PDB Short entry for 1BOR HEADER TRANSCRIPTION REGULATION 27-SEP-95 1BOR TITLE TRANSCRIPTION FACTOR PML, A PROTO-ONCOPROTEIN, NMR, 1 REPRESENTATIVE TITLE 2 STRUCTURE AT PH 7.5, 30 C, IN THE PRESENCE OF ZINC COMPND MOL_ID: 1; COMPND 2 MOLECULE: TRANSCRIPTION FACTOR PML; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: RING FINGER DOMAIN, RESIDUES 49 - 104; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606 KEYWDS PROTO-ONCOGENE, NUCLEAR BODIES (PODS), LEUKEMIA, TRANSCRIPTION KEYWDS 2 REGULATION EXPDTA SOLUTION NMR AUTHOR K.L.B.BORDEN,P.S.FREEMONT REVDAT 4 16-FEB-22 1BOR 1 REMARK LINK REVDAT 3 24-FEB-09 1BOR 1 VERSN REVDAT 2 01-APR-03 1BOR 1 JRNL REVDAT 1 01-APR-97 1BOR 0 JRNL AUTH K.L.BORDEN,M.N.BODDY,J.LALLY,N.J.O'REILLY,S.MARTIN,K.HOWE, JRNL AUTH 2 E.SOLOMON,P.S.FREEMONT JRNL TITL THE SOLUTION STRUCTURE OF THE RING FINGER DOMAIN FROM THE JRNL TITL 2 ACUTE PROMYELOCYTIC LEUKAEMIA PROTO-ONCOPROTEIN PML. JRNL REF EMBO J. V. 14 1532 1995 JRNL REFN ISSN 0261-4189 JRNL PMID 7729428 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH P.S.FREEMONT REMARK 1 TITL THE RING FINGER. A NOVEL PROTEIN SEQUENCE MOTIF RELATED TO REMARK 1 TITL 2 THE ZINC FINGER REMARK 1 REF ANN.N.Y.ACAD.SCI. V. 684 174 1993 REMARK 1 REFN ISSN 0077-8923 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : NULL REMARK 3 AUTHORS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1BOR COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY BNL. REMARK 100 THE DEPOSITION ID IS D_1000171968. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 303 REMARK 210 PH : 7.5 REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : NULL REMARK 210 SAMPLE CONTENTS : NULL REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : NULL REMARK 210 SPECTROMETER FIELD STRENGTH : NULL REMARK 210 SPECTROMETER MODEL : NULL REMARK 210 SPECTROMETER MANUFACTURER : NULL REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NULL REMARK 210 METHOD USED : NULL REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : NULL REMARK 210 CONFORMERS, NUMBER SUBMITTED : 1 REMARK 210 CONFORMERS, SELECTION CRITERIA : REPRESENTATIVE STRUCTURE REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : NULL 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 GLU A 3 -94.90 59.69 REMARK 500 GLN A 5 15.96 -157.18 REMARK 500 LEU A 7 23.29 -160.86 REMARK 500 ARG A 8 -75.51 -127.31 REMARK 500 ALA A 14 -63.93 -126.32 REMARK 500 GLU A 15 86.24 -150.02 REMARK 500 ALA A 16 99.55 21.27 REMARK 500 LYS A 20 154.15 -47.49 REMARK 500 LEU A 21 160.40 -38.65 REMARK 500 CYS A 24 63.16 -113.94 REMARK 500 LEU A 25 57.24 27.22 REMARK 500 LEU A 28 -109.66 -81.31 REMARK 500 SER A 30 89.52 -51.79 REMARK 500 GLU A 34 65.00 -169.18 REMARK 500 ALA A 35 25.50 47.55 REMARK 500 GLN A 39 65.66 132.22 REMARK 500 ILE A 42 38.28 30.91 REMARK 500 CYS A 43 -78.52 -38.28 REMARK 500 GLN A 44 71.89 24.10 REMARK 500 ALA A 45 -64.39 -171.14 REMARK 500 ALA A 51 -99.99 -100.22 REMARK 500 ALA A 55 -178.38 74.15 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 ARG A 8 0.18 SIDE CHAIN 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 57 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 9 SG REMARK 620 2 CYS A 12 SG 106.6 REMARK 620 3 CYS A 29 SG 110.5 112.1 REMARK 620 4 CYS A 32 SG 108.5 109.8 109.2 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 58 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 24 SG REMARK 620 2 CYS A 24 O 64.8 REMARK 620 3 HIS A 26 ND1 106.9 88.8 REMARK 620 4 CYS A 40 SG 112.5 64.8 113.9 REMARK 620 5 CYS A 43 SG 111.3 170.4 100.8 110.9 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: ZN1 REMARK 800 EVIDENCE_CODE: UNKNOWN REMARK 800 SITE_DESCRIPTION: FIRST ZINC BINDING SITE. REMARK 800 REMARK 800 SITE_IDENTIFIER: ZN2 REMARK 800 EVIDENCE_CODE: UNKNOWN REMARK 800 SITE_DESCRIPTION: SECOND ZINC BINDING SITE. REMARK 800 REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 57 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 58 DBREF 1BOR A 1 56 UNP P29590 PML_HUMAN 49 104 SEQRES 1 A 56 GLU GLU GLU PHE GLN PHE LEU ARG CYS GLN GLN CYS GLN SEQRES 2 A 56 ALA GLU ALA LYS CYS PRO LYS LEU LEU PRO CYS LEU HIS SEQRES 3 A 56 THR LEU CYS SER GLY CYS LEU GLU ALA SER GLY MET GLN SEQRES 4 A 56 CYS PRO ILE CYS GLN ALA PRO TRP PRO LEU GLY ALA ASP SEQRES 5 A 56 THR PRO ALA LEU HET ZN A 57 1 HET ZN A 58 1 HETNAM ZN ZINC ION FORMUL 2 ZN 2(ZN 2+) HELIX 1 1 GLU A 34 MET A 38 1RIGHT-HANDED 5 HELIX 2 1 ALA A 45 PRO A 48 5RIGHT-HANDED 3/10 4 SHEET 1 B1 4 GLN A 5 ARG A 8 0 SHEET 2 B1 4 PRO A 19 LEU A 21 -1 SHEET 3 B1 4 HIS A 26 LEU A 28 -1 SHEET 4 B1 4 THR A 53 LEU A 56 1 LINK SG CYS A 9 ZN ZN A 57 1555 1555 2.30 LINK SG CYS A 12 ZN ZN A 57 1555 1555 2.29 LINK SG CYS A 24 ZN ZN A 58 1555 1555 2.26 LINK O CYS A 24 ZN ZN A 58 1555 1555 2.67 LINK ND1 HIS A 26 ZN ZN A 58 1555 1555 1.93 LINK SG CYS A 29 ZN ZN A 57 1555 1555 2.28 LINK SG CYS A 32 ZN ZN A 57 1555 1555 2.30 LINK SG CYS A 40 ZN ZN A 58 1555 1555 2.27 LINK SG CYS A 43 ZN ZN A 58 1555 1555 2.29 SITE 1 ZN1 5 CYS A 9 CYS A 12 CYS A 29 CYS A 32 SITE 2 ZN1 5 ZN A 57 SITE 1 ZN2 5 HIS A 26 CYS A 24 CYS A 40 CYS A 43 SITE 2 ZN2 5 ZN A 58 SITE 1 AC1 4 CYS A 9 CYS A 12 CYS A 29 CYS A 32 SITE 1 AC2 5 LYS A 20 CYS A 24 HIS A 26 CYS A 40 SITE 2 AC2 5 CYS A 43 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