HEADER LIGASE 24-JUN-13 2M9Y TITLE SOLUTION STRUCTURE OF THE CATALYTIC DOMAIN OF HHARI COMPND MOL_ID: 1; COMPND 2 MOLECULE: E3 UBIQUITIN-PROTEIN LIGASE ARIH1; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: CATALYTIC DOMAIN (UNP RESIDUES 325-396); COMPND 5 SYNONYM: H7-AP2, HHARI, MONOCYTE PROTEIN 6, MOP-6, PROTEIN ARIADNE-1 COMPND 6 HOMOLOG, ARI-1, UBCH7-BINDING PROTEIN, UBCM4-INTERACTING PROTEIN, COMPND 7 UBIQUITIN-CONJUGATING ENZYME E2-BINDING PROTEIN 1; COMPND 8 EC: 6.3.2.-; COMPND 9 ENGINEERED: YES; COMPND 10 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: ARIH1, ARI, MOP6, UBCH7BP, HUSSY-27; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)-RIL; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PGEX-6P-2 KEYWDS HHARI, RING2, E3 LIGASE, ZN-BINDING, LIGASE EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR P.MERCIER,D.E.SPRATT,G.S.SHAW REVDAT 3 15-MAY-24 2M9Y 1 REMARK REVDAT 2 14-JUN-23 2M9Y 1 REMARK SEQADV LINK REVDAT 1 13-NOV-13 2M9Y 0 JRNL AUTH D.E.SPRATT,P.MERCIER,G.S.SHAW JRNL TITL STRUCTURE OF THE HHARI CATALYTIC DOMAIN SHOWS GLIMPSES OF A JRNL TITL 2 HECT E3 LIGASE. JRNL REF PLOS ONE V. 8 74047 2013 JRNL REFN ESSN 1932-6203 JRNL PMID 24058416 JRNL DOI 10.1371/JOURNAL.PONE.0074047 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : VNMRJ VARIAN VNMRJ 2.2D, X-PLOR NIH 2.33 REMARK 3 AUTHORS : VARIAN (VNMRJ), SCHWIETERS, KUSZEWSKI, TJANDRA AND REMARK 3 CLORE (X-PLOR NIH) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: WITH EXPLICIT SOLVENT AND FULL REMARK 3 ELECTROSTATICS, WITH EXPLICIT SOLVENT AND FULL ELECTROSTATICS REMARK 4 REMARK 4 2M9Y COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 26-JUN-13. REMARK 100 THE DEPOSITION ID IS D_1000103394. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 6.5 REMARK 210 IONIC STRENGTH : 0.12 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 20 MM MES, 120 MM SODIUM REMARK 210 CHLORIDE, 5 MM DTT, 2.3 MM [U-98% REMARK 210 15N] PROTEIN, 90% H2O/10% D2O; REMARK 210 20 MM MES, 120 MM SODIUM REMARK 210 CHLORIDE, 5 MM DTT, 2.3 MM [U-98% REMARK 210 13C; U-98% 15N] PROTEIN, 100% REMARK 210 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 1H-15N NOESY; 3D 1H- REMARK 210 13C NOESY ALIPHATIC; 3D 1H-13C REMARK 210 NOESY AROMATIC; 3D HNCACB; 3D REMARK 210 CBCA(CO)NH; 2D (HB)CB(CGCD)HD; REMARK 210 2D (HB)CB(CGCDCE)HE; 2D HCN REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : INOVA REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NMRPIPE 2013.021.23.09, NMRDRAW REMARK 210 VER 7.9 REV 2013.021.23.09, REMARK 210 NMRVIEW 9.0.0BETA76, CYANA 2.1, REMARK 210 PROCHECK 3.5.4 REMARK 210 METHOD USED : SIMULATED ANNEALING, TORSION REMARK 210 ANGLE DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 20 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 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 LYS A 326 -148.49 -108.13 REMARK 500 1 ALA A 339 12.29 -149.87 REMARK 500 1 ILE A 351 -168.50 -115.63 REMARK 500 1 CYS A 367 -79.39 -142.62 REMARK 500 1 TRP A 386 -24.47 176.05 REMARK 500 2 CYS A 367 -78.69 -135.87 REMARK 500 3 SER A 324 143.11 -170.77 REMARK 500 3 ALA A 339 12.28 -149.58 REMARK 500 3 ILE A 351 -162.76 -105.33 REMARK 500 3 CYS A 367 -79.51 -143.87 REMARK 500 3 ALA A 385 -154.76 -146.40 REMARK 500 4 SER A 334 26.70 -76.87 REMARK 500 4 ALA A 339 16.04 -145.25 REMARK 500 4 HIS A 348 67.12 60.59 REMARK 500 4 ILE A 351 -165.65 -109.16 REMARK 500 4 HIS A 359 82.90 -68.99 REMARK 500 4 CYS A 367 -75.93 -134.87 REMARK 500 4 ALA A 385 -164.65 -160.32 REMARK 500 5 LYS A 325 -17.11 -151.40 REMARK 500 5 GLU A 332 51.38 -92.29 REMARK 500 5 ALA A 339 14.54 -141.77 REMARK 500 5 ILE A 351 -167.27 -106.44 REMARK 500 5 ASN A 358 -38.97 75.23 REMARK 500 5 CYS A 367 -78.10 -142.63 REMARK 500 5 PRO A 381 21.70 -72.86 REMARK 500 5 ASN A 390 32.65 -85.58 REMARK 500 6 GLU A 332 25.61 48.83 REMARK 500 6 ALA A 339 13.30 -140.68 REMARK 500 6 CYS A 367 -77.26 -141.61 REMARK 500 6 ASN A 388 -77.92 -105.31 REMARK 500 6 CYS A 389 -2.63 69.51 REMARK 500 7 ASP A 329 -158.54 -122.64 REMARK 500 7 HIS A 348 61.62 61.36 REMARK 500 7 ILE A 351 -164.15 -112.73 REMARK 500 7 ASN A 358 -7.14 78.65 REMARK 500 7 HIS A 359 88.08 -67.49 REMARK 500 7 CYS A 367 -73.15 -141.20 REMARK 500 7 PRO A 381 -139.69 -70.84 REMARK 500 7 HIS A 382 104.89 74.58 REMARK 500 7 ASN A 390 44.37 -87.35 REMARK 500 8 GLU A 332 23.57 46.62 REMARK 500 8 SER A 334 30.58 -75.72 REMARK 500 8 ALA A 339 15.73 -148.89 REMARK 500 8 ILE A 351 -164.25 -108.30 REMARK 500 8 HIS A 359 88.79 -61.00 REMARK 500 8 CYS A 367 -78.31 -140.69 REMARK 500 8 ASN A 390 45.18 -91.78 REMARK 500 9 SER A 331 48.73 -94.37 REMARK 500 9 HIS A 348 68.14 62.85 REMARK 500 9 ILE A 351 -160.84 -104.55 REMARK 500 REMARK 500 THIS ENTRY HAS 119 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 A 401 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 344 SG REMARK 620 2 CYS A 347 SG 106.7 REMARK 620 3 CYS A 362 SG 114.6 105.8 REMARK 620 4 CYS A 367 SG 115.1 106.8 107.2 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 402 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 372 SG REMARK 620 2 CYS A 375 SG 113.6 REMARK 620 3 HIS A 382 NE2 99.5 104.3 REMARK 620 4 CYS A 389 SG 118.9 112.5 105.5 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 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 402 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 19315 RELATED DB: BMRB DBREF 2M9Y A 325 396 UNP Q9Y4X5 ARI1_HUMAN 325 396 SEQADV 2M9Y GLY A 323 UNP Q9Y4X5 EXPRESSION TAG SEQADV 2M9Y SER A 324 UNP Q9Y4X5 EXPRESSION TAG SEQADV 2M9Y SER A 357 UNP Q9Y4X5 CYS 357 ENGINEERED MUTATION SEQRES 1 A 74 GLY SER LYS LYS CYS ASP ASP ASP SER GLU THR SER ASN SEQRES 2 A 74 TRP ILE ALA ALA ASN THR LYS GLU CYS PRO LYS CYS HIS SEQRES 3 A 74 VAL THR ILE GLU LYS ASP GLY GLY SER ASN HIS MET VAL SEQRES 4 A 74 CYS ARG ASN GLN ASN CYS LYS ALA GLU PHE CYS TRP VAL SEQRES 5 A 74 CYS LEU GLY PRO TRP GLU PRO HIS GLY SER ALA TRP TYR SEQRES 6 A 74 ASN CYS ASN ARG TYR ASN GLU ASP ASP HET ZN A 401 1 HET ZN A 402 1 HETNAM ZN ZINC ION FORMUL 2 ZN 2(ZN 2+) HELIX 1 1 TRP A 336 THR A 341 1 6 HELIX 2 2 TRP A 379 GLY A 383 1 5 SHEET 1 A 3 HIS A 359 VAL A 361 0 SHEET 2 A 3 GLU A 370 CYS A 372 -1 O PHE A 371 N MET A 360 SHEET 3 A 3 GLY A 377 PRO A 378 -1 O GLY A 377 N CYS A 372 LINK SG CYS A 344 ZN ZN A 401 1555 1555 2.24 LINK SG CYS A 347 ZN ZN A 401 1555 1555 2.24 LINK SG CYS A 362 ZN ZN A 401 1555 1555 2.25 LINK SG CYS A 367 ZN ZN A 401 1555 1555 2.29 LINK SG CYS A 372 ZN ZN A 402 1555 1555 2.22 LINK SG CYS A 375 ZN ZN A 402 1555 1555 2.21 LINK NE2 HIS A 382 ZN ZN A 402 1555 1555 2.21 LINK SG CYS A 389 ZN ZN A 402 1555 1555 2.22 SITE 1 AC1 4 CYS A 344 CYS A 347 CYS A 362 CYS A 367 SITE 1 AC2 4 CYS A 372 CYS A 375 HIS A 382 CYS A 389 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