HEADER TRANSCRIPTION, PROTEIN BINDING 29-JUN-09 2KKR TITLE SOLUTION STRUCTURE OF SCA7 ZINC FINGER DOMAIN FROM HUMAN ATAXIN-7 TITLE 2 PROTEIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: ATAXIN-7; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: RESIDUES 339-397; COMPND 5 SYNONYM: SPINOCEREBELLAR ATAXIA TYPE 7 PROTEIN; COMPND 6 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: ATXN7, SCA7; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PGEX-4T1 KEYWDS STRUCTURAL GENOMICS, STRUCTURAL PROTEOMICS IN EUROPE, ZINC FINGER, KEYWDS 2 SPINE, TRANSCRIPTION, PROTEIN BINDING EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR Y.WANG,A.R.ATKINSON,J.BONNET,C.ROMIER,B.KIEFFER,STRUCTURAL PROTEOMICS AUTHOR 2 IN EUROPE (SPINE) REVDAT 3 01-MAY-24 2KKR 1 REMARK REVDAT 2 26-FEB-20 2KKR 1 REMARK SEQADV REVDAT 1 09-JUN-10 2KKR 0 JRNL AUTH J.BONNET,Y.WANG,A.ATKINSON,J.KOFFLER,C.ROMIER,A.HAMICHE, JRNL AUTH 2 L.TORA,D.DEVYS,B.KIEFFER JRNL TITL HISTONE DEUBIQUITINATION BY SAGA IS MODULATED BY AN ATYPICAL JRNL TITL 2 ZINC FINGER DOMAIN OF ATAXIN-7 JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR NIH, X-PLOR NIH REMARK 3 AUTHORS : SCHWIETERS, KUSZEWSKI, TJANDRA AND CLORE (X-PLOR REMARK 3 NIH), SCHWIETERS, KUSZEWSKI, TJANDRA AND CLORE (X- REMARK 3 PLOR NIH) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: IN EXPLICIT WATER USING RECOORD REMARK 3 PROTOCOL REMARK 4 REMARK 4 2KKR COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 30-JUN-09. REMARK 100 THE DEPOSITION ID IS D_1000101242. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 295 REMARK 210 PH : 7.1 REMARK 210 IONIC STRENGTH : 0.3 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 50 MM SODIUM PHOSPHATE, 200 MM REMARK 210 SODIUM CHLORIDE, 2 MM DTT, 0.3 REMARK 210 MM [U-99% 13C; U-99% 15N] ATXN7, REMARK 210 90% H2O/10% D2O; 50 MM SODIUM REMARK 210 PHOSPHATE, 200 MM SODIUM REMARK 210 CHLORIDE, 2 MM DTT, 0.6 MM ATXN7, REMARK 210 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D HNCO; 3D HNCA; 3D HNCACB; 3D REMARK 210 HN(CO)CA; 3D HN(COCA)CB; 3D HCCH- REMARK 210 TOCSY; 2D 1H-1H NOESY; 2D 1H-1H REMARK 210 TOCSY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ; 950 MHZ REMARK 210 SPECTROMETER MODEL : DRX; AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NULL REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 64 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: 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 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 465 SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 MODELS 1-20 REMARK 465 RES C SSSEQI REMARK 465 GLY A 328 REMARK 465 SER A 329 REMARK 465 LYS A 330 REMARK 465 PHE A 331 REMARK 465 LEU A 332 REMARK 465 ASN A 333 REMARK 465 LYS A 334 REMARK 465 ARG A 335 REMARK 465 LEU A 336 REMARK 465 SER A 337 REMARK 465 GLU A 338 REMARK 465 LEU A 398 REMARK 465 ILE A 399 REMARK 465 ARG A 400 REMARK 465 HIS A 401 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: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 1 GLU A 340 N GLU A 340 CA -0.143 REMARK 500 1 CYS A 358 N CYS A 358 CA -0.138 REMARK 500 1 CYS A 358 CA CYS A 358 CB -0.109 REMARK 500 2 CYS A 358 N CYS A 358 CA -0.121 REMARK 500 2 CYS A 358 CA CYS A 358 CB -0.096 REMARK 500 3 CYS A 358 N CYS A 358 CA -0.137 REMARK 500 3 CYS A 358 CA CYS A 358 CB -0.096 REMARK 500 4 CYS A 358 N CYS A 358 CA -0.135 REMARK 500 4 CYS A 358 CA CYS A 358 CB -0.112 REMARK 500 5 CYS A 358 N CYS A 358 CA -0.137 REMARK 500 5 CYS A 358 CA CYS A 358 CB -0.100 REMARK 500 6 GLU A 340 N GLU A 340 CA -0.139 REMARK 500 6 CYS A 358 N CYS A 358 CA -0.137 REMARK 500 6 CYS A 358 CA CYS A 358 CB -0.105 REMARK 500 7 CYS A 358 N CYS A 358 CA -0.133 REMARK 500 7 CYS A 358 CA CYS A 358 CB -0.110 REMARK 500 8 CYS A 358 N CYS A 358 CA -0.133 REMARK 500 8 CYS A 358 CA CYS A 358 CB -0.102 REMARK 500 9 CYS A 358 N CYS A 358 CA -0.131 REMARK 500 9 CYS A 358 CA CYS A 358 CB -0.096 REMARK 500 10 CYS A 358 N CYS A 358 CA -0.138 REMARK 500 10 CYS A 358 CA CYS A 358 CB -0.099 REMARK 500 11 GLU A 340 N GLU A 340 CA -0.132 REMARK 500 11 CYS A 358 N CYS A 358 CA -0.127 REMARK 500 11 CYS A 358 CA CYS A 358 CB -0.112 REMARK 500 12 GLU A 340 N GLU A 340 CA -0.136 REMARK 500 12 CYS A 358 N CYS A 358 CA -0.136 REMARK 500 12 CYS A 358 CA CYS A 358 CB -0.086 REMARK 500 13 CYS A 358 N CYS A 358 CA -0.134 REMARK 500 13 CYS A 358 CA CYS A 358 CB -0.115 REMARK 500 14 CYS A 358 N CYS A 358 CA -0.129 REMARK 500 14 CYS A 358 CA CYS A 358 CB -0.090 REMARK 500 15 CYS A 358 N CYS A 358 CA -0.140 REMARK 500 15 CYS A 358 CA CYS A 358 CB -0.114 REMARK 500 16 CYS A 358 N CYS A 358 CA -0.133 REMARK 500 16 CYS A 358 CA CYS A 358 CB -0.110 REMARK 500 17 GLU A 340 N GLU A 340 CA -0.124 REMARK 500 17 CYS A 358 N CYS A 358 CA -0.122 REMARK 500 17 CYS A 358 CA CYS A 358 CB -0.082 REMARK 500 18 CYS A 358 N CYS A 358 CA -0.124 REMARK 500 18 CYS A 358 CA CYS A 358 CB -0.087 REMARK 500 19 GLU A 340 N GLU A 340 CA -0.135 REMARK 500 19 HIS A 346 CG HIS A 346 CD2 -0.168 REMARK 500 19 CYS A 358 N CYS A 358 CA -0.143 REMARK 500 19 CYS A 358 CA CYS A 358 CB -0.125 REMARK 500 20 CYS A 358 N CYS A 358 CA -0.128 REMARK 500 20 CYS A 358 CA CYS A 358 CB -0.091 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 1 CYS A 347 CA - CB - SG ANGL. DEV. = 7.1 DEGREES 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 PHE A 341 119.63 -34.21 REMARK 500 1 THR A 359 42.95 -109.51 REMARK 500 1 ARG A 360 -74.03 -73.37 REMARK 500 1 CYS A 364 119.59 -31.79 REMARK 500 1 LYS A 392 -65.45 -91.33 REMARK 500 1 THR A 393 54.87 -110.34 REMARK 500 1 ARG A 394 18.12 -48.01 REMARK 500 2 PHE A 341 120.58 -32.14 REMARK 500 2 THR A 359 56.39 -105.44 REMARK 500 2 SER A 361 -179.07 -174.51 REMARK 500 2 CYS A 364 126.86 -22.85 REMARK 500 2 GLN A 376 55.37 -92.27 REMARK 500 2 LYS A 392 -65.13 -92.23 REMARK 500 2 THR A 393 53.63 -115.16 REMARK 500 2 ARG A 394 16.77 -47.29 REMARK 500 3 PHE A 341 118.70 -31.74 REMARK 500 3 THR A 359 48.99 -108.23 REMARK 500 3 CYS A 364 123.42 -22.60 REMARK 500 3 LYS A 392 -62.07 -91.27 REMARK 500 3 ARG A 394 3.26 -58.31 REMARK 500 4 PHE A 341 117.51 -32.32 REMARK 500 4 CYS A 364 122.74 -35.06 REMARK 500 4 GLN A 376 41.69 -96.10 REMARK 500 4 LYS A 392 -65.10 -91.08 REMARK 500 4 THR A 393 71.61 -115.19 REMARK 500 4 ARG A 394 1.13 -67.43 REMARK 500 5 PHE A 341 117.83 -32.93 REMARK 500 5 PRO A 357 -167.60 -73.72 REMARK 500 5 THR A 359 66.35 -109.13 REMARK 500 5 ARG A 360 -75.56 -88.30 REMARK 500 5 CYS A 364 120.61 -23.29 REMARK 500 5 LYS A 392 -66.00 -91.67 REMARK 500 5 THR A 393 57.84 -109.40 REMARK 500 5 ARG A 394 18.20 -47.43 REMARK 500 6 PHE A 341 121.50 -33.34 REMARK 500 6 THR A 359 60.09 -114.15 REMARK 500 6 ARG A 360 -68.22 -90.92 REMARK 500 6 CYS A 364 128.77 -30.91 REMARK 500 6 LYS A 392 -66.19 -91.21 REMARK 500 6 THR A 393 60.95 -111.80 REMARK 500 6 ARG A 394 -8.75 -50.13 REMARK 500 7 PHE A 341 119.22 -34.59 REMARK 500 7 THR A 359 60.33 -114.40 REMARK 500 7 ARG A 360 -70.62 -87.13 REMARK 500 7 CYS A 364 122.15 -25.34 REMARK 500 7 LYS A 392 -64.95 -91.22 REMARK 500 7 THR A 393 57.81 -110.77 REMARK 500 7 ARG A 394 17.72 -47.69 REMARK 500 8 PHE A 341 112.67 -33.93 REMARK 500 8 THR A 359 53.18 -113.32 REMARK 500 REMARK 500 THIS ENTRY HAS 133 RAMACHANDRAN OUTLIERS. 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 1 ARG A 373 0.08 SIDE CHAIN REMARK 500 4 ARG A 379 0.08 SIDE CHAIN REMARK 500 6 ARG A 372 0.09 SIDE CHAIN REMARK 500 6 ARG A 379 0.10 SIDE CHAIN REMARK 500 9 ARG A 372 0.09 SIDE CHAIN REMARK 500 10 ARG A 372 0.08 SIDE CHAIN REMARK 500 15 ARG A 379 0.08 SIDE CHAIN REMARK 500 20 ARG A 372 0.08 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 500 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 347 SG REMARK 620 2 CYS A 358 SG 107.5 REMARK 620 3 CYS A 364 SG 104.1 107.5 REMARK 620 4 HIS A 367 ND1 115.0 111.8 110.3 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 500 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 16397 RELATED DB: BMRB DBREF 2KKR A 330 401 UNP O15265 ATX7_HUMAN 330 401 SEQADV 2KKR GLY A 328 UNP O15265 EXPRESSION TAG SEQADV 2KKR SER A 329 UNP O15265 EXPRESSION TAG SEQRES 1 A 74 GLY SER LYS PHE LEU ASN LYS ARG LEU SER GLU ARG GLU SEQRES 2 A 74 PHE ASP PRO ASP ILE HIS CYS GLY VAL ILE ASP LEU ASP SEQRES 3 A 74 THR LYS LYS PRO CYS THR ARG SER LEU THR CYS LYS THR SEQRES 4 A 74 HIS SER LEU THR GLN ARG ARG ALA VAL GLN GLY ARG ARG SEQRES 5 A 74 LYS ARG PHE ASP VAL LEU LEU ALA GLU HIS LYS ASN LYS SEQRES 6 A 74 THR ARG GLU LYS GLU LEU ILE ARG HIS HET ZN A 500 1 HETNAM ZN ZINC ION FORMUL 2 ZN ZN 2+ HELIX 1 1 SER A 368 VAL A 375 1 8 HELIX 2 2 ARG A 381 ARG A 394 1 14 LINK SG CYS A 347 ZN ZN A 500 1555 1555 2.36 LINK SG CYS A 358 ZN ZN A 500 1555 1555 2.21 LINK SG CYS A 364 ZN ZN A 500 1555 1555 2.22 LINK ND1 HIS A 367 ZN ZN A 500 1555 1555 2.12 SITE 1 AC1 6 CYS A 347 VAL A 349 ASP A 351 CYS A 358 SITE 2 AC1 6 CYS A 364 HIS A 367 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