 5 A 114 ASN MET THR LYS SER HIS GLN ASN LEU CYS THR LYS GLY SEQRES 6 A 114 GLN VAL VAL SER GLY GLN TYR ARG MET LEU ALA LYS HIS SEQRES 7 A 114 GLY GLY TYR VAL TRP LEU GLU THR GLN MET THR VAL ILE SEQRES 8 A 114 TYR ASN PRO ARG ASN LEU GLN PRO GLN CYS ILE MET ALA SEQRES 9 A 114 VAL ASN TYR VAL LEU SER GLU ILE GLU LYS HELIX 1 AA1 ASP A 259 ILE A 265 1 7 HELIX 2 AA2 HIS A 268 LEU A 273 1 6 HELIX 3 AA3 SER A 276 PHE A 280 5 5 HELIX 4 AA4 HIS A 282 LEU A 296 1 15 SHEET 1 AA1 5 PHE A 254 CYS A 257 0 SHEET 2 AA1 5 THR A 243 PHE A 248 -1 N ARG A 247 O THR A 255 SHEET 3 AA1 5 PRO A 334 SER A 345 -1 O ASN A 341 N PHE A 244 SHEET 4 AA1 5 TYR A 316 TYR A 327 -1 N THR A 324 O MET A 338 SHEET 5 AA1 5 GLN A 301 VAL A 303 -1 N VAL A 302 O MET A 323 SHEET 1 AA2 5 PHE A 254 CYS A 257 0 SHEET 2 AA2 5 THR A 243 PHE A 248 -1 N ARG A 247 O THR A 255 SHEET 3 AA2 5 PRO A 334 SER A 345 -1 O ASN A 341 N PHE A 244 SHEET 4 AA2 5 TYR A 316 TYR A 327 -1 N THR A 324 O MET A 338 SHEET 5 AA2 5 TYR A 307 LEU A 310 -1 N MET A 309 O VAL A 317 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 MODEL 1