PDB Short entry for 3JW0 HEADER LIGASE/SIGNALING PROTEIN 17-SEP-09 3JW0 TITLE E2~UBIQUITIN-HECT COMPND MOL_ID: 1; COMPND 2 MOLECULE: UBIQUITIN-CONJUGATING ENZYME E2 D2; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: UBIQUITIN-PROTEIN LIGASE D2, UBIQUITIN CARRIER PROTEIN D2, COMPND 5 UBIQUITIN-CONJUGATING ENZYME E2-17 KDA 2, E2(17)KB 2; COMPND 6 EC: 6.3.2.19; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES; COMPND 9 MOL_ID: 2; COMPND 10 MOLECULE: E3 UBIQUITIN-PROTEIN LIGASE NEDD4-LIKE; COMPND 11 CHAIN: C, D; COMPND 12 FRAGMENT: NEDD4L HECT DOMAIN (UNP 576-955); COMPND 13 SYNONYM: NEDD4-2, NEDD4.2; COMPND 14 EC: 6.3.2.-; COMPND 15 ENGINEERED: YES; COMPND 16 MUTATION: YES; COMPND 17 MOL_ID: 3; COMPND 18 MOLECULE: UBIQUITIN; COMPND 19 CHAIN: X, Y; COMPND 20 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: UBE2D2, UBC4, UBCH5B; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 MOL_ID: 2; SOURCE 10 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 11 ORGANISM_COMMON: HUMAN; SOURCE 12 ORGANISM_TAXID: 9606; SOURCE 13 GENE: NEDD4L, KIAA0439, NEDL3; SOURCE 14 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 15 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 16 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 17 MOL_ID: 3; SOURCE 18 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 19 ORGANISM_COMMON: HUMAN; SOURCE 20 ORGANISM_TAXID: 9606; SOURCE 21 GENE: RPS27A, UBA80, UBCEP1, UBA52, UBCEP2, UBB, UBC; SOURCE 22 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 23 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 24 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID KEYWDS UBIQUITIN, HECT, E3, UBIQUITIN LIGASE, UBCH5B, NEDD4L, NEDD4-2, KEYWDS 2 LIGASE, UBL CONJUGATION PATHWAY, ISOPEPTIDE BOND, NUCLEUS, HOST- KEYWDS 3 VIRUS INTERACTION, LIGASE-SIGNALING PROTEIN COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR H.B.KAMADURAI,B.A.SCHULMAN REVDAT 3 13-OCT-21 3JW0 1 SEQADV LINK REVDAT 2 21-MAR-12 3JW0 1 JRNL VERSN REVDAT 1 12-JAN-10 3JW0 0 JRNL AUTH H.B.KAMADURAI,J.SOUPHRON,D.C.SCOTT,D.M.DUDA,D.J.MILLER, JRNL AUTH 2 D.STRINGER,R.C.PIPER,B.A.SCHULMAN JRNL TITL INSIGHTS INTO UBIQUITIN TRANSFER CASCADES FROM A STRUCTURE JRNL TITL 2 OF A UBCH5B APPROXIMATELY UBIQUITIN-HECT(NEDD4L) COMPLEX. JRNL REF MOL.CELL V. 36 1095 2009 JRNL REFN ISSN 1097-2765 JRNL PMID 20064473 JRNL DOI 10.1016/J.MOLCEL.2009.11.010 REMARK 2 REMARK 2 RESOLUTION. 3.10 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.1 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 NUMBER OF REFLECTIONS : 34028 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING SET) : 0.252 REMARK 3 FREE R VALUE : 0.287 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : 1690 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 9807 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 19 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : NULL REMARK 3 BOND ANGLES (DEGREES) : NULL REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : NULL REMARK 3 KSOL : NULL REMARK 3 BSOL : NULL REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 3JW0 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 29-OCT-09. REMARK 100 THE DEPOSITION ID IS D_1000055229. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 20-APR-08 REMARK 200 TEMPERATURE (KELVIN) : NULL REMARK 200 PH : 5.1 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 22-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.00 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MAR SCANNER 300 MM PLATE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 34028 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.100 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : NULL REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 63.59 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.38 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M SODIUM CITRATE, 2.4M SODIUM REMARK 280 CHLORIDE, PH 5.1, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 X+1/2,-Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 54.91000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 54.91000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 87.08350 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 100.28550 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 87.08350 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 100.28550 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 54.91000 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 87.08350 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 100.28550 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 54.91000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 87.08350 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 100.28550 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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 300 REMARK: ACX 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: TRIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, C, X 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: TRIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, D, Y 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. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 GLY C 571 REMARK 465 SER C 572 REMARK 465 PRO C 573 REMARK 465 GLU C 574 REMARK 465 PHE C 951 REMARK 465 GLU C 952 REMARK 465 GLY C 953 REMARK 465 VAL C 954 REMARK 465 ASP C 955 REMARK 465 GLY D 571 REMARK 465 SER D 572 REMARK 465 PRO D 573 REMARK 465 GLU D 574 REMARK 465 PHE D 575 REMARK 465 GLY D 950 REMARK 465 PHE D 951 REMARK 465 GLU D 952 REMARK 465 GLY D 953 REMARK 465 VAL D 954 REMARK 465 ASP D 955 REMARK 465 GLY X -4 REMARK 465 SER X -3 REMARK 465 GLY X -2 REMARK 465 GLY X -1 REMARK 465 SER X 0 REMARK 465 GLY Y -4 REMARK 465 SER Y -3 REMARK 465 GLY Y -2 REMARK 465 GLY Y -1 REMARK 465 SER Y 0 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 GLN A 20 -0.49 78.78 REMARK 500 ILE A 88 7.72 -69.24 REMARK 500 ARG A 90 -83.81 -137.74 REMARK 500 PRO A 113 176.24 -54.31 REMARK 500 PRO A 115 -4.98 -56.15 REMARK 500 ASP A 130 68.94 -109.17 REMARK 500 ASP B 16 57.58 -151.20 REMARK 500 PRO B 44 10.39 -62.73 REMARK 500 ARG B 90 -84.32 -132.71 REMARK 500 GLU B 122 -70.31 -39.12 REMARK 500 ARG B 136 -71.74 -59.72 REMARK 500 ASP C 593 45.09 -99.96 REMARK 500 PRO C 595 166.59 -45.73 REMARK 500 ASN C 606 34.79 -150.54 REMARK 500 PHE C 608 -71.13 -52.07 REMARK 500 ARG C 614 -71.19 -60.26 REMARK 500 ARG C 620 78.25 -100.92 REMARK 500 PRO C 621 -14.84 -45.76 REMARK 500 SER C 634 -69.62 -149.13 REMARK 500 ASP C 639 -67.77 -109.18 REMARK 500 LYS C 653 -16.90 -47.31 REMARK 500 PHE C 656 38.42 -90.38 REMARK 500 TYR C 671 13.82 55.61 REMARK 500 ASN C 678 35.84 -98.76 REMARK 500 ASP C 685 32.09 -142.58 REMARK 500 HIS C 686 -30.55 -36.34 REMARK 500 MET C 729 63.41 -105.03 REMARK 500 ASP C 752 57.72 36.08 REMARK 500 VAL C 797 -51.35 -132.02 REMARK 500 VAL C 800 5.05 -151.63 REMARK 500 LEU C 814 -36.16 -136.85 REMARK 500 LYS C 821 -8.22 -58.10 REMARK 500 MET C 870 157.41 -49.97 REMARK 500 PRO C 930 98.20 -63.01 REMARK 500 ASN D 606 28.96 -152.01 REMARK 500 SER D 617 1.00 -65.44 REMARK 500 LYS D 619 -72.13 -73.31 REMARK 500 GLU D 654 -71.57 -83.11 REMARK 500 TYR D 671 33.62 38.36 REMARK 500 ASP D 708 72.17 -100.34 REMARK 500 PHE D 755 49.85 -77.66 REMARK 500 THR D 780 -166.96 -78.94 REMARK 500 ASN D 783 11.81 -154.00 REMARK 500 VAL D 797 -54.89 -120.60 REMARK 500 LYS D 821 5.82 -67.18 REMARK 500 ASN D 851 72.29 49.48 REMARK 500 ASP D 871 -172.45 -65.66 REMARK 500 GLU D 895 45.86 -92.58 REMARK 500 GLN D 903 110.78 -161.52 REMARK 500 PRO D 913 -8.09 -49.96 REMARK 500 REMARK 500 THIS ENTRY HAS 60 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3JVZ RELATED DB: PDB DBREF 3JW0 A 2 147 UNP P62837 UB2D2_HUMAN 2 147 DBREF 3JW0 B 2 147 UNP P62837 UB2D2_HUMAN 2 147 DBREF 3JW0 C 576 955 UNP Q96PU5 NED4L_HUMAN 596 975 DBREF 3JW0 D 576 955 UNP Q96PU5 NED4L_HUMAN 596 975 DBREF 3JW0 X 1 76 UNP P62988 UBIQ_HUMAN 1 76 DBREF 3JW0 Y 1 76 UNP P62988 UBIQ_HUMAN 1 76 SEQADV 3JW0 SER A 3 UNP P62837 LEU 3 ENGINEERED MUTATION SEQADV 3JW0 SER A 85 UNP P62837 CYS 85 ENGINEERED MUTATION SEQADV 3JW0 LYS A 98 UNP P62837 THR 98 ENGINEERED MUTATION SEQADV 3JW0 SER B 3 UNP P62837 LEU 3 ENGINEERED MUTATION SEQADV 3JW0 SER B 85 UNP P62837 CYS 85 ENGINEERED MUTATION SEQADV 3JW0 LYS B 98 UNP P62837 THR 98 ENGINEERED MUTATION SEQADV 3JW0 GLY C 571 UNP Q96PU5 EXPRESSION TAG SEQADV 3JW0 SER C 572 UNP Q96PU5 EXPRESSION TAG SEQADV 3JW0 PRO C 573 UNP Q96PU5 EXPRESSION TAG SEQADV 3JW0 GLU C 574 UNP Q96PU5 EXPRESSION TAG SEQADV 3JW0 PHE C 575 UNP Q96PU5 EXPRESSION TAG SEQADV 3JW0 SER C 922 UNP Q96PU5 CYS 347 ENGINEERED MUTATION SEQADV 3JW0 GLY D 571 UNP Q96PU5 EXPRESSION TAG SEQADV 3JW0 SER D 572 UNP Q96PU5 EXPRESSION TAG SEQADV 3JW0 PRO D 573 UNP Q96PU5 EXPRESSION TAG SEQADV 3JW0 GLU D 574 UNP Q96PU5 EXPRESSION TAG SEQADV 3JW0 PHE D 575 UNP Q96PU5 EXPRESSION TAG SEQADV 3JW0 SER D 922 UNP Q96PU5 CYS 347 ENGINEERED MUTATION SEQADV 3JW0 GLY X -4 UNP P62988 EXPRESSION TAG SEQADV 3JW0 SER X -3 UNP P62988 EXPRESSION TAG SEQADV 3JW0 GLY X -2 UNP P62988 EXPRESSION TAG SEQADV 3JW0 GLY X -1 UNP P62988 EXPRESSION TAG SEQADV 3JW0 SER X 0 UNP P62988 EXPRESSION TAG SEQADV 3JW0 GLY Y -4 UNP P62988 EXPRESSION TAG SEQADV 3JW0 SER Y -3 UNP P62988 EXPRESSION TAG SEQADV 3JW0 GLY Y -2 UNP P62988 EXPRESSION TAG SEQADV 3JW0 GLY Y -1 UNP P62988 EXPRESSION TAG SEQADV 3JW0 SER Y 0 UNP P62988 EXPRESSION TAG SEQRES 1 A 146 ALA SER LYS ARG ILE HIS LYS GLU LEU ASN ASP LEU ALA SEQRES 2 A 146 ARG ASP PRO PRO ALA GLN CYS SER ALA GLY PRO VAL GLY SEQRES 3 A 146 ASP ASP MET PHE HIS TRP GLN ALA THR ILE MET GLY PRO SEQRES 4 A 146 ASN ASP SER PRO TYR GLN GLY GLY VAL PHE PHE LEU THR SEQRES 5 A 146 ILE HIS PHE PRO THR ASP TYR PRO PHE LYS PRO PRO LYS SEQRES 6 A 146 VAL ALA PHE THR THR ARG ILE TYR HIS PRO ASN ILE ASN SEQRES 7 A 146 SER ASN GLY SER ILE SER LEU ASP ILE LEU ARG SER GLN SEQRES 8 A 146 TRP SER PRO ALA LEU LYS ILE SER LYS VAL LEU LEU SER SEQRES 9 A 146 ILE CYS SER LEU LEU CYS ASP PRO ASN PRO ASP ASP PRO SEQRES 10 A 146 LEU VAL PRO GLU ILE ALA ARG ILE TYR LYS THR ASP ARG SEQRES 11 A 146 GLU LYS TYR ASN ARG ILE ALA ARG GLU TRP THR GLN LYS SEQRES 12 A 146 TYR ALA MET SEQRES 1 B 146 ALA SER LYS ARG ILE HIS LYS GLU LEU ASN ASP LEU ALA SEQRES 2 B 146 ARG ASP PRO PRO ALA GLN CYS SER ALA GLY PRO VAL GLY SEQRES 3 B 146 ASP ASP MET PHE HIS TRP GLN ALA THR ILE MET GLY PRO SEQRES 4 B 146 ASN ASP SER PRO TYR GLN GLY GLY VAL PHE PHE LEU THR SEQRES 5 B 146 ILE HIS PHE PRO THR ASP TYR PRO PHE LYS PRO PRO LYS SEQRES 6 B 146 VAL ALA PHE THR THR ARG ILE TYR HIS PRO ASN ILE ASN SEQRES 7 B 146 SER ASN GLY SER ILE SER LEU ASP ILE LEU ARG SER GLN SEQRES 8 B 146 TRP SER PRO ALA LEU LYS ILE SER LYS VAL LEU LEU SER SEQRES 9 B 146 ILE CYS SER LEU LEU CYS ASP PRO ASN PRO ASP ASP PRO SEQRES 10 B 146 LEU VAL PRO GLU ILE ALA ARG ILE TYR LYS THR ASP ARG SEQRES 11 B 146 GLU LYS TYR ASN ARG ILE ALA ARG GLU TRP THR GLN LYS SEQRES 12 B 146 TYR ALA MET SEQRES 1 C 385 GLY SER PRO GLU PHE GLU PHE LYS GLN LYS TYR ASP TYR SEQRES 2 C 385 PHE ARG LYS LYS LEU LYS LYS PRO ALA ASP ILE PRO ASN SEQRES 3 C 385 ARG PHE GLU MET LYS LEU HIS ARG ASN ASN ILE PHE GLU SEQRES 4 C 385 GLU SER TYR ARG ARG ILE MET SER VAL LYS ARG PRO ASP SEQRES 5 C 385 VAL LEU LYS ALA ARG LEU TRP ILE GLU PHE GLU SER GLU SEQRES 6 C 385 LYS GLY LEU ASP TYR GLY GLY VAL ALA ARG GLU TRP PHE SEQRES 7 C 385 PHE LEU LEU SER LYS GLU MET PHE ASN PRO TYR TYR GLY SEQRES 8 C 385 LEU PHE GLU TYR SER ALA THR ASP ASN TYR THR LEU GLN SEQRES 9 C 385 ILE ASN PRO ASN SER GLY LEU CYS ASN GLU ASP HIS LEU SEQRES 10 C 385 SER TYR PHE THR PHE ILE GLY ARG VAL ALA GLY LEU ALA SEQRES 11 C 385 VAL PHE HIS GLY LYS LEU LEU ASP GLY PHE PHE ILE ARG SEQRES 12 C 385 PRO PHE TYR LYS MET MET LEU GLY LYS GLN ILE THR LEU SEQRES 13 C 385 ASN ASP MET GLU SER VAL ASP SER GLU TYR TYR ASN SER SEQRES 14 C 385 LEU LYS TRP ILE LEU GLU ASN ASP PRO THR GLU LEU ASP SEQRES 15 C 385 LEU MET PHE CYS ILE ASP GLU GLU ASN PHE GLY GLN THR SEQRES 16 C 385 TYR GLN VAL ASP LEU LYS PRO ASN GLY SER GLU ILE MET SEQRES 17 C 385 VAL THR ASN GLU ASN LYS ARG GLU TYR ILE ASP LEU VAL SEQRES 18 C 385 ILE GLN TRP ARG PHE VAL ASN ARG VAL GLN LYS GLN MET SEQRES 19 C 385 ASN ALA PHE LEU GLU GLY PHE THR GLU LEU LEU PRO ILE SEQRES 20 C 385 ASP LEU ILE LYS ILE PHE ASP GLU ASN GLU LEU GLU LEU SEQRES 21 C 385 LEU MET CYS GLY LEU GLY ASP VAL ASP VAL ASN ASP TRP SEQRES 22 C 385 ARG GLN HIS SER ILE TYR LYS ASN GLY TYR CYS PRO ASN SEQRES 23 C 385 HIS PRO VAL ILE GLN TRP PHE TRP LYS ALA VAL LEU LEU SEQRES 24 C 385 MET ASP ALA GLU LYS ARG ILE ARG LEU LEU GLN PHE VAL SEQRES 25 C 385 THR GLY THR SER ARG VAL PRO MET ASN GLY PHE ALA GLU SEQRES 26 C 385 LEU TYR GLY SER ASN GLY PRO GLN LEU PHE THR ILE GLU SEQRES 27 C 385 GLN TRP GLY SER PRO GLU LYS LEU PRO ARG ALA HIS THR SEQRES 28 C 385 SER PHE ASN ARG LEU ASP LEU PRO PRO TYR GLU THR PHE SEQRES 29 C 385 GLU ASP LEU ARG GLU LYS LEU LEU MET ALA VAL GLU ASN SEQRES 30 C 385 ALA GLN GLY PHE GLU GLY VAL ASP SEQRES 1 D 385 GLY SER PRO GLU PHE GLU PHE LYS GLN LYS TYR ASP TYR SEQRES 2 D 385 PHE ARG LYS LYS LEU LYS LYS PRO ALA ASP ILE PRO ASN SEQRES 3 D 385 ARG PHE GLU MET LYS LEU HIS ARG ASN ASN ILE PHE GLU SEQRES 4 D 385 GLU SER TYR ARG ARG ILE MET SER VAL LYS ARG PRO ASP SEQRES 5 D 385 VAL LEU LYS ALA ARG LEU TRP ILE GLU PHE GLU SER GLU SEQRES 6 D 385 LYS GLY LEU ASP TYR GLY GLY VAL ALA ARG GLU TRP PHE SEQRES 7 D 385 PHE LEU LEU SER LYS GLU MET PHE ASN PRO TYR TYR GLY SEQRES 8 D 385 LEU PHE GLU TYR SER ALA THR ASP ASN TYR THR LEU GLN SEQRES 9 D 385 ILE ASN PRO ASN SER GLY LEU CYS ASN GLU ASP HIS LEU SEQRES 10 D 385 SER TYR PHE THR PHE ILE GLY ARG VAL ALA GLY LEU ALA SEQRES 11 D 385 VAL PHE HIS GLY LYS LEU LEU ASP GLY PHE PHE ILE ARG SEQRES 12 D 385 PRO PHE TYR LYS MET MET LEU GLY LYS GLN ILE THR LEU SEQRES 13 D 385 ASN ASP MET GLU SER VAL ASP SER GLU TYR TYR ASN SER SEQRES 14 D 385 LEU LYS TRP ILE LEU GLU ASN ASP PRO THR GLU LEU ASP SEQRES 15 D 385 LEU MET PHE CYS ILE ASP GLU GLU ASN PHE GLY GLN THR SEQRES 16 D 385 TYR GLN VAL ASP LEU LYS PRO ASN GLY SER GLU ILE MET SEQRES 17 D 385 VAL THR ASN GLU ASN LYS ARG GLU TYR ILE ASP LEU VAL SEQRES 18 D 385 ILE GLN TRP ARG PHE VAL ASN ARG VAL GLN LYS GLN MET SEQRES 19 D 385 ASN ALA PHE LEU GLU GLY PHE THR GLU LEU LEU PRO ILE SEQRES 20 D 385 ASP LEU ILE LYS ILE PHE ASP GLU ASN GLU LEU GLU LEU SEQRES 21 D 385 LEU MET CYS GLY LEU GLY ASP VAL ASP VAL ASN ASP TRP SEQRES 22 D 385 ARG GLN HIS SER ILE TYR LYS ASN GLY TYR CYS PRO ASN SEQRES 23 D 385 HIS PRO VAL ILE GLN TRP PHE TRP LYS ALA VAL LEU LEU SEQRES 24 D 385 MET ASP ALA GLU LYS ARG ILE ARG LEU LEU GLN PHE VAL SEQRES 25 D 385 THR GLY THR SER ARG VAL PRO MET ASN GLY PHE ALA GLU SEQRES 26 D 385 LEU TYR GLY SER ASN GLY PRO GLN LEU PHE THR ILE GLU SEQRES 27 D 385 GLN TRP GLY SER PRO GLU LYS LEU PRO ARG ALA HIS THR SEQRES 28 D 385 SER PHE ASN ARG LEU ASP LEU PRO PRO TYR GLU THR PHE SEQRES 29 D 385 GLU ASP LEU ARG GLU LYS LEU LEU MET ALA VAL GLU ASN SEQRES 30 D 385 ALA GLN GLY PHE GLU GLY VAL ASP SEQRES 1 X 81 GLY SER GLY GLY SER MET GLN ILE PHE VAL LYS THR LEU SEQRES 2 X 81 THR GLY LYS THR ILE THR LEU GLU VAL GLU PRO SER ASP SEQRES 3 X 81 THR ILE GLU ASN VAL LYS ALA LYS ILE GLN ASP LYS GLU SEQRES 4 X 81 GLY ILE PRO PRO ASP GLN GLN ARG LEU ILE PHE ALA GLY SEQRES 5 X 81 LYS GLN LEU GLU ASP GLY ARG THR LEU SER ASP TYR ASN SEQRES 6 X 81 ILE GLN LYS GLU SER THR LEU HIS LEU VAL LEU ARG LEU SEQRES 7 X 81 ARG GLY GLY SEQRES 1 Y 81 GLY SER GLY GLY SER MET GLN ILE PHE VAL LYS THR LEU SEQRES 2 Y 81 THR GLY LYS THR ILE THR LEU GLU VAL GLU PRO SER ASP SEQRES 3 Y 81 THR ILE GLU ASN VAL LYS ALA LYS ILE GLN ASP LYS GLU SEQRES 4 Y 81 GLY ILE PRO PRO ASP GLN GLN ARG LEU ILE PHE ALA GLY SEQRES 5 Y 81 LYS GLN LEU GLU ASP GLY ARG THR LEU SER ASP TYR ASN SEQRES 6 Y 81 ILE GLN LYS GLU SER THR LEU HIS LEU VAL LEU ARG LEU SEQRES 7 Y 81 ARG GLY GLY FORMUL 7 HOH *19(H2 O) HELIX 1 1 ALA A 2 ASP A 16 1 15 HELIX 2 2 LEU A 86 ARG A 90 5 5 HELIX 3 3 LYS A 98 ASP A 112 1 15 HELIX 4 4 VAL A 120 ASP A 130 1 11 HELIX 5 5 ASP A 130 TYR A 145 1 16 HELIX 6 6 ALA B 2 ASP B 16 1 15 HELIX 7 7 LEU B 86 ARG B 90 5 5 HELIX 8 8 LYS B 98 ASP B 112 1 15 HELIX 9 9 VAL B 120 ASP B 130 1 11 HELIX 10 10 ASP B 130 TYR B 145 1 16 HELIX 11 11 PHE C 575 LEU C 588 1 14 HELIX 12 12 HIS C 603 ASN C 605 5 3 HELIX 13 13 ASN C 606 MET C 616 1 11 HELIX 14 14 ARG C 620 ALA C 626 5 7 HELIX 15 15 GLY C 642 PHE C 656 1 15 HELIX 16 16 ASP C 685 HIS C 703 1 19 HELIX 17 17 ILE C 712 GLY C 721 1 10 HELIX 18 18 THR C 725 MET C 729 5 5 HELIX 19 19 ASP C 733 ASN C 746 1 14 HELIX 20 20 PRO C 748 ASP C 752 5 5 HELIX 21 21 ASN C 773 ILE C 777 5 5 HELIX 22 22 ASN C 783 VAL C 797 1 15 HELIX 23 23 VAL C 800 THR C 812 1 13 HELIX 24 24 PRO C 816 ILE C 820 5 5 HELIX 25 25 ASP C 824 GLY C 834 1 11 HELIX 26 26 ASP C 839 HIS C 846 1 8 HELIX 27 27 HIS C 857 MET C 870 1 14 HELIX 28 28 ASP C 871 GLY C 884 1 14 HELIX 29 29 ASN C 891 GLU C 895 5 5 HELIX 30 30 THR C 933 ASN C 947 1 15 HELIX 31 31 GLU D 576 LEU D 588 1 13 HELIX 32 32 ASN D 606 SER D 617 1 12 HELIX 33 33 ARG D 620 LYS D 625 5 6 HELIX 34 34 VAL D 643 PHE D 656 1 14 HELIX 35 35 ASN D 657 GLY D 661 5 5 HELIX 36 36 ASN D 678 ASN D 683 1 6 HELIX 37 37 ASP D 685 HIS D 703 1 19 HELIX 38 38 ILE D 712 LEU D 720 1 9 HELIX 39 39 ASP D 728 ASP D 733 1 6 HELIX 40 40 ASP D 733 ASN D 746 1 14 HELIX 41 41 PRO D 748 ASP D 752 5 5 HELIX 42 42 ASN D 773 ILE D 777 5 5 HELIX 43 43 ASN D 783 VAL D 797 1 15 HELIX 44 44 VAL D 800 THR D 812 1 13 HELIX 45 45 PRO D 816 LYS D 821 1 6 HELIX 46 46 ASP D 824 CYS D 833 1 10 HELIX 47 47 ASP D 839 HIS D 846 1 8 HELIX 48 48 HIS D 857 MET D 870 1 14 HELIX 49 49 ASP D 871 GLY D 884 1 14 HELIX 50 50 GLY D 892 GLU D 895 5 4 HELIX 51 51 THR D 933 GLU D 946 1 14 HELIX 52 52 THR X 22 GLU X 34 1 13 HELIX 53 53 PRO X 37 ASP X 39 5 3 HELIX 54 54 THR Y 22 GLY Y 35 1 14 HELIX 55 55 PRO Y 37 GLN Y 41 5 5 SHEET 1 A 4 CYS A 21 PRO A 25 0 SHEET 2 A 4 HIS A 32 MET A 38 -1 O THR A 36 N SER A 22 SHEET 3 A 4 VAL A 49 HIS A 55 -1 O LEU A 52 N ALA A 35 SHEET 4 A 4 LYS A 66 PHE A 69 -1 O LYS A 66 N HIS A 55 SHEET 1 B 4 CYS B 21 PRO B 25 0 SHEET 2 B 4 HIS B 32 MET B 38 -1 O GLN B 34 N GLY B 24 SHEET 3 B 4 VAL B 49 HIS B 55 -1 O ILE B 54 N TRP B 33 SHEET 4 B 4 LYS B 66 PHE B 69 -1 O ALA B 68 N THR B 53 SHEET 1 C 2 ARG C 597 LYS C 601 0 SHEET 2 C 2 ARG C 627 GLU C 631 1 O ARG C 627 N PHE C 598 SHEET 1 D 3 PHE C 663 TYR C 665 0 SHEET 2 D 3 THR C 672 ILE C 675 -1 O GLN C 674 N GLU C 664 SHEET 3 D 3 PHE C 710 PHE C 711 1 O PHE C 710 N LEU C 673 SHEET 1 E 2 CYS C 756 ASN C 761 0 SHEET 2 E 2 GLN C 764 ASP C 769 -1 O VAL C 768 N ILE C 757 SHEET 1 F 4 SER C 847 LYS C 850 0 SHEET 2 F 4 PHE C 905 GLN C 909 1 O PHE C 905 N ILE C 848 SHEET 3 F 4 ARG C 925 LEU C 928 1 O LEU C 926 N GLU C 908 SHEET 4 F 4 ARG C 918 HIS C 920 -1 N ARG C 918 O ASP C 927 SHEET 1 G 2 TYR C 897 GLY C 898 0 SHEET 2 G 2 GLY C 901 PRO C 902 -1 O GLY C 901 N GLY C 898 SHEET 1 H 3 ARG D 597 HIS D 603 0 SHEET 2 H 3 ARG D 627 GLU D 633 1 O GLU D 631 N MET D 600 SHEET 3 H 3 ASP D 639 GLY D 641 -1 O TYR D 640 N PHE D 632 SHEET 1 I 2 PHE D 663 TYR D 665 0 SHEET 2 I 2 LEU D 673 ILE D 675 -1 O GLN D 674 N GLU D 664 SHEET 1 J 2 CYS D 756 ASN D 761 0 SHEET 2 J 2 GLN D 764 ASP D 769 -1 O TYR D 766 N GLU D 759 SHEET 1 K 4 SER D 847 LYS D 850 0 SHEET 2 K 4 PHE D 905 GLN D 909 1 O PHE D 905 N ILE D 848 SHEET 3 K 4 ARG D 925 LEU D 928 1 O LEU D 926 N THR D 906 SHEET 4 K 4 ARG D 918 HIS D 920 -1 N ARG D 918 O ASP D 927 SHEET 1 L 2 TYR D 897 GLY D 898 0 SHEET 2 L 2 GLY D 901 PRO D 902 -1 O GLY D 901 N GLY D 898 SHEET 1 M 5 LEU X 15 GLU X 16 0 SHEET 2 M 5 GLN X 2 THR X 7 -1 N ILE X 3 O LEU X 15 SHEET 3 M 5 THR X 66 LEU X 71 1 O LEU X 67 N PHE X 4 SHEET 4 M 5 GLN X 41 PHE X 45 -1 N ARG X 42 O VAL X 70 SHEET 5 M 5 LYS X 48 GLN X 49 -1 O LYS X 48 N PHE X 45 SHEET 1 N 5 THR Y 12 GLU Y 16 0 SHEET 2 N 5 GLN Y 2 LYS Y 6 -1 N ILE Y 3 O LEU Y 15 SHEET 3 N 5 THR Y 66 LEU Y 69 1 O LEU Y 67 N PHE Y 4 SHEET 4 N 5 LEU Y 43 PHE Y 45 -1 N ILE Y 44 O HIS Y 68 SHEET 5 N 5 LYS Y 48 GLN Y 49 -1 O LYS Y 48 N PHE Y 45 LINK OG SER A 85 C GLY X 76 1555 1555 1.36 LINK OG SER B 85 C GLY Y 76 1555 1555 1.36 CISPEP 1 TYR A 60 PRO A 61 0 -0.10 CISPEP 2 TYR B 60 PRO B 61 0 3.04 CRYST1 174.167 200.571 109.820 90.00 90.00 90.00 C 2 2 21 16 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 0.005742 0.000000 0.000000 0.00000 SCALE2 0.000000 0.004986 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009106 0.00000