PDB Short entry for 2JQ9 HEADER PROTEIN TRANSPORT 30-MAY-07 2JQ9 TITLE VPS4A MIT-CHMP1A COMPLEX COMPND MOL_ID: 1; COMPND 2 MOLECULE: VACUOLAR PROTEIN SORTING-ASSOCIATING PROTEIN 4A; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: MIT DOMAIN, RESIDUES 1-84; COMPND 5 SYNONYM: PROTEIN SKD2, HVPS4, VPS4-1; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: CHROMATIN-MODIFYING PROTEIN 1A; COMPND 9 CHAIN: B; COMPND 10 FRAGMENT: SEQUENCE DATABASE RESIDUES 180-196; COMPND 11 SYNONYM: CHARGED MULTIVESICULAR BODY PROTEIN 1A, CHMP1A, VACUOLAR COMPND 12 PROTEIN SORTING 46-1, VPS46-1, HVPS46-1; COMPND 13 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: VPS4A, VPS4; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: VECTOR; SOURCE 10 EXPRESSION_SYSTEM_VECTOR: PET16B; SOURCE 11 MOL_ID: 2; SOURCE 12 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 13 ORGANISM_COMMON: HUMAN; SOURCE 14 ORGANISM_TAXID: 9606; SOURCE 15 GENE: PCOLN3, CHMP1, CHMP1A, KIAA0047, PRSM1; SOURCE 16 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 17 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 18 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 19 EXPRESSION_SYSTEM_VECTOR_TYPE: VECTOR; SOURCE 20 EXPRESSION_SYSTEM_VECTOR: PET16B KEYWDS CHMP1A, VPS4A MIT, COMPLEX, FOUR HELIX BUNDLE, PROTEIN TRANSPORT EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR M.D.STUCHELL-BRERETON,J.J.SKALICKY,C.KIEFFER,S.GHAFFARIAN, AUTHOR 2 W.I.SUNDQUIST REVDAT 4 20-DEC-23 2JQ9 1 REMARK REVDAT 3 09-MAR-22 2JQ9 1 REMARK REVDAT 2 24-FEB-09 2JQ9 1 VERSN REVDAT 1 16-OCT-07 2JQ9 0 JRNL AUTH M.D.STUCHELL-BRERETON,J.J.SKALICKY,C.KIEFFER,M.A.KARREN, JRNL AUTH 2 S.GHAFFARIAN,W.I.SUNDQUIST JRNL TITL ESCRT-III RECOGNITION BY VPS4 ATPASES. JRNL REF NATURE V. 449 740 2007 JRNL REFN ISSN 0028-0836 JRNL PMID 17928862 JRNL DOI 10.1038/NATURE06172 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : FELIX 2004, CNS 1.2 REMARK 3 AUTHORS : ACCELRYS SOFTWARE INC. (FELIX), BRUNGER, ADAMS, REMARK 3 CLORE, GROS, NILGES AND READ (CNS) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REFINEMENT USING ANNEAL.INP AND USING REMARK 3 SUMMED NOE CONSTRAINTS WITH MAX T OF 3000 K FOR SIMULATED REMARK 3 ANNEALING. REMARK 4 REMARK 4 2JQ9 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 01-JUN-07. REMARK 100 THE DEPOSITION ID IS D_1000100153. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 5.65 REMARK 210 IONIC STRENGTH : 50 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1.0 MM [U-100% 13C; U-100% 15N] REMARK 210 VPS4A MIT, 1.15 MM CHMP1A(180- REMARK 210 196), 90% H2O/10% D2O; 1.15 MM REMARK 210 VPS4A MIT, 1.0 MM [U-100% 13C; U- REMARK 210 100% 15N] CHMP1A(180-196), 90% REMARK 210 H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 2D 1H-13C HSQC; REMARK 210 3D HNCACB; 3D CBCA(CO)NH; 3D REMARK 210 HBHA(CO)NH; 3D HNHA; 3D C(CO)NH; REMARK 210 3D H(CCO)NH; 3D HCCH-COSY; 3D REMARK 210 HCCH-TOCSY; 3D 1H-13C NOESY; 3D REMARK 210 1H-15N NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : INOVA REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : SPARKY 3.112, CYANA 2.1 REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 200 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 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: HALF-FILTERED NOESYS PROVIDED THE INTERMOLECULAR NOES 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 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 1-20 REMARK 465 RES C SSSEQI REMARK 465 MET A 1 REMARK 465 THR A 2 REMARK 465 THR A 3 REMARK 465 SER A 4 REMARK 465 SER A 76 REMARK 465 LYS A 77 REMARK 465 GLU A 78 REMARK 465 LYS A 79 REMARK 465 HIS A 80 REMARK 465 GLY A 81 REMARK 465 LYS A 82 REMARK 465 LYS A 83 REMARK 465 PRO A 84 REMARK 465 VAL B 111 REMARK 465 ARG B 112 REMARK 465 SER B 113 REMARK 465 GLN B 114 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 SER A 49 -176.04 -173.50 REMARK 500 2 TYR A 45 -74.64 -69.97 REMARK 500 2 HIS A 48 -74.51 -60.48 REMARK 500 3 HIS A 48 -67.55 -106.63 REMARK 500 4 TYR A 45 -74.16 -68.50 REMARK 500 5 ASN A 24 78.76 -118.42 REMARK 500 5 TYR A 45 -74.61 -94.22 REMARK 500 5 GLU A 46 -169.97 -60.98 REMARK 500 5 ALA A 47 157.94 61.09 REMARK 500 5 HIS A 48 -74.74 -144.56 REMARK 500 6 ALA A 22 30.44 -97.37 REMARK 500 6 LYS A 23 70.31 59.15 REMARK 500 6 ASN A 24 73.46 -158.70 REMARK 500 6 SER A 49 -177.26 -172.24 REMARK 500 7 ALA A 22 30.79 -98.13 REMARK 500 7 LYS A 23 70.48 59.29 REMARK 500 7 ASN A 24 73.49 -156.02 REMARK 500 8 TYR A 45 -74.54 -81.45 REMARK 500 8 HIS A 48 -65.94 -106.35 REMARK 500 9 TYR A 45 -73.75 -71.83 REMARK 500 9 HIS A 48 -66.93 -101.59 REMARK 500 9 ARG B 126 35.57 -98.45 REMARK 500 10 TYR A 45 -74.37 -82.44 REMARK 500 11 ASN A 24 77.98 -118.90 REMARK 500 11 TYR A 45 -73.10 -83.28 REMARK 500 12 LYS A 23 70.49 56.96 REMARK 500 12 ASN A 24 77.30 -156.11 REMARK 500 13 LYS A 23 70.26 57.77 REMARK 500 13 ASN A 24 62.33 -154.89 REMARK 500 13 TYR A 45 -72.53 -70.42 REMARK 500 13 HIS A 48 -63.30 -101.81 REMARK 500 14 LYS A 23 70.35 58.14 REMARK 500 14 ASN A 24 74.27 -152.56 REMARK 500 14 ALA A 47 130.14 -175.24 REMARK 500 14 HIS A 48 -74.58 -60.34 REMARK 500 15 SER A 49 -176.62 -175.55 REMARK 500 16 ALA A 22 32.97 -97.29 REMARK 500 16 LYS A 23 71.34 58.97 REMARK 500 16 ASN A 24 78.19 -160.57 REMARK 500 17 TYR A 45 -75.01 -80.44 REMARK 500 18 TYR A 45 -74.47 -76.94 REMARK 500 19 HIS A 48 -74.72 -63.55 REMARK 500 20 HIS A 48 -65.55 -104.28 REMARK 500 REMARK 500 REMARK: NULL DBREF 2JQ9 A 1 84 UNP Q9UN37 VPS4A_HUMAN 1 84 DBREF 2JQ9 B 111 127 UNP Q9HD42 CHM1A_HUMAN 180 196 SEQRES 1 A 84 MET THR THR SER THR LEU GLN LYS ALA ILE ASP LEU VAL SEQRES 2 A 84 THR LYS ALA THR GLU GLU ASP LYS ALA LYS ASN TYR GLU SEQRES 3 A 84 GLU ALA LEU ARG LEU TYR GLN HIS ALA VAL GLU TYR PHE SEQRES 4 A 84 LEU HIS ALA ILE LYS TYR GLU ALA HIS SER ASP LYS ALA SEQRES 5 A 84 LYS GLU SER ILE ARG ALA LYS CYS VAL GLN TYR LEU ASP SEQRES 6 A 84 ARG ALA GLU LYS LEU LYS ASP TYR LEU ARG SER LYS GLU SEQRES 7 A 84 LYS HIS GLY LYS LYS PRO SEQRES 1 B 17 VAL ARG SER GLN GLU ASP GLN LEU SER ARG ARG LEU ALA SEQRES 2 B 17 ALA LEU ARG ASN HELIX 1 1 THR A 5 ALA A 22 1 18 HELIX 2 2 ASN A 24 GLU A 46 1 23 HELIX 3 3 SER A 49 ARG A 75 1 27 HELIX 4 4 GLU B 115 ASN B 127 1 13 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