HEADER LIGASE/DNA BINDING PROTEIN 26-JUL-11 2LGG TITLE STRUCTURE OF PHD DOMAIN OF UHRF1 IN COMPLEX WITH H3 PEPTIDE COMPND MOL_ID: 1; COMPND 2 MOLECULE: E3 UBIQUITIN-PROTEIN LIGASE UHRF1; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 298-366; COMPND 5 SYNONYM: INVERTED CCAAT BOX-BINDING PROTEIN OF 90 KDA, NUCLEAR COMPND 6 PROTEIN 95, NUCLEAR ZINC FINGER PROTEIN NP95, HUNP95, RING FINGER COMPND 7 PROTEIN 106, TRANSCRIPTION FACTOR ICBP90, UBIQUITIN-LIKE PHD AND RING COMPND 8 FINGER DOMAIN-CONTAINING PROTEIN 1, UBIQUITIN-LIKE-CONTAINING PHD AND COMPND 9 RING FINGER DOMAINS PROTEIN 1; COMPND 10 EC: 6.3.2.-; COMPND 11 ENGINEERED: YES; COMPND 12 MOL_ID: 2; COMPND 13 MOLECULE: HISTONE H3 PEPTIDE; COMPND 14 CHAIN: B; 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: UHRF1, ICBP90, NP95, RNF106; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_VECTOR: PETDUET; SOURCE 9 MOL_ID: 2; SOURCE 10 SYNTHETIC: YES; SOURCE 11 OTHER_DETAILS: THE PEPTIDE WAS CHEMICALLY SYNTHESIZED. KEYWDS DNA BINDING PROTEIN/GENE REGULATION, LIGASE-DNA BINDING PROTEIN KEYWDS 2 COMPLEX EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR C.WANG,J.SHEN,Z.YANG,P.CHEN,B.ZHAO,W.HU,W.LAN,X.TONG,H.WU,G.LI,C.CAO REVDAT 3 15-MAY-24 2LGG 1 REMARK REVDAT 2 14-JUN-23 2LGG 1 REMARK LINK REVDAT 1 28-SEP-11 2LGG 0 JRNL AUTH C.WANG,J.SHEN,Z.YANG,P.CHEN,B.ZHAO,W.HU,W.LAN,X.TONG,H.WU, JRNL AUTH 2 G.LI,C.CAO JRNL TITL STRUCTURAL BASIS FOR SITE-SPECIFIC READING OF UNMODIFIED R2 JRNL TITL 2 OF HISTONE H3 TAIL BY UHRF1 PHD FINGER. JRNL REF CELL RES. V. 21 1379 2011 JRNL REFN ISSN 1001-0602 JRNL PMID 21808299 JRNL DOI 10.1038/CR.2011.123 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR, X-PLOR REMARK 3 AUTHORS : DELAGLIO, ZHENGRONG AND BAX (X-PLOR), BRUNGER (X REMARK 3 -PLOR) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2LGG COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 10-AUG-11. REMARK 100 THE DEPOSITION ID IS D_1000102362. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 293 REMARK 210 PH : 7.4 REMARK 210 IONIC STRENGTH : 0.15 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1 MM [U-100% 13C; U-100% 15N] REMARK 210 ENTITY_1-1, 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 3D CBCA(CO)NH; REMARK 210 3D HNCO; 3D HNCACB; 3D HCCH- REMARK 210 TOCSY; 3D 1H-13C NOESY AROMATIC; REMARK 210 3D 1H-15N NOESY; 3D 1H-13C NOESY REMARK 210 ALIPHATIC 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 : NULL 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 : 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 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC 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 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 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 ALA A 330 -133.98 -131.88 REMARK 500 1 LYS A 342 39.01 -97.18 REMARK 500 1 SER A 363 34.62 30.31 REMARK 500 1 LYS B 386 77.85 47.52 REMARK 500 1 THR B 388 113.25 71.69 REMARK 500 2 CYS A 326 -159.56 -75.45 REMARK 500 2 ALA A 330 -94.21 -114.16 REMARK 500 2 LEU A 333 -74.56 -131.62 REMARK 500 2 ARG A 337 -31.43 -168.59 REMARK 500 2 ASP A 359 63.19 67.18 REMARK 500 2 SER A 363 35.01 32.39 REMARK 500 2 GLU A 370 84.44 -64.59 REMARK 500 2 CYS A 373 156.93 -48.81 REMARK 500 2 THR B 388 -168.11 42.27 REMARK 500 3 CYS A 315 94.74 38.08 REMARK 500 3 ASN A 323 63.39 -116.45 REMARK 500 3 ARG A 324 70.85 -173.64 REMARK 500 3 ALA A 330 -141.06 -92.51 REMARK 500 3 ASP A 339 55.98 166.78 REMARK 500 3 HIS A 354 16.12 -69.08 REMARK 500 3 SER A 363 31.76 32.22 REMARK 500 3 ASN A 378 -13.27 -46.37 REMARK 500 3 THR B 385 78.65 -164.58 REMARK 500 3 LYS B 391 -136.03 -130.88 REMARK 500 4 CYS A 315 75.82 46.27 REMARK 500 4 ASP A 320 53.42 82.95 REMARK 500 4 ALA A 330 -134.53 -120.27 REMARK 500 4 ASP A 350 22.57 -75.65 REMARK 500 4 ASP A 359 60.36 61.85 REMARK 500 4 PRO A 361 -17.19 -43.31 REMARK 500 4 SER A 363 33.69 -145.91 REMARK 500 4 PRO A 366 -87.85 -79.14 REMARK 500 4 SER A 367 10.75 46.52 REMARK 500 4 GLU A 370 88.67 -66.40 REMARK 500 4 CYS A 373 151.98 -42.22 REMARK 500 4 THR B 385 98.74 41.85 REMARK 500 4 LYS B 391 -129.77 -148.34 REMARK 500 5 HIS A 317 -27.01 84.99 REMARK 500 5 ASP A 320 54.59 79.74 REMARK 500 5 ALA A 330 -135.89 -112.55 REMARK 500 5 GLN A 338 -37.19 -158.85 REMARK 500 5 ASP A 339 50.03 -175.18 REMARK 500 5 ASP A 350 23.60 -74.36 REMARK 500 5 HIS A 354 17.12 -69.94 REMARK 500 5 SER A 363 23.18 37.69 REMARK 500 6 CYS A 315 68.76 -64.08 REMARK 500 6 ASP A 320 68.92 85.37 REMARK 500 6 ALA A 330 -131.97 -115.32 REMARK 500 6 ASP A 350 25.62 -70.91 REMARK 500 6 SER A 363 -18.75 -47.38 REMARK 500 REMARK 500 THIS ENTRY HAS 189 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 380 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 315 SG REMARK 620 2 CYS A 318 SG 102.2 REMARK 620 3 CYS A 326 SG 119.6 96.3 REMARK 620 4 CYS A 329 SG 109.5 113.8 114.1 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 381 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 331 SG REMARK 620 2 CYS A 334 SG 105.3 REMARK 620 3 HIS A 354 NE2 109.9 111.5 REMARK 620 4 CYS A 357 SG 110.2 111.1 108.8 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 382 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 346 SG REMARK 620 2 CYS A 349 SG 112.1 REMARK 620 3 CYS A 373 SG 114.4 108.1 REMARK 620 4 CYS A 376 SG 117.0 101.8 102.3 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 380 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 381 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 382 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 17808 RELATED DB: BMRB REMARK 900 RELATED ID: 2LGK RELATED DB: PDB REMARK 900 RELATED ID: 2LGL RELATED DB: PDB DBREF 2LGG A 311 379 UNP Q96T88 UHRF1_HUMAN 298 366 DBREF 2LGG B 383 394 PDB 2LGG 2LGG 383 394 SEQRES 1 A 69 SER GLY PRO SER CYS LYS HIS CYS LYS ASP ASP VAL ASN SEQRES 2 A 69 ARG LEU CYS ARG VAL CYS ALA CYS HIS LEU CYS GLY GLY SEQRES 3 A 69 ARG GLN ASP PRO ASP LYS GLN LEU MET CYS ASP GLU CYS SEQRES 4 A 69 ASP MET ALA PHE HIS ILE TYR CYS LEU ASP PRO PRO LEU SEQRES 5 A 69 SER SER VAL PRO SER GLU ASP GLU TRP TYR CYS PRO GLU SEQRES 6 A 69 CYS ARG ASN ASP SEQRES 1 B 12 ALA ARG THR LYS GLN THR ALA ARG LYS SER THR GLY HET ZN A 380 1 HET ZN A 381 1 HET ZN A 382 1 HETNAM ZN ZINC ION FORMUL 3 ZN 3(ZN 2+) HELIX 1 1 ASP A 339 GLN A 343 5 5 HELIX 2 2 HIS A 354 ASP A 359 1 6 HELIX 3 3 VAL A 365 ASP A 369 5 5 HELIX 4 4 CYS A 373 ASN A 378 1 6 LINK SG CYS A 315 ZN ZN A 380 1555 1555 2.30 LINK SG CYS A 318 ZN ZN A 380 1555 1555 2.28 LINK SG CYS A 326 ZN ZN A 380 1555 1555 2.29 LINK SG CYS A 329 ZN ZN A 380 1555 1555 2.30 LINK SG CYS A 331 ZN ZN A 381 1555 1555 2.30 LINK SG CYS A 334 ZN ZN A 381 1555 1555 2.31 LINK SG CYS A 346 ZN ZN A 382 1555 1555 2.32 LINK SG CYS A 349 ZN ZN A 382 1555 1555 2.30 LINK NE2 HIS A 354 ZN ZN A 381 1555 1555 2.00 LINK SG CYS A 357 ZN ZN A 381 1555 1555 2.31 LINK SG CYS A 373 ZN ZN A 382 1555 1555 2.29 LINK SG CYS A 376 ZN ZN A 382 1555 1555 2.31 SITE 1 AC1 6 CYS A 315 CYS A 318 ASP A 320 CYS A 326 SITE 2 AC1 6 VAL A 328 CYS A 329 SITE 1 AC2 5 CYS A 331 CYS A 334 GLN A 338 HIS A 354 SITE 2 AC2 5 CYS A 357 SITE 1 AC3 5 CYS A 346 GLU A 348 CYS A 349 CYS A 373 SITE 2 AC3 5 CYS A 376 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