10 20 30 40 50 60 70 80 2K4D - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric Unit
HEADER LIGASE 06-JUN-08 2K4D
TITLE E2-C-CBL RECOGNITION IS NECESSARY BUT NOT SUFFICIENT FOR TITLE 2 UBIQUITINATION ACTIVITY
COMPND MOL_ID: 1; COMPND 2 MOLECULE: E3 UBIQUITIN-PROTEIN LIGASE CBL; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: RING DOMAIN, RESIDUES 358-437; COMPND 5 SYNONYM: SIGNAL TRANSDUCTION PROTEIN CBL, PROTO-ONCOGENE C- COMPND 6 CBL, CASITAS B-LINEAGE LYMPHOMA PROTO-ONCOGENE, RING COMPND 7 FINGER PROTEIN 55; COMPND 8 EC: 6.3.2.-; COMPND 9 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: CBL, CBL2, RNF55; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3) ROSETTA 2; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: VECTOR; SOURCE 10 EXPRESSION_SYSTEM_VECTOR: PLICHISGST
KEYWDS PROTEIN, NMR, UBIQUITIN, C-CBL, UBCH5B, UBCH7, CALCIUM, KEYWDS 2 CYTOPLASM, LIGASE, METAL-BINDING, PHOSPHOPROTEIN, PROTO- KEYWDS 3 ONCOGENE, SH2 DOMAIN, UBL CONJUGATION PATHWAY, ZINC, ZINC- KEYWDS 4 FINGER
EXPDTA SOLUTION NMR
NUMMDL 20
AUTHOR A.HUANG,R.N.DE JONG,H.WIENK,S.G.WINKLER,H.T.M.TIMMERS, AUTHOR 2 R.BOELENS
REVDAT 1 20-JAN-09 2K4D 0
JRNL AUTH A.HUANG,R.N.DE JONG,H.WIENK,G.S.WINKLER, JRNL AUTH 2 H.T.M.TIMMERS,R.BOELENS JRNL TITL E2-C-CBL RECOGNITION IS NECESSARY BUT NOT JRNL TITL 2 SUFFICIENT FOR UBIQUITINATION ACTIVITY JRNL REF J.MOL.BIOL. V. 385 507 2009 JRNL REFN ISSN 0022-2836 JRNL PMID 18996392 JRNL DOI 10.1016/J.JMB.2008.10.044
REMARK 1
REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CYANA 2.1.1 REMARK 3 AUTHORS : GUNTERT, MUMENTHALER AND WUTHRICH REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: RECOORD APPROACH
REMARK 4 REMARK 4 2K4D COMPLIES WITH FORMAT V. 3.20, 01-DEC-08
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 10-JUN-08. REMARK 100 THE RCSB ID CODE IS RCSB100660.
REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 7.3 REMARK 210 IONIC STRENGTH : 150 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1MM [U-99% 15N] C-CBL; 50MM REMARK 210 POTASSIUM PHOSPHATE; 100MM REMARK 210 SODIUM CHLORIDE; 0.100MM ZINC REMARK 210 CHLORIDE; 0.2MM PMSF; 5MM DTT; REMARK 210 95% H2O/5% D2O; 1MM [U-99% REMARK 210 13C; U-99% 15N] C-CBL; 50MM REMARK 210 POTASSIUM PHOSPHATE; 100MM REMARK 210 SODIUM CHLORIDE; 0.100MM ZINC REMARK 210 CHLORIDE; 0.2MM PMSF; 5MM DTT; REMARK 210 95% H2O/5% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC, 2D 1H-13C REMARK 210 HSQC, 2D 1H-1H NOESY, 3D REMARK 210 CBCA(CO)NH, 3D C(CO)NH, 3D REMARK 210 HNCO, 3D HNCA, 3D HNCACB, 3D REMARK 210 HBHA(CO)NH, 3D HN(CO)CA, 3D REMARK 210 HCCH-TOCSY, 3D 1H-15N NOESY, REMARK 210 3D 1H-15N TOCSY, 3D 1H-13C REMARK 210 NOESY, 3D HNCACO, 3D CNH-NOESY 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 : CYANA 2.1.1 REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : TARGET FUNCTION 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 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 366 134.34 175.34 REMARK 500 1 LEU A 370 30.66 -76.19 REMARK 500 1 MET A 374 84.06 62.08 REMARK 500 1 LEU A 380 142.71 89.79 REMARK 500 1 ALA A 385 -7.94 71.66 REMARK 500 1 MET A 400 -176.86 -173.04 REMARK 500 1 GLU A 412 107.03 74.84 REMARK 500 1 GLN A 414 49.18 -78.11 REMARK 500 1 PHE A 418 -73.35 -80.29 REMARK 500 1 GLU A 422 116.43 -36.99 REMARK 500 1 ILE A 429 -86.99 -108.54 REMARK 500 1 VAL A 430 87.73 72.46 REMARK 500 1 PHE A 434 -78.83 64.69 REMARK 500 1 ASP A 435 89.19 -154.36 REMARK 500 2 GLN A 358 178.88 66.42 REMARK 500 2 ASP A 359 -78.40 -123.31 REMARK 500 2 HIS A 360 -53.37 66.57 REMARK 500 2 THR A 364 -100.37 -103.50 REMARK 500 2 CYS A 372 107.52 81.12 REMARK 500 2 GLU A 386 -54.00 -126.20 REMARK 500 2 GLU A 412 78.28 63.04 REMARK 500 2 PHE A 418 -67.67 -90.67 REMARK 500 2 GLU A 422 109.68 -44.55 REMARK 500 3 LYS A 362 -177.96 66.27 REMARK 500 3 VAL A 363 74.94 -100.73 REMARK 500 3 MET A 374 -52.24 72.31 REMARK 500 3 GLU A 412 89.44 66.31 REMARK 500 3 ARG A 420 72.37 57.95 REMARK 500 3 CYS A 421 -158.91 -126.56 REMARK 500 3 LYS A 424 -57.40 -123.65 REMARK 500 3 ILE A 429 149.68 61.07 REMARK 500 3 ASP A 435 71.46 52.10 REMARK 500 4 SER A 356 -74.96 -102.51 REMARK 500 4 GLN A 358 -175.12 60.97 REMARK 500 4 ASP A 359 -70.51 -94.66 REMARK 500 4 GLU A 412 89.21 74.50 REMARK 500 4 PHE A 418 -72.44 -93.38 REMARK 500 4 GLU A 422 115.53 -38.34 REMARK 500 4 LYS A 424 -39.80 -134.99 REMARK 500 4 PRO A 433 92.04 -61.62 REMARK 500 5 ASP A 359 80.04 59.60 REMARK 500 5 GLN A 367 31.24 -72.57 REMARK 500 5 MET A 374 91.72 -177.31 REMARK 500 5 ALA A 385 -37.00 70.87 REMARK 500 5 GLU A 412 92.93 72.72 REMARK 500 5 PHE A 418 -72.45 -91.91 REMARK 500 5 GLU A 422 124.30 -35.73 REMARK 500 5 PHE A 434 -63.21 -92.14 REMARK 500 6 SER A 356 95.76 63.66 REMARK 500 6 ILE A 361 126.98 75.34 REMARK 500 6 GLU A 366 -48.96 -153.21 REMARK 500 6 CYS A 372 108.72 -56.07 REMARK 500 6 GLU A 386 -55.93 -122.91 REMARK 500 6 MET A 400 -168.93 176.94 REMARK 500 6 GLU A 412 79.76 63.79 REMARK 500 6 GLU A 422 129.05 -39.01 REMARK 500 6 PRO A 433 88.40 -66.72 REMARK 500 7 ILE A 361 -48.48 -154.96 REMARK 500 7 CYS A 372 115.58 68.62 REMARK 500 7 MET A 400 -173.23 -177.93 REMARK 500 7 GLU A 412 94.22 65.29 REMARK 500 7 VAL A 430 41.90 -106.46 REMARK 500 8 ASP A 359 -158.94 59.54 REMARK 500 8 HIS A 360 -164.23 59.53 REMARK 500 8 GLU A 366 71.89 58.44 REMARK 500 8 LEU A 370 2.13 -68.26 REMARK 500 8 MET A 374 -175.40 61.34 REMARK 500 8 MET A 400 -174.96 -170.46 REMARK 500 8 GLU A 412 104.05 68.25 REMARK 500 8 PHE A 418 -70.74 -77.47 REMARK 500 8 ILE A 429 -66.98 -102.10 REMARK 500 8 VAL A 430 86.03 71.04 REMARK 500 8 PRO A 436 34.59 -90.20 REMARK 500 9 THR A 364 -98.26 -64.40 REMARK 500 9 GLU A 412 94.79 70.99 REMARK 500 9 PHE A 418 -79.02 -81.99 REMARK 500 9 PRO A 433 35.30 -74.16 REMARK 500 10 GLN A 358 86.84 -174.13 REMARK 500 10 LYS A 362 -68.81 -137.36 REMARK 500 10 GLU A 366 122.13 71.59 REMARK 500 10 LEU A 370 6.61 -64.38 REMARK 500 10 CYS A 372 -75.87 -70.77 REMARK 500 10 GLU A 373 13.77 -155.96 REMARK 500 10 MET A 374 -148.96 55.74 REMARK 500 10 THR A 377 97.27 -66.67 REMARK 500 10 PHE A 378 -38.85 -132.93 REMARK 500 10 GLU A 386 -55.82 -126.24 REMARK 500 10 MET A 400 -175.01 -170.71 REMARK 500 10 GLU A 412 87.44 83.51 REMARK 500 10 PHE A 418 -71.28 -92.24 REMARK 500 10 GLU A 422 118.32 -33.91 REMARK 500 11 SER A 356 173.59 62.53 REMARK 500 11 HIS A 360 -78.11 -128.96 REMARK 500 11 THR A 364 -55.36 -125.28 REMARK 500 11 GLU A 369 -15.97 -47.96 REMARK 500 11 GLU A 386 -50.57 -122.24 REMARK 500 11 GLU A 412 -72.77 164.57 REMARK 500 11 PHE A 418 -76.65 -83.80 REMARK 500 11 GLU A 422 120.16 -27.65 REMARK 500 11 PHE A 434 -68.60 66.48 REMARK 500 11 ASP A 435 89.96 -155.15 REMARK 500 12 HIS A 360 -79.35 -122.70 REMARK 500 12 ILE A 361 95.27 60.31 REMARK 500 12 LYS A 362 -177.68 68.23 REMARK 500 12 GLN A 367 32.05 -66.51 REMARK 500 12 MET A 374 -65.57 -134.43 REMARK 500 12 GLU A 386 -50.99 -138.28 REMARK 500 12 GLU A 412 -75.14 179.31 REMARK 500 12 GLU A 422 113.77 -34.14 REMARK 500 13 GLN A 358 -77.31 73.66 REMARK 500 13 ASP A 359 -69.98 61.01 REMARK 500 13 GLU A 366 89.18 58.65 REMARK 500 13 MET A 374 165.67 67.35 REMARK 500 13 GLU A 412 87.33 81.54 REMARK 500 13 GLU A 422 105.58 1.26 REMARK 500 13 PRO A 433 59.03 -69.68 REMARK 500 14 THR A 364 -59.94 -144.01 REMARK 500 14 CYS A 372 -86.96 59.23 REMARK 500 14 MET A 374 -56.29 73.04 REMARK 500 14 GLN A 379 -71.97 69.22 REMARK 500 14 GLU A 412 100.56 69.44 REMARK 500 14 ARG A 420 70.10 53.56 REMARK 500 14 GLU A 422 115.35 -28.27 REMARK 500 14 PHE A 434 -77.03 62.07 REMARK 500 15 PHE A 378 -32.02 -154.57 REMARK 500 15 GLN A 379 36.35 -87.10 REMARK 500 15 GLU A 412 98.83 71.58 REMARK 500 15 PHE A 418 -71.95 -80.13 REMARK 500 15 GLU A 422 131.41 -26.68 REMARK 500 15 ILE A 429 -75.32 -80.09 REMARK 500 15 VAL A 430 94.66 70.73 REMARK 500 15 ASP A 435 85.19 -154.59 REMARK 500 16 ASP A 359 -4.42 82.22 REMARK 500 16 LYS A 362 151.14 178.21 REMARK 500 16 CYS A 372 78.27 52.26 REMARK 500 16 GLU A 412 97.96 76.65 REMARK 500 16 GLU A 422 119.99 -32.58 REMARK 500 16 LYS A 424 -41.89 -134.92 REMARK 500 16 PRO A 433 39.58 -83.37 REMARK 500 16 PRO A 436 32.15 -94.92 REMARK 500 17 ASP A 359 -71.16 -155.45 REMARK 500 17 LYS A 362 167.06 71.34 REMARK 500 17 THR A 364 -97.36 40.15 REMARK 500 17 GLU A 373 103.53 76.33 REMARK 500 17 GLU A 412 94.36 75.93 REMARK 500 17 ARG A 420 69.96 67.20 REMARK 500 17 GLU A 422 110.07 -19.16 REMARK 500 17 PRO A 433 80.77 -65.61 REMARK 500 17 PRO A 436 43.27 -89.24 REMARK 500 18 THR A 364 -58.90 -120.42 REMARK 500 18 CYS A 372 -45.74 -168.05 REMARK 500 18 GLN A 379 -38.27 137.98 REMARK 500 18 MET A 400 -174.84 -172.62 REMARK 500 18 GLU A 412 98.19 79.50 REMARK 500 18 ARG A 420 76.66 62.11 REMARK 500 18 GLU A 422 109.15 -22.72 REMARK 500 18 PHE A 434 -69.75 64.50 REMARK 500 18 PRO A 436 -165.92 -101.88 REMARK 500 19 GLN A 358 -46.52 -168.48 REMARK 500 19 HIS A 360 83.30 68.13 REMARK 500 19 GLU A 366 -6.67 -144.64 REMARK 500 19 CYS A 372 -69.41 -127.92 REMARK 500 19 GLN A 379 -164.92 -79.65 REMARK 500 19 LEU A 380 109.93 59.38 REMARK 500 19 ALA A 385 -28.91 70.70 REMARK 500 19 GLU A 412 98.16 66.55 REMARK 500 19 ASP A 435 89.11 -153.32 REMARK 500 20 ASP A 359 -42.46 -138.95 REMARK 500 20 ILE A 361 158.50 62.42 REMARK 500 20 THR A 364 -40.53 -134.25 REMARK 500 20 ALA A 385 -3.64 71.50 REMARK 500 20 GLU A 412 95.42 68.67 REMARK 500 20 ASP A 435 80.96 58.81 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 13 ARG A 420 0.08 SIDE_CHAIN REMARK 500 REMARK 500 REMARK: NULL
REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 500 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 600
REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1FBV RELATED DB: PDB REMARK 900 C-CBL UBCH7 CRYSTAL STRUCTURE REMARK 900 RELATED ID: 15796 RELATED DB: BMRB
DBREF 2K4D A 358 437 UNP P22681 CBL_HUMAN 358 437
SEQADV 2K4D GLY A 355 UNP P22681 EXPRESSION TAG SEQADV 2K4D SER A 356 UNP P22681 EXPRESSION TAG SEQADV 2K4D LEU A 357 UNP P22681 EXPRESSION TAG
SEQRES 1 A 83 GLY SER LEU GLN ASP HIS ILE LYS VAL THR GLN GLU GLN SEQRES 2 A 83 TYR GLU LEU TYR CYS GLU MET GLY SER THR PHE GLN LEU SEQRES 3 A 83 CYS LYS ILE CYS ALA GLU ASN ASP LYS ASP VAL LYS ILE SEQRES 4 A 83 GLU PRO CYS GLY HIS LEU MET CYS THR SER CYS LEU THR SEQRES 5 A 83 SER TRP GLN GLU SER GLU GLY GLN GLY CYS PRO PHE CYS SEQRES 6 A 83 ARG CYS GLU ILE LYS GLY THR GLU PRO ILE VAL VAL ASP SEQRES 7 A 83 PRO PHE ASP PRO ARG
HET ZN A 500 1 HET ZN A 600 1
HETNAM ZN ZINC ION
FORMUL 2 ZN 2(ZN 2+)
HELIX 1 1 CYS A 401 GLU A 410 1 10
SHEET 1 A 3 HIS A 398 MET A 400 0 SHEET 2 A 3 VAL A 391 PRO A 395 -1 N VAL A 391 O MET A 400 SHEET 3 A 3 ILE A 423 PRO A 428 -1 O GLU A 427 N LYS A 392
SSBOND 1 CYS A 401 CYS A 404 1555 1555 2.95
LINK SG CYS A 381 ZN ZN A 500 1555 1555 1.91
CISPEP 1 GLU A 394 PRO A 395 1 0.44 CISPEP 2 GLU A 394 PRO A 395 2 -1.57 CISPEP 3 GLU A 394 PRO A 395 3 0.29 CISPEP 4 GLU A 394 PRO A 395 4 -0.05 CISPEP 5 GLU A 394 PRO A 395 5 1.72 CISPEP 6 GLU A 394 PRO A 395 6 -0.20 CISPEP 7 GLU A 394 PRO A 395 7 2.15 CISPEP 8 GLU A 394 PRO A 395 8 0.96 CISPEP 9 GLU A 394 PRO A 395 9 -2.28 CISPEP 10 GLU A 394 PRO A 395 10 -0.66 CISPEP 11 GLU A 394 PRO A 395 11 -2.47 CISPEP 12 GLU A 394 PRO A 395 12 -1.33 CISPEP 13 GLU A 394 PRO A 395 13 1.99 CISPEP 14 GLU A 394 PRO A 395 14 -1.60 CISPEP 15 GLU A 394 PRO A 395 15 1.26 CISPEP 16 GLU A 394 PRO A 395 16 0.64 CISPEP 17 GLU A 394 PRO A 395 17 -1.40 CISPEP 18 GLU A 394 PRO A 395 18 1.95 CISPEP 19 GLU A 394 PRO A 395 19 -0.96 CISPEP 20 GLU A 394 PRO A 395 20 0.98
SITE 1 AC1 5 CYS A 381 ILE A 383 CYS A 384 ASN A 387 SITE 2 AC1 5 ASP A 388 SITE 1 AC2 4 ILE A 393 CYS A 396 HIS A 398 CYS A 421
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