HEADER LIGASE 01-JUN-11 2LDR TITLE SOLUTION STRUCTURE OF HELIX-RING DOMAIN OF CBL-B IN THE TYR363 TITLE 2 PHOSPHORYLATED FORM COMPND MOL_ID: 1; COMPND 2 MOLECULE: E3 UBIQUITIN-PROTEIN LIGASE CBL-B; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: HELIX-RING DOMAIN, RESIDUES 345-426; COMPND 5 SYNONYM: CASITAS B-LINEAGE LYMPHOMA PROTO-ONCOGENE B, RING FINGER COMPND 6 PROTEIN 56, SH3-BINDING PROTEIN CBL-B, SIGNAL TRANSDUCTION PROTEIN COMPND 7 CBL-B; 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: CBLB; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: VECTOR; SOURCE 9 EXPRESSION_SYSTEM_VECTOR: PGBHPS KEYWDS E3 LIGASE, UBIQUITIN, RING DOMAIN, LIGASE EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR H.KUMETA,Y.KOBASHIGAWA,F.INAGAKI REVDAT 3 14-JUN-23 2LDR 1 REMARK SEQADV LINK REVDAT 2 10-JUL-13 2LDR 1 JRNL REVDAT 1 14-DEC-11 2LDR 0 JRNL AUTH Y.KOBASHIGAWA,A.TOMITAKA,H.KUMETA,N.N.NODA,M.YAMAGUCHI, JRNL AUTH 2 F.INAGAKI JRNL TITL AUTOINHIBITION AND PHOSPHORYLATION-INDUCED ACTIVATION JRNL TITL 2 MECHANISMS OF HUMAN CANCER AND AUTOIMMUNE DISEASE-RELATED E3 JRNL TITL 3 PROTEIN CBL-B JRNL REF PROC.NATL.ACAD.SCI.USA V. 108 20579 2011 JRNL REFN ISSN 0027-8424 JRNL PMID 22158902 JRNL DOI 10.1073/PNAS.1110712108 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : VNMR 6.1C, SPARKY 3.111, CYANA REMARK 3 AUTHORS : VARIAN (VNMR), GODDARD (SPARKY) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2LDR COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 06-JUN-11. REMARK 100 THE DEPOSITION ID IS D_1000102271. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 6.3 REMARK 210 IONIC STRENGTH : 150 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 20MM MES-1, 2MM DTT-2, 150MM REMARK 210 SODIUM CHLORIDE-3, 0.4MM [U-99% REMARK 210 13C; U-99% 15N] PROTEIN-4, 90% REMARK 210 H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 2D 1H-13C HSQC REMARK 210 ALIPHATIC; 2D 1H-13C HSQC REMARK 210 AROMATIC; 3D HCCH-TOCSY REMARK 210 ALIPHATIC; 3D CBCA(CO)NH; 3D REMARK 210 HBHA(CO)NH; 3D HNCA; 3D HNCACB; REMARK 210 3D HNCO; 3D HN(CO)CA; 3D HN(CA) REMARK 210 HA; 2D HBCBCGCDCEHE; 2D REMARK 210 HBCBCGCDHD; 3D HCCH-TOCSY REMARK 210 AROMATIC; 3D 1H-13C NOESY REMARK 210 ALIPHATIC; 3D 1H-13C NOESY REMARK 210 AROMATIC; 3D 1H-15N NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ; 800 MHZ REMARK 210 SPECTROMETER MODEL : INOVA REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NMRPIPE 5.2, SPARKY 3.111, CYANA REMARK 210 2.1, RNMRTK 3 REMARK 210 METHOD USED : TORSION ANGLE DYNAMICS 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 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 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 SG CYS A 393 SG CYS A 396 1.44 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 HIS A 347 47.33 70.77 REMARK 500 1 MET A 348 -75.34 -46.07 REMARK 500 1 PHE A 370 -70.96 -56.18 REMARK 500 1 GLN A 371 -30.44 -38.52 REMARK 500 1 LYS A 374 32.35 -97.31 REMARK 500 1 CYS A 388 -76.75 -37.43 REMARK 500 1 ASP A 404 -88.46 -153.19 REMARK 500 1 ARG A 412 49.94 38.68 REMARK 500 2 GLN A 371 -31.72 -40.00 REMARK 500 2 GLU A 378 -44.74 -131.79 REMARK 500 2 CYS A 388 -76.97 -37.45 REMARK 500 2 SER A 395 -29.70 -39.91 REMARK 500 2 ASP A 404 -78.34 -160.16 REMARK 500 2 ARG A 412 30.75 38.19 REMARK 500 3 GLN A 371 -29.99 -38.89 REMARK 500 3 CYS A 388 -79.52 -38.11 REMARK 500 3 ASP A 404 -94.25 -82.05 REMARK 500 3 GLN A 406 57.34 -90.66 REMARK 500 3 ARG A 412 41.27 38.71 REMARK 500 3 GLU A 414 157.44 -47.63 REMARK 500 4 GLN A 357 -32.98 -39.66 REMARK 500 4 GLN A 371 -30.02 -39.44 REMARK 500 4 CYS A 388 -73.62 -36.83 REMARK 500 4 ASP A 404 -93.86 -81.58 REMARK 500 4 ARG A 412 30.26 38.60 REMARK 500 5 CYS A 388 -79.28 -38.13 REMARK 500 5 ASP A 404 -93.67 -82.42 REMARK 500 5 ARG A 412 30.12 38.69 REMARK 500 5 GLU A 414 159.00 -45.11 REMARK 500 5 LYS A 416 -47.17 -132.30 REMARK 500 6 GLU A 378 -61.89 -136.29 REMARK 500 6 CYS A 388 -77.74 -37.60 REMARK 500 6 ASP A 404 -94.86 -83.00 REMARK 500 6 ARG A 412 30.19 38.59 REMARK 500 7 CYS A 388 -71.82 -36.63 REMARK 500 7 ASP A 404 -94.51 -82.09 REMARK 500 7 ARG A 412 30.28 38.49 REMARK 500 8 CYS A 388 -87.00 -36.82 REMARK 500 8 ASP A 404 -95.08 -82.62 REMARK 500 8 ARG A 412 30.35 38.48 REMARK 500 8 GLU A 414 152.67 -46.59 REMARK 500 9 HIS A 347 -174.60 -69.33 REMARK 500 9 LYS A 374 31.46 -92.97 REMARK 500 9 CYS A 388 -84.91 -36.80 REMARK 500 9 ASP A 404 -94.28 -82.63 REMARK 500 9 ARG A 412 30.26 38.55 REMARK 500 10 TYR A 360 -38.56 -38.15 REMARK 500 10 CYS A 376 -48.66 -132.28 REMARK 500 10 ALA A 377 44.54 73.79 REMARK 500 10 CYS A 388 -72.96 -36.68 REMARK 500 REMARK 500 THIS ENTRY HAS 111 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A1373 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 373 SG REMARK 620 2 CYS A 376 SG 77.6 REMARK 620 3 CYS A 393 SG 79.0 107.2 REMARK 620 4 CYS A 396 SG 108.6 94.2 35.7 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A1388 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 388 SG REMARK 620 2 HIS A 390 ND1 73.3 REMARK 620 3 CYS A 408 SG 142.9 122.8 REMARK 620 4 CYS A 411 SG 78.0 106.4 120.8 REMARK 620 N 1 2 3 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 1373 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 1388 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 17680 RELATED DB: BMRB DBREF 2LDR A 351 426 UNP Q13191 CBLB_HUMAN 351 426 SEQADV 2LDR GLY A 345 UNP Q13191 EXPRESSION TAG SEQADV 2LDR PRO A 346 UNP Q13191 EXPRESSION TAG SEQADV 2LDR HIS A 347 UNP Q13191 EXPRESSION TAG SEQADV 2LDR MET A 348 UNP Q13191 EXPRESSION TAG SEQADV 2LDR GLY A 349 UNP Q13191 EXPRESSION TAG SEQADV 2LDR SER A 350 UNP Q13191 EXPRESSION TAG SEQRES 1 A 82 GLY PRO HIS MET GLY SER ASP HIS ILE LYS VAL THR GLN SEQRES 2 A 82 GLU GLN TYR GLU LEU PTR CYS GLU MET GLY SER THR PHE SEQRES 3 A 82 GLN LEU CYS LYS ILE CYS ALA GLU ASN ASP LYS ASP VAL SEQRES 4 A 82 LYS ILE GLU PRO CYS GLY HIS LEU MET CYS THR SER CYS SEQRES 5 A 82 LEU THR ALA TRP GLN GLU SER ASP GLY GLN GLY CYS PRO SEQRES 6 A 82 PHE CYS ARG CYS GLU ILE LYS GLY THR GLU PRO ILE ILE SEQRES 7 A 82 VAL ASP PRO PHE MODRES 2LDR PTR A 363 TYR O-PHOSPHOTYROSINE HET PTR A 363 24 HET ZN A1373 1 HET ZN A1388 1 HETNAM PTR O-PHOSPHOTYROSINE HETNAM ZN ZINC ION HETSYN PTR PHOSPHONOTYROSINE FORMUL 1 PTR C9 H12 N O6 P FORMUL 2 ZN 2(ZN 2+) HELIX 1 1 THR A 356 GLU A 365 1 10 HELIX 2 2 CYS A 393 GLU A 402 1 10 SHEET 1 A 2 HIS A 352 LYS A 354 0 SHEET 2 A 2 ILE A 422 ASP A 424 1 O ILE A 422 N ILE A 353 SHEET 1 B 2 LYS A 384 GLU A 386 0 SHEET 2 B 2 GLY A 417 GLU A 419 -1 O GLY A 417 N GLU A 386 LINK C LEU A 362 N PTR A 363 1555 1555 1.33 LINK C PTR A 363 N CYS A 364 1555 1555 1.33 LINK SG CYS A 373 ZN ZN A1373 1555 1555 2.73 LINK SG CYS A 376 ZN ZN A1373 1555 1555 2.35 LINK SG CYS A 388 ZN ZN A1388 1555 1555 2.73 LINK ND1 HIS A 390 ZN ZN A1388 1555 1555 2.07 LINK SG CYS A 393 ZN ZN A1373 1555 1555 2.34 LINK SG CYS A 396 ZN ZN A1373 1555 1555 2.34 LINK SG CYS A 408 ZN ZN A1388 1555 1555 2.34 LINK SG CYS A 411 ZN ZN A1388 1555 1555 2.35 CISPEP 1 GLU A 386 PRO A 387 1 0.02 CISPEP 2 GLU A 386 PRO A 387 2 -0.03 CISPEP 3 GLU A 386 PRO A 387 3 -0.05 CISPEP 4 GLU A 386 PRO A 387 4 -0.06 CISPEP 5 GLU A 386 PRO A 387 5 0.08 CISPEP 6 GLU A 386 PRO A 387 6 0.02 CISPEP 7 GLU A 386 PRO A 387 7 0.01 CISPEP 8 GLU A 386 PRO A 387 8 -0.05 CISPEP 9 GLU A 386 PRO A 387 9 0.07 CISPEP 10 GLU A 386 PRO A 387 10 0.03 CISPEP 11 GLU A 386 PRO A 387 11 -0.02 CISPEP 12 GLU A 386 PRO A 387 12 -0.02 CISPEP 13 GLU A 386 PRO A 387 13 -0.02 CISPEP 14 GLU A 386 PRO A 387 14 -0.03 CISPEP 15 GLU A 386 PRO A 387 15 -0.02 CISPEP 16 GLU A 386 PRO A 387 16 -0.02 CISPEP 17 GLU A 386 PRO A 387 17 0.00 CISPEP 18 GLU A 386 PRO A 387 18 -0.01 CISPEP 19 GLU A 386 PRO A 387 19 -0.04 CISPEP 20 GLU A 386 PRO A 387 20 -0.01 SITE 1 AC1 5 CYS A 373 CYS A 376 ASN A 379 CYS A 393 SITE 2 AC1 5 CYS A 396 SITE 1 AC2 5 CYS A 388 HIS A 390 CYS A 408 PHE A 410 SITE 2 AC2 5 CYS A 411 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