HEADER PROTEIN TRANSPORT 27-JUL-24 9GAG TITLE HUMAN PEX5 TPR DOMAIN IN COMPLEX WITH PEX14 KIPSWQIPV PEPTIDE COMPND MOL_ID: 1; COMPND 2 MOLECULE: PEROXISOMAL TARGETING SIGNAL 1 RECEPTOR; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: PTS1 RECEPTOR,PTS1R,PTS1-BP,PEROXIN-5,PEROXISOMAL C-TERMINAL COMPND 5 TARGETING SIGNAL IMPORT RECEPTOR,PEROXISOME RECEPTOR 1; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: PEROXISOMAL MEMBRANE PROTEIN PEX14; COMPND 9 CHAIN: B; COMPND 10 SYNONYM: PTS1 RECEPTOR-DOCKING PROTEIN,PEROXIN-14,PEROXISOMAL COMPND 11 MEMBRANE ANCHOR PROTEIN PEX14; COMPND 12 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: PEX5, PXR1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 MOL_ID: 2; SOURCE 9 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 10 ORGANISM_COMMON: HUMAN; SOURCE 11 ORGANISM_TAXID: 9606; SOURCE 12 GENE: PEX14; SOURCE 13 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 14 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS COMPLEX, PEX5, PEX14, PEROXISOME, IMPORT, PROTEIN TRANSPORT EXPDTA SOLUTION NMR NUMMDL 10 AUTHOR L.EMMANOUILIDIS,S.GAUSSMANN,M.SATTLER REVDAT 1 11-SEP-24 9GAG 0 JRNL AUTH L.EMMANOUILIDIS,S.GAUSSMANN,M.SATTLER JRNL TITL HUMAIN COMPLEXN PEX5 TPR DOMAIN WITH PEX14 KIPSWQIPV PEPTIDE JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CCPNMR ANALYSIS 2.4.2, HADDOCK 2.4 REMARK 3 AUTHORS : CCPN (CCPNMR ANALYSIS), BONVIN (HADDOCK) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 9GAG COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 27-JUL-24. REMARK 100 THE DEPOSITION ID IS D_1292140572. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298; 298 REMARK 210 PH : 6.5; 6.5 REMARK 210 IONIC STRENGTH : 83; 83 REMARK 210 PRESSURE : 1 ATM; 1 ATM REMARK 210 SAMPLE CONTENTS : 1 MM PEX14 KIPSWQI, 20 MM SODIUM REMARK 210 PHOSPHATE, 50 MM SODIUM CHLORIDE, REMARK 210 93% H2O/7% D2O; 0.4 MM [U-100% REMARK 210 13C; U-100% 15N; U-80% 2H] HUMAN REMARK 210 PEX5 TPR DOMAIN, 4 MM PEX14 REMARK 210 KIPSWQI, 20 MM SODIUM PHOSPHATE, REMARK 210 50 MM SODIUM CHLORIDE, 1 MM DTT, REMARK 210 93% H2O/7% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D 1H-13C NOESY; 2D 1H-1H NOESY; REMARK 210 2D 1H-1H TOCSY; 2D 1H-13C HSQC REMARK 210 SPECTROMETER FIELD STRENGTH : 900 MHZ; 500 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE III REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : TOPSPIN 3.6, NMRPIPE, NMRFAM REMARK 210 -SPARKY 3, CYANA 3.3, HADDOCK 2.4 REMARK 210 METHOD USED : MOLECULAR DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 200 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 10 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LOWEST REMARK 210 ENERGY 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA 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 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 465 SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 MODELS 1-10 REMARK 465 RES C SSSEQI REMARK 465 ALA A 443 REMARK 465 GLU A 444 REMARK 465 GLU A 445 REMARK 465 GLY A 446 REMARK 465 ALA A 447 REMARK 465 GLY A 448 REMARK 465 GLY A 449 REMARK 465 ALA A 450 REMARK 465 GLY A 451 REMARK 465 LEU A 452 REMARK 465 GLY A 453 REMARK 465 PRO A 454 REMARK 465 SER A 455 REMARK 465 LYS A 456 REMARK 465 ARG A 457 REMARK 465 ILE A 458 REMARK 465 LEU A 459 REMARK 465 GLY A 460 REMARK 465 SER A 461 REMARK 465 LEU A 462 REMARK 465 LEU A 463 REMARK 465 SER A 464 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 HZ3 LYS A 472 OE2 GLU A 473 1.56 REMARK 500 OE1 GLU A 341 HH22 ARG A 344 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 GLU A 329 73.32 64.23 REMARK 500 1 GLN A 384 63.55 -102.82 REMARK 500 1 LEU A 418 60.42 -109.47 REMARK 500 1 GLN A 537 70.92 -100.39 REMARK 500 2 GLU A 329 71.83 71.84 REMARK 500 2 SER A 466 -63.08 -100.99 REMARK 500 2 GLN A 552 88.05 -152.01 REMARK 500 2 GLU A 595 -85.76 64.37 REMARK 500 3 ASN A 402 95.79 -69.91 REMARK 500 3 GLN A 537 59.53 -115.29 REMARK 500 4 GLN A 384 65.75 -116.00 REMARK 500 4 GLN A 537 58.81 -107.13 REMARK 500 4 GLN A 552 85.96 -151.35 REMARK 500 4 GLU A 595 -88.19 66.34 REMARK 500 4 GLN A 616 57.90 -91.83 REMARK 500 5 GLU A 329 79.49 60.70 REMARK 500 5 GLN A 384 68.34 -117.84 REMARK 500 5 ASP A 401 49.92 -92.90 REMARK 500 5 GLN A 537 64.38 -100.04 REMARK 500 5 GLN A 552 85.47 -151.00 REMARK 500 5 GLU A 595 -64.80 72.05 REMARK 500 5 GLN A 616 70.25 -102.07 REMARK 500 5 PRO B 244 34.19 -95.26 REMARK 500 6 GLU A 329 62.76 64.34 REMARK 500 6 ASN A 382 23.13 -76.16 REMARK 500 6 PRO A 483 27.14 -78.39 REMARK 500 6 GLN A 537 72.59 -112.28 REMARK 500 6 GLU A 595 -68.43 70.44 REMARK 500 7 ASP A 334 49.49 -105.97 REMARK 500 7 ASN A 382 20.60 -78.77 REMARK 500 7 GLN A 384 64.91 -102.95 REMARK 500 7 ALA A 571 57.17 -99.04 REMARK 500 7 GLU A 595 -70.99 -55.58 REMARK 500 7 GLN A 616 58.40 -109.74 REMARK 500 8 GLN A 384 65.76 -106.02 REMARK 500 8 GLN A 537 57.84 -105.69 REMARK 500 8 GLN A 552 89.54 -151.28 REMARK 500 9 GLN A 384 69.34 -105.68 REMARK 500 9 GLN A 537 58.65 -114.52 REMARK 500 9 GLN A 552 88.25 -151.61 REMARK 500 9 GLU A 595 -76.74 -74.35 REMARK 500 10 ASP A 334 64.35 -102.29 REMARK 500 10 GLN A 384 64.42 -111.61 REMARK 500 10 LEU A 418 72.90 -101.71 REMARK 500 10 PRO A 483 34.05 -78.66 REMARK 500 10 THR A 484 12.18 -142.26 REMARK 500 10 GLN A 537 66.04 -115.75 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 52054 RELATED DB: BMRB REMARK 900 HSPEX14 237-245 REMARK 900 RELATED ID: 52048 RELATED DB: BMRB REMARK 900 HUMAN PEX5 TPR DOMAIN REMARK 900 RELATED ID: 34940 RELATED DB: BMRB REMARK 900 HUMAN PEX5 TPR DOMAIN IN COMPLEX WITH PEX14 KIPSWQIPV PEPTIDE DBREF 9GAG A 321 639 UNP P50542 PEX5_HUMAN 321 639 DBREF 9GAG B 237 245 UNP O75381 PEX14_HUMAN 237 245 SEQADV 9GAG ILE A 425 UNP P50542 THR 425 ENGINEERED MUTATION SEQRES 1 A 319 ASP LYS GLY TYR GLN PHE GLU GLU GLU ASN PRO LEU ARG SEQRES 2 A 319 ASP HIS PRO GLN PRO PHE GLU GLU GLY LEU ARG ARG LEU SEQRES 3 A 319 GLN GLU GLY ASP LEU PRO ASN ALA VAL LEU LEU PHE GLU SEQRES 4 A 319 ALA ALA VAL GLN GLN ASP PRO LYS HIS MET GLU ALA TRP SEQRES 5 A 319 GLN TYR LEU GLY THR THR GLN ALA GLU ASN GLU GLN GLU SEQRES 6 A 319 LEU LEU ALA ILE SER ALA LEU ARG ARG CYS LEU GLU LEU SEQRES 7 A 319 LYS PRO ASP ASN GLN THR ALA LEU MET ALA LEU ALA VAL SEQRES 8 A 319 SER PHE THR ASN GLU SER LEU GLN ARG GLN ALA CYS GLU SEQRES 9 A 319 ILE LEU ARG ASP TRP LEU ARG TYR THR PRO ALA TYR ALA SEQRES 10 A 319 HIS LEU VAL THR PRO ALA GLU GLU GLY ALA GLY GLY ALA SEQRES 11 A 319 GLY LEU GLY PRO SER LYS ARG ILE LEU GLY SER LEU LEU SEQRES 12 A 319 SER ASP SER LEU PHE LEU GLU VAL LYS GLU LEU PHE LEU SEQRES 13 A 319 ALA ALA VAL ARG LEU ASP PRO THR SER ILE ASP PRO ASP SEQRES 14 A 319 VAL GLN CYS GLY LEU GLY VAL LEU PHE ASN LEU SER GLY SEQRES 15 A 319 GLU TYR ASP LYS ALA VAL ASP CYS PHE THR ALA ALA LEU SEQRES 16 A 319 SER VAL ARG PRO ASN ASP TYR LEU LEU TRP ASN LYS LEU SEQRES 17 A 319 GLY ALA THR LEU ALA ASN GLY ASN GLN SER GLU GLU ALA SEQRES 18 A 319 VAL ALA ALA TYR ARG ARG ALA LEU GLU LEU GLN PRO GLY SEQRES 19 A 319 TYR ILE ARG SER ARG TYR ASN LEU GLY ILE SER CYS ILE SEQRES 20 A 319 ASN LEU GLY ALA HIS ARG GLU ALA VAL GLU HIS PHE LEU SEQRES 21 A 319 GLU ALA LEU ASN MET GLN ARG LYS SER ARG GLY PRO ARG SEQRES 22 A 319 GLY GLU GLY GLY ALA MET SER GLU ASN ILE TRP SER THR SEQRES 23 A 319 LEU ARG LEU ALA LEU SER MET LEU GLY GLN SER ASP ALA SEQRES 24 A 319 TYR GLY ALA ALA ASP ALA ARG ASP LEU SER THR LEU LEU SEQRES 25 A 319 THR MET PHE GLY LEU PRO GLN SEQRES 1 B 9 LYS ILE PRO SER TRP GLN ILE PRO VAL HELIX 1 AA1 GLN A 337 GLY A 349 1 13 HELIX 2 AA2 ASP A 350 ASP A 365 1 16 HELIX 3 AA3 HIS A 368 ASN A 382 1 15 HELIX 4 AA4 GLN A 384 LEU A 396 1 13 HELIX 5 AA5 ASN A 402 GLU A 416 1 15 HELIX 6 AA6 LEU A 418 TYR A 432 1 15 HELIX 7 AA7 TYR A 436 VAL A 440 5 5 HELIX 8 AA8 SER A 466 LEU A 481 1 16 HELIX 9 AA9 ASP A 487 GLY A 502 1 16 HELIX 10 AB1 GLU A 503 LEU A 515 1 13 HELIX 11 AB2 ASP A 521 GLY A 535 1 15 HELIX 12 AB3 GLN A 537 GLN A 552 1 16 HELIX 13 AB4 TYR A 555 GLY A 570 1 16 HELIX 14 AB5 ALA A 571 LYS A 588 1 18 HELIX 15 AB6 SER A 600 GLY A 615 1 16 HELIX 16 AB7 GLN A 616 ASP A 618 5 3 HELIX 17 AB8 ALA A 619 ALA A 625 1 7 HELIX 18 AB9 ASP A 627 PHE A 635 1 9 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