HEADER LIGASE 23-OCT-09 2KPZ TITLE HUMAN NEDD4 3RD WW DOMAIN COMPLEX WITH THE HUMAN T-CELL LEUKEMIA VIRUS TITLE 2 1 GAG-PRO POLIPROTEIN DERIVED PEPTIDE SDPQIPPPYVEP COMPND MOL_ID: 1; COMPND 2 MOLECULE: E3 UBIQUITIN-PROTEIN LIGASE NEDD4; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: 3RD WW DOMAIN, UNP RESIDUES 834-878; COMPND 5 SYNONYM: NEURAL PRECURSOR CELL EXPRESSED DEVELOPMENTALLY DOWN- COMPND 6 REGULATED PROTEIN 4, NEDD-4, CELL PROLIFERATION-INDUCING GENE 53 COMPND 7 PROTEIN; COMPND 8 EC: 6.3.2.-; COMPND 9 ENGINEERED: YES; COMPND 10 MOL_ID: 2; COMPND 11 MOLECULE: 12-MER FROM GAG-PRO POLYPROTEIN; COMPND 12 CHAIN: B; COMPND 13 FRAGMENT: UNP RESIDUES 113-124; COMPND 14 SYNONYM: PR76GAG-PRO, MATRIX PROTEIN P19, MA,; COMPND 15 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: NEDD4; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_VARIANT: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: VECTOR; SOURCE 10 EXPRESSION_SYSTEM_VECTOR: PETM11; SOURCE 11 MOL_ID: 2; SOURCE 12 SYNTHETIC: YES; SOURCE 13 ORGANISM_SCIENTIFIC: HUMAN T-CELL LYMPHOTROPHIC VIRUS TYPE 1 ISOLATE SOURCE 14 MEL 15; SOURCE 15 ORGANISM_COMMON: HTLV-1; SOURCE 16 ORGANISM_TAXID: 402046; SOURCE 17 OTHER_DETAILS: CHEMICAL SYNTHESIS KEYWDS WW DOMAIN, HTLV1, NEDD4, HUMAN MODULAR DOMAIN, COMPLEX, HOST-VIRUS KEYWDS 2 INTERACTION, LIGASE, PHOSPHOPROTEIN, UBL CONJUGATION PATHWAY, KEYWDS 3 ASPARTYL PROTEASE, CAPSID PROTEIN, LIPOPROTEIN, METAL-BINDING, KEYWDS 4 MYRISTATE, PROTEASE, VIRAL NUCLEOPROTEIN, VIRION, ZINC-FINGER EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR M.IGLESIAS-BEXIGA,M.MACIAS,R.BONET,F.J.BLANCO,E.S.COBOS,I.LUQUE REVDAT 2 26-FEB-20 2KPZ 1 REMARK SEQADV REVDAT 1 03-NOV-10 2KPZ 0 JRNL AUTH M.IGLESIAS-BEXIGA,I.LUQUE,M.MACIAS JRNL TITL HUMAN NEDD4 3RD WW DOMAIN COMPLEX WITH HUMAN T-CELL LEUKEMIA JRNL TITL 2 VIRUS GAP-PRO POLIPROTEIN DERIVED PEPTIDE JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNSSOLVE, CNSSOLVE REMARK 3 AUTHORS : BRUNGER, ADAMS, CLORE, GROS, NILGES AND READ REMARK 3 (CNSSOLVE), BRUNGER, ADAMS, CLORE, GROS, NILGES REMARK 3 AND READ (CNSSOLVE) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2KPZ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 27-OCT-09. REMARK 100 THE DEPOSITION ID IS D_1000101428. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 288 REMARK 210 PH : 7.00 REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1 MM [U-100% 15N] PROTEIN-1; 3 REMARK 210 MM PEPTIDE-2; 20 MM SODIUM REMARK 210 PHOSPHATE-3; 0.02 V/V SODIUM REMARK 210 AZIDE-4; 90% H2O/10% D2O; 1 MM REMARK 210 [U-100% 13C; U-100% 15N] PROTEIN- REMARK 210 5; 3 MM PEPTIDE-6; 20 MM SODIUM REMARK 210 PHOSPHATE-7; 0.02 V/V SODIUM REMARK 210 AZIDE-8; 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 2D 1H-1H TOCSY; REMARK 210 2D 1H-1H NOESY; 3D CBCA(CO)NH; REMARK 210 3D HNCACB; 3D HCCH-TOCSY; 3D 1H- REMARK 210 15N NOESY; 3D 1H-13C NOESY; 3D REMARK 210 1H-15N TOCSY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ; 700 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : XEASY, TOPSPIN, NMRPIPE REMARK 210 METHOD USED : DGSA-DISTANCE GEOMETRY SIMULATED REMARK 210 ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 120 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: 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 823 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 3417 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -3.2 KCAL/MOL 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 GLY A 1 REMARK 465 ALA A 2 REMARK 465 MET A 3 REMARK 465 GLY A 4 REMARK 465 PRO A 5 REMARK 465 SER A 6 REMARK 465 GLU A 7 REMARK 465 ILE A 8 REMARK 465 GLU A 9 REMARK 465 GLN A 10 REMARK 465 GLY A 11 REMARK 465 ILE A 46 REMARK 465 PRO A 47 REMARK 465 ALA A 48 REMARK 465 HIS A 49 REMARK 465 SER B 109 REMARK 465 ASP B 110 REMARK 465 PRO B 111 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 HG1 THR A 38 HG3 GLU A 40 1.29 REMARK 500 HD3 LYS A 35 HE1 TYR B 117 1.30 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 PRO A 14 151.12 -49.57 REMARK 500 1 ASN A 33 -60.18 -90.12 REMARK 500 1 PRO B 116 -179.58 -49.67 REMARK 500 2 PRO A 14 151.44 -49.80 REMARK 500 2 THR A 34 -79.08 -135.54 REMARK 500 2 LYS A 35 24.45 173.99 REMARK 500 2 PRO B 116 -179.53 -48.86 REMARK 500 3 PRO A 14 151.30 -49.87 REMARK 500 3 PRO A 23 -9.80 -56.30 REMARK 500 3 PRO B 116 -179.58 -48.94 REMARK 500 4 PRO A 14 151.26 -49.38 REMARK 500 4 LYS A 35 85.93 70.34 REMARK 500 4 PRO B 116 -179.49 -49.21 REMARK 500 5 PRO A 14 151.23 -49.72 REMARK 500 5 PRO B 116 -179.40 -49.15 REMARK 500 6 PRO A 14 151.00 -49.63 REMARK 500 6 PRO B 116 -179.61 -49.21 REMARK 500 7 PRO A 14 150.94 -49.71 REMARK 500 7 LYS A 35 85.61 66.50 REMARK 500 7 PRO B 116 -179.26 -49.38 REMARK 500 8 PRO A 14 151.11 -49.93 REMARK 500 8 ASP A 41 135.40 -39.13 REMARK 500 8 PRO B 116 -179.47 -49.36 REMARK 500 9 PRO A 14 150.88 -49.11 REMARK 500 9 PRO A 23 -9.90 -57.69 REMARK 500 9 THR A 34 -78.13 -125.04 REMARK 500 9 LYS A 35 29.84 171.31 REMARK 500 9 PRO B 116 -179.30 -49.19 REMARK 500 10 PRO A 14 151.15 -49.49 REMARK 500 10 PRO B 116 -179.65 -49.02 REMARK 500 11 PRO A 14 151.07 -49.55 REMARK 500 11 ASN A 33 -67.50 -90.21 REMARK 500 11 LYS A 35 33.09 72.33 REMARK 500 11 PRO B 116 -179.55 -49.20 REMARK 500 12 PRO A 14 150.93 -49.55 REMARK 500 12 ASN A 33 -62.28 -90.02 REMARK 500 12 LYS A 35 92.26 66.66 REMARK 500 12 ILE B 113 103.68 69.56 REMARK 500 12 PRO B 116 -179.64 -48.56 REMARK 500 13 PRO A 14 151.25 -49.65 REMARK 500 13 THR A 34 -71.90 -138.85 REMARK 500 13 LYS A 35 103.59 161.10 REMARK 500 13 PRO B 116 -179.64 -48.91 REMARK 500 14 PRO A 14 151.02 -49.85 REMARK 500 14 THR A 34 -87.60 -124.67 REMARK 500 14 LYS A 35 21.62 -172.40 REMARK 500 14 PRO B 116 -179.65 -48.81 REMARK 500 15 PRO A 14 150.66 -49.55 REMARK 500 15 LYS A 35 98.47 82.60 REMARK 500 15 PRO B 116 -179.47 -49.84 REMARK 500 REMARK 500 THIS ENTRY HAS 68 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 650 REMARK 650 HELIX REMARK 650 DETERMINATION METHOD: AUTHOR DETERMINED REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 16574 RELATED DB: BMRB REMARK 900 RELATED ID: 2KQ0 RELATED DB: PDB REMARK 900 THE SAME PROTEIN COMPLEXED WITH ANOTHER PEPTIDE DBREF 2KPZ A 5 49 UNP P46934 NEDD4_HUMAN 834 878 DBREF 2KPZ B 109 120 UNP P0C210 PRO_HTL1L 113 124 SEQADV 2KPZ GLY A 1 UNP P46934 EXPRESSION TAG SEQADV 2KPZ ALA A 2 UNP P46934 EXPRESSION TAG SEQADV 2KPZ MET A 3 UNP P46934 EXPRESSION TAG SEQADV 2KPZ GLY A 4 UNP P46934 EXPRESSION TAG SEQRES 1 A 49 GLY ALA MET GLY PRO SER GLU ILE GLU GLN GLY PHE LEU SEQRES 2 A 49 PRO LYS GLY TRP GLU VAL ARG HIS ALA PRO ASN GLY ARG SEQRES 3 A 49 PRO PHE PHE ILE ASP HIS ASN THR LYS THR THR THR TRP SEQRES 4 A 49 GLU ASP PRO ARG LEU LYS ILE PRO ALA HIS SEQRES 1 B 12 SER ASP PRO GLN ILE PRO PRO PRO TYR VAL GLU PRO HELIX 1 1 PHE A 12 LYS A 45 0 34 SHEET 1 A 3 TRP A 17 HIS A 21 0 SHEET 2 A 3 PRO A 27 ASP A 31 -1 O PHE A 28 N ARG A 20 SHEET 3 A 3 THR A 36 THR A 38 -1 O THR A 36 N ASP A 31 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 ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL MASTER 195 0 0 1 3 0 0 6 0 0 0 5 END