HEADER HYDROLASE 07-DEC-14 2MX2 TITLE UBX-L DOMAIN OF VCIP135 COMPND MOL_ID: 1; COMPND 2 MOLECULE: DEUBIQUITINATING PROTEIN VCIP135; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UBX-L DOMAIN, UNP RESIDUES 772-852; COMPND 5 SYNONYM: VALOSIN-CONTAINING PROTEIN P97/P47 COMPLEX-INTERACTING COMPND 6 PROTEIN 1,VALOSIN-CONTAINING PROTEIN P97/P47 COMPLEX-INTERACTING COMPND 7 PROTEIN P135,VCP/P47 COMPLEX-INTERACTING 135-KDA PROTEIN, COMPND 8 DEUBIQUITINATING PROTEIN VCPIP1; COMPND 9 EC: 3.4.19.12; COMPND 10 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: RATTUS NORVEGICUS; SOURCE 3 ORGANISM_COMMON: NORWAY RAT; SOURCE 4 ORGANISM_TAXID: 10116; SOURCE 5 GENE: VCPIP1, VCIP135; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: VECTOR; SOURCE 9 EXPRESSION_SYSTEM_VECTOR: PGEX-4T3 KEYWDS UBX DOMAIN, MITOSIS, GOLGI, HYDROLASE EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR T.IWAZU,S.MURAYAMA,R.IGARASHI,H.HRIOAKI,M.SHIRAKAWA,H.TOCHIO REVDAT 2 01-MAY-24 2MX2 1 COMPND SOURCE REMARK DBREF REVDAT 2 2 1 SEQADV SEQRES HELIX SHEET REVDAT 2 3 1 ATOM REVDAT 1 13-JUL-16 2MX2 0 JRNL AUTH T.IWAZU,S.MURAYAMA,R.IGARASHI,H.HRIOAKI,M.SHIRAKAWA,H.TOCHIO JRNL TITL STRUCTURE AND INTERACTION MODE OF THE UBX-L DOMAIN OF JRNL TITL 2 VCIP135 DETERMINED BY SOLUTION NMR SPECTROSCOPY JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CYANA, CYANA, CNS REMARK 3 AUTHORS : GUNTERT, MUMENTHALER AND WUTHRICH (CYANA), REMARK 3 GUNTERT, MUMENTHALER AND WUTHRICH (CYANA), BRUNGER, REMARK 3 ADAMS, CLORE, GROS, NILGES AND READ (CNS) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2MX2 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 11-DEC-14. REMARK 100 THE DEPOSITION ID IS D_1000104151. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 7.4 REMARK 210 IONIC STRENGTH : 50 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1.86 MM [U-13C; U-15N] VCIP135 REMARK 210 UBX-1, 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 3D CBCA(CO)NH; REMARK 210 3D HNCACB; 3D HN(CO)CA; 3D HCCH- REMARK 210 TOCSY; 3D 1H-15N NOESY; 3D 1H- REMARK 210 13C NOESY; 3D HCCH-COSY; 2D 1H- REMARK 210 13C HSQC; 2D 1H-13C HSQC REMARK 210 ALIPHATIC REMARK 210 SPECTROMETER FIELD STRENGTH : 700 MHZ; 600 MHZ REMARK 210 SPECTROMETER MODEL : DRX; DPX REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NULL 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 LEAST REMARK 210 RESTRAINT VIOLATIONS 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 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 GLY A 1 REMARK 465 SER A 2 REMARK 465 ASP A 3 REMARK 465 HIS A 4 REMARK 465 SER A 5 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 27 40.35 -94.98 REMARK 500 1 PHE A 41 -169.92 -124.00 REMARK 500 1 ASN A 42 50.26 -115.32 REMARK 500 1 GLU A 58 73.04 -114.06 REMARK 500 1 LEU A 59 87.53 -40.81 REMARK 500 1 PRO A 62 -171.37 -69.20 REMARK 500 1 ALA A 64 109.54 -56.41 REMARK 500 1 HIS A 75 108.64 -56.89 REMARK 500 2 SER A 27 40.16 -100.58 REMARK 500 2 ASN A 42 47.42 -109.69 REMARK 500 2 LEU A 59 73.77 58.05 REMARK 500 2 PRO A 62 -172.57 -59.70 REMARK 500 2 GLN A 63 -168.37 -128.91 REMARK 500 2 ALA A 64 103.45 -57.79 REMARK 500 2 HIS A 75 108.13 -57.78 REMARK 500 3 LEU A 24 132.55 -37.41 REMARK 500 3 SER A 27 43.67 -105.04 REMARK 500 3 GLU A 58 72.76 -114.31 REMARK 500 3 LEU A 59 86.68 -44.41 REMARK 500 3 PRO A 62 -171.18 -69.48 REMARK 500 3 ALA A 64 94.08 -56.75 REMARK 500 3 HIS A 75 108.68 -56.60 REMARK 500 4 LEU A 24 132.08 -38.44 REMARK 500 4 SER A 27 38.92 -97.55 REMARK 500 4 GLU A 58 73.03 -115.96 REMARK 500 4 LEU A 59 85.49 -43.88 REMARK 500 4 PRO A 62 -171.56 -69.52 REMARK 500 4 ALA A 64 95.03 -56.86 REMARK 500 4 HIS A 75 108.32 -58.16 REMARK 500 5 SER A 27 37.49 -98.06 REMARK 500 5 LEU A 59 76.90 51.51 REMARK 500 5 PRO A 62 -177.92 -69.70 REMARK 500 5 ALA A 64 101.59 -54.85 REMARK 500 5 HIS A 75 108.51 -57.90 REMARK 500 6 LEU A 24 132.24 -39.29 REMARK 500 6 GLU A 58 71.17 -115.60 REMARK 500 6 LEU A 59 86.58 -45.22 REMARK 500 6 ALA A 64 109.44 -52.10 REMARK 500 6 HIS A 75 109.01 -55.58 REMARK 500 7 LEU A 24 130.57 -39.29 REMARK 500 7 SER A 27 44.78 -105.63 REMARK 500 7 ASN A 42 47.26 -108.93 REMARK 500 7 GLU A 58 72.86 -115.29 REMARK 500 7 LEU A 59 86.51 -42.57 REMARK 500 7 PRO A 62 -171.75 -67.07 REMARK 500 7 ALA A 64 104.64 -53.93 REMARK 500 7 HIS A 75 108.59 -57.16 REMARK 500 8 LEU A 24 132.94 -38.94 REMARK 500 8 ASN A 42 41.21 -107.68 REMARK 500 8 LEU A 59 92.52 54.32 REMARK 500 REMARK 500 THIS ENTRY HAS 133 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 25382 RELATED DB: BMRB DBREF 2MX2 A 6 86 UNP Q8CF97 VCIP1_RAT 772 852 SEQADV 2MX2 GLY A 1 UNP Q8CF97 EXPRESSION TAG SEQADV 2MX2 SER A 2 UNP Q8CF97 EXPRESSION TAG SEQADV 2MX2 ASP A 3 UNP Q8CF97 EXPRESSION TAG SEQADV 2MX2 HIS A 4 UNP Q8CF97 EXPRESSION TAG SEQADV 2MX2 SER A 5 UNP Q8CF97 EXPRESSION TAG SEQRES 1 A 86 GLY SER ASP HIS SER LYS GLU LYS LYS ILE ARG ILE THR SEQRES 2 A 86 THR ASN ASP GLY ARG GLN SER MET VAL THR LEU LYS SER SEQRES 3 A 86 SER THR THR PHE PHE GLU LEU GLN GLU SER ILE ALA ARG SEQRES 4 A 86 GLU PHE ASN ILE PRO PRO TYR LEU GLN CYS ILE ARG TYR SEQRES 5 A 86 GLY PHE PRO PRO LYS GLU LEU MET PRO PRO GLN ALA GLY SEQRES 6 A 86 MET GLU LYS GLU PRO VAL PRO LEU GLN HIS GLY ASP ARG SEQRES 7 A 86 ILE THR ILE GLU ILE LEU LYS GLY HELIX 1 1 THR A 29 PHE A 41 1 13 SHEET 1 A 2 ILE A 10 THR A 14 0 SHEET 2 A 2 ARG A 18 VAL A 22 -1 O ARG A 18 N THR A 14 CISPEP 1 PHE A 54 PRO A 55 1 0.07 CISPEP 2 PHE A 54 PRO A 55 2 0.18 CISPEP 3 PHE A 54 PRO A 55 3 0.09 CISPEP 4 PHE A 54 PRO A 55 4 0.23 CISPEP 5 PHE A 54 PRO A 55 5 0.28 CISPEP 6 PHE A 54 PRO A 55 6 0.27 CISPEP 7 PHE A 54 PRO A 55 7 0.16 CISPEP 8 PHE A 54 PRO A 55 8 0.17 CISPEP 9 PHE A 54 PRO A 55 9 0.18 CISPEP 10 PHE A 54 PRO A 55 10 0.17 CISPEP 11 PHE A 54 PRO A 55 11 0.00 CISPEP 12 PHE A 54 PRO A 55 12 0.17 CISPEP 13 PHE A 54 PRO A 55 13 0.14 CISPEP 14 PHE A 54 PRO A 55 14 0.38 CISPEP 15 PHE A 54 PRO A 55 15 0.08 CISPEP 16 PHE A 54 PRO A 55 16 0.01 CISPEP 17 PHE A 54 PRO A 55 17 0.21 CISPEP 18 PHE A 54 PRO A 55 18 0.21 CISPEP 19 PHE A 54 PRO A 55 19 0.08 CISPEP 20 PHE A 54 PRO A 55 20 -0.02 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