HEADER TRANSCRIPTION 02-SEP-13 2MD7 TITLE NMR STRUCTURE OF HUMAN SP140 PHD FINGER TRANS CONFORMER COMPND MOL_ID: 1; COMPND 2 MOLECULE: NUCLEAR BODY PROTEIN SP140; COMPND 3 CHAIN: B; COMPND 4 FRAGMENT: UNP RESIDUES 687-738; COMPND 5 SYNONYM: LYMPHOID-RESTRICTED HOMOLOG OF SP100, LYSP100, NUCLEAR COMPND 6 AUTOANTIGEN SP-140, SPECKLED 140 KDA; COMPND 7 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: SP140, LYSP100; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PETM11 KEYWDS PHD FINGER, TRANSCRIPTION EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR C.ZUCCHELLI,G.QUILICI,G.MUSCO REVDAT 3 14-JUN-23 2MD7 1 REMARK SEQADV LINK REVDAT 2 22-JAN-14 2MD7 1 JRNL REVDAT 1 13-NOV-13 2MD7 0 JRNL AUTH C.ZUCCHELLI,S.TAMBURRI,G.QUILICI,E.PALAGANO,A.BERARDI, JRNL AUTH 2 M.SAARE,P.PETERSON,A.BACHI,G.MUSCO JRNL TITL STRUCTURE OF HUMAN SP140 PHD FINGER: AN ATYPICAL FOLD JRNL TITL 2 INTERACTING WITH PIN1. JRNL REF FEBS J. V. 281 216 2014 JRNL REFN ISSN 1742-464X JRNL PMID 24267382 JRNL DOI 10.1111/FEBS.12588 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : TOPSPIN, ARIA, PROCHECKNMR REMARK 3 AUTHORS : BRUKER BIOSPIN (TOPSPIN), LINGE, O'DONOGHUE AND REMARK 3 NILGES (ARIA), LASKOWSKI AND MACARTHUR REMARK 3 (PROCHECKNMR) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2MD7 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 13-SEP-13. REMARK 100 THE DEPOSITION ID IS D_1000103497. 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 : NULL REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1 MM [U-100% 13C; U-100% 15N] REMARK 210 SP140 PHD FINGER TRANS CONFORMER, REMARK 210 50 UM ZINC ION, 0.3 MM DSS, 5 REMARK 210 MM DTT, 20 MM SODIUM PHOSPHATE REMARK 210 PH 6.3, 150 MM NACL, 90% H2O/10% REMARK 210 D2O; 1 MM [U-100% 13C; U-100% REMARK 210 15N] SP140 PHD FINGER TRANS REMARK 210 CONFORMER, 50 UM ZINC ION, 0.3 REMARK 210 MM DSS, 5 MM DTT, 20 MM SODIUM REMARK 210 PHOSPHATE PH 6.3, 150 MM NACL, REMARK 210 100% D2O; 0.8 MM [U-100% 15N] REMARK 210 SP140 PHD FINGER TRANS CONFORMER, REMARK 210 50 UM ZINC ION, 0.3 MM DSS, 5 REMARK 210 MM DTT, 20 MM SODIUM PHOSPHATE REMARK 210 PH 6.3, 150 MM NACL, 90% H2O/10% REMARK 210 D2O; 1 MM SP140 PHD FINGER TRANS REMARK 210 CONFORMER, 50 UM ZINC ION, 0.3 REMARK 210 MM DSS, 5 MM DTT, 20 MM SODIUM REMARK 210 PHOSPHATE PH 6.3, 150 MM NACL, REMARK 210 100% D2O; 1 MM SP140 PHD FINGER REMARK 210 TRANS CONFORMER, 50 UM ZINC ION, REMARK 210 0.3 MM DSS, 5 MM DTT, 20 MM REMARK 210 SODIUM PHOSPHATE PH 6.3, 150 MM REMARK 210 NACL, 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 2D 1H-13C HSQC; REMARK 210 2D 1H-1H TOCSY; 2D 1H-1H NOESY; REMARK 210 3D CBCA(CO)NH; 3D C(CO)NH; 3D REMARK 210 HNCO; 3D HNCA; 3D HNCACB; 3D REMARK 210 H(CCO)NH; 3D HCCH-TOCSY; 3D HNHA; REMARK 210 3D 1H-15N NOESY; 3D 1H-13C REMARK 210 NOESY ALIPHATIC; 3D 1H-13C NOESY REMARK 210 AROMATIC REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ; 900 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : TOPSPIN, NMRPIPE, ARIA REMARK 210 METHOD USED : SIMULATED ANNEALING, DISTANCE REMARK 210 GEOMETRY 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: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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: 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 B 40 62.81 -104.18 REMARK 500 1 ALA B 41 -75.80 -162.64 REMARK 500 2 MET B 3 77.13 -170.00 REMARK 500 2 ALA B 41 -39.43 179.40 REMARK 500 2 GLU B 42 81.46 -152.43 REMARK 500 2 TRP B 46 40.64 -89.82 REMARK 500 3 MET B 3 55.27 -140.83 REMARK 500 3 CYS B 11 98.92 -68.56 REMARK 500 3 GLU B 40 -70.38 -155.59 REMARK 500 4 ALA B 2 45.83 -144.29 REMARK 500 4 MET B 3 31.53 -147.23 REMARK 500 4 GLU B 42 114.13 -167.63 REMARK 500 5 ALA B 2 24.45 -153.23 REMARK 500 5 LEU B 8 25.70 -140.52 REMARK 500 5 PHE B 30 50.65 -118.68 REMARK 500 5 GLU B 40 -43.75 -144.47 REMARK 500 5 ALA B 41 -70.43 -101.41 REMARK 500 6 MET B 3 82.16 -157.04 REMARK 500 6 VAL B 39 93.23 -66.16 REMARK 500 6 ALA B 41 118.78 -161.60 REMARK 500 7 LYS B 54 49.86 -106.65 REMARK 500 8 MET B 5 62.05 -118.28 REMARK 500 8 ARG B 6 51.45 -118.15 REMARK 500 8 ALA B 41 -63.17 -170.10 REMARK 500 8 LYS B 54 94.51 -67.06 REMARK 500 9 MET B 3 13.04 -152.63 REMARK 500 9 ARG B 6 92.62 59.36 REMARK 500 9 LYS B 54 88.83 58.71 REMARK 500 10 ASN B 7 96.15 -69.26 REMARK 500 10 GLU B 40 -50.66 -138.59 REMARK 500 10 GLU B 42 -152.72 -167.59 REMARK 500 10 ARG B 43 131.16 78.74 REMARK 500 10 LYS B 54 79.92 -109.85 REMARK 500 11 ALA B 2 53.57 -140.48 REMARK 500 11 MET B 3 62.86 66.85 REMARK 500 11 MET B 5 -71.01 -116.91 REMARK 500 11 ARG B 6 64.13 -112.32 REMARK 500 11 LEU B 8 -171.49 66.19 REMARK 500 11 GLU B 10 32.58 79.69 REMARK 500 11 ALA B 41 -69.06 -124.73 REMARK 500 11 LYS B 54 59.78 -110.42 REMARK 500 11 GLU B 55 57.70 -109.29 REMARK 500 12 MET B 3 53.93 -148.98 REMARK 500 12 ARG B 6 33.88 -90.43 REMARK 500 12 ALA B 41 -37.32 -176.59 REMARK 500 12 GLU B 42 46.13 -99.29 REMARK 500 13 PHE B 21 42.50 -106.95 REMARK 500 13 GLU B 40 -48.61 -141.67 REMARK 500 13 ALA B 41 -47.09 -142.00 REMARK 500 14 ARG B 6 72.04 58.14 REMARK 500 REMARK 500 THIS ENTRY HAS 76 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 B 102 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 11 SG REMARK 620 2 CYS B 14 SG 108.5 REMARK 620 3 HIS B 31 NE2 108.3 109.6 REMARK 620 4 HIS B 35 NE2 111.1 109.9 109.4 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 101 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 23 SG REMARK 620 2 CYS B 26 SG 107.2 REMARK 620 3 CYS B 48 SG 111.1 106.7 REMARK 620 4 CYS B 51 SG 111.3 109.2 111.1 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 B 101 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 102 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2MD8 RELATED DB: PDB REMARK 900 RELATED ID: 19472 RELATED DB: BMRB DBREF 2MD7 B 5 56 UNP Q13342 SP140_HUMAN 687 738 SEQADV 2MD7 GLY B 1 UNP Q13342 EXPRESSION TAG SEQADV 2MD7 ALA B 2 UNP Q13342 EXPRESSION TAG SEQADV 2MD7 MET B 3 UNP Q13342 EXPRESSION TAG SEQADV 2MD7 GLY B 4 UNP Q13342 EXPRESSION TAG SEQRES 1 B 56 GLY ALA MET GLY MET ARG ASN LEU ASP GLU CYS GLU VAL SEQRES 2 B 56 CYS ARG ASP GLY GLY GLU LEU PHE CYS CYS ASP THR CYS SEQRES 3 B 56 SER ARG VAL PHE HIS GLU ASP CYS HIS ILE PRO PRO VAL SEQRES 4 B 56 GLU ALA GLU ARG THR PRO TRP ASN CYS ILE PHE CYS ARG SEQRES 5 B 56 MET LYS GLU SER HET ZN B 101 1 HET ZN B 102 1 HETNAM ZN ZINC ION FORMUL 2 ZN 2(ZN 2+) HELIX 1 1 CYS B 11 ASP B 16 1 6 HELIX 2 2 CYS B 23 HIS B 31 1 9 HELIX 3 3 GLU B 32 ILE B 36 5 5 HELIX 4 4 CYS B 48 LYS B 54 1 7 SSBOND 1 CYS B 22 CYS B 34 1555 1555 2.03 LINK SG CYS B 11 ZN ZN B 102 1555 1555 2.30 LINK SG CYS B 14 ZN ZN B 102 1555 1555 2.29 LINK SG CYS B 23 ZN ZN B 101 1555 1555 2.30 LINK SG CYS B 26 ZN ZN B 101 1555 1555 2.29 LINK NE2 HIS B 31 ZN ZN B 102 1555 1555 2.00 LINK NE2 HIS B 35 ZN ZN B 102 1555 1555 2.00 LINK SG CYS B 48 ZN ZN B 101 1555 1555 2.30 LINK SG CYS B 51 ZN ZN B 101 1555 1555 2.30 CISPEP 1 ILE B 36 PRO B 37 1 -6.32 CISPEP 2 ILE B 36 PRO B 37 2 -6.92 CISPEP 3 ILE B 36 PRO B 37 3 0.54 CISPEP 4 ILE B 36 PRO B 37 4 -1.46 CISPEP 5 ILE B 36 PRO B 37 5 -1.97 CISPEP 6 ILE B 36 PRO B 37 6 -1.69 CISPEP 7 ILE B 36 PRO B 37 7 -5.11 CISPEP 8 ILE B 36 PRO B 37 8 -0.22 CISPEP 9 ILE B 36 PRO B 37 9 -5.37 CISPEP 10 ILE B 36 PRO B 37 10 -1.36 CISPEP 11 ILE B 36 PRO B 37 11 -1.78 CISPEP 12 ILE B 36 PRO B 37 12 0.43 CISPEP 13 ILE B 36 PRO B 37 13 2.52 CISPEP 14 ILE B 36 PRO B 37 14 1.11 CISPEP 15 ILE B 36 PRO B 37 15 -2.04 CISPEP 16 ILE B 36 PRO B 37 16 -0.95 CISPEP 17 ILE B 36 PRO B 37 17 -5.19 CISPEP 18 ILE B 36 PRO B 37 18 -0.26 CISPEP 19 ILE B 36 PRO B 37 19 0.40 CISPEP 20 ILE B 36 PRO B 37 20 -2.96 SITE 1 AC1 4 CYS B 23 CYS B 26 CYS B 48 CYS B 51 SITE 1 AC2 4 CYS B 11 CYS B 14 HIS B 31 HIS B 35 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