HEADER DNA BINDING PROTEIN 10-OCT-11 3U50 TITLE CRYSTAL STRUCTURE OF THE TETRAHYMENA TELOMERASE PROCESSIVITY FACTOR TITLE 2 TEB1 OB-C COMPND MOL_ID: 1; COMPND 2 MOLECULE: TELOMERASE-ASSOCIATED PROTEIN 82; COMPND 3 CHAIN: C; COMPND 4 FRAGMENT: UNP RESIDUES 511-682; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: TETRAHYMENA THERMOPHILA; SOURCE 3 ORGANISM_TAXID: 5911; SOURCE 4 GENE: TAP82; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID KEYWDS TETRAHYMENA, TELOMERASE, TEB1, PROCESSIVITY FACTOR, DNA BINDING KEYWDS 2 PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR Z.ZENG,J.HUANG,Y.YANG,M.LEI REVDAT 5 28-FEB-24 3U50 1 REMARK LINK REVDAT 4 08-NOV-17 3U50 1 REMARK REVDAT 3 28-JAN-15 3U50 1 HETATM REVDAT 2 23-MAY-12 3U50 1 JRNL REVDAT 1 14-DEC-11 3U50 0 JRNL AUTH Z.ZENG,B.MIN,J.HUANG,K.HONG,Y.YANG,K.COLLINS,M.LEI JRNL TITL STRUCTURAL BASIS FOR TETRAHYMENA TELOMERASE PROCESSIVITY JRNL TITL 2 FACTOR TEB1 BINDING TO SINGLE-STRANDED TELOMERIC-REPEAT DNA. JRNL REF PROC.NATL.ACAD.SCI.USA V. 108 20357 2011 JRNL REFN ISSN 0027-8424 JRNL PMID 22143754 JRNL DOI 10.1073/PNAS.1113624108 REMARK 2 REMARK 2 RESOLUTION. 2.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.7_650 REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 36.18 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.8 REMARK 3 NUMBER OF REFLECTIONS : 10792 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.218 REMARK 3 R VALUE (WORKING SET) : 0.214 REMARK 3 FREE R VALUE : 0.253 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.290 REMARK 3 FREE R VALUE TEST SET COUNT : 1110 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 36.1820 - 4.9963 1.00 1306 153 0.2000 0.2237 REMARK 3 2 4.9963 - 3.9673 1.00 1249 140 0.1614 0.1908 REMARK 3 3 3.9673 - 3.4662 1.00 1234 152 0.2015 0.2334 REMARK 3 4 3.4662 - 3.1495 1.00 1234 143 0.2341 0.2968 REMARK 3 5 3.1495 - 2.9239 1.00 1211 135 0.2651 0.3194 REMARK 3 6 2.9239 - 2.7516 1.00 1224 135 0.2905 0.3746 REMARK 3 7 2.7516 - 2.6138 0.99 1189 136 0.3003 0.3565 REMARK 3 8 2.6138 - 2.5001 0.85 1035 116 0.3076 0.3903 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.00 REMARK 3 SHRINKAGE RADIUS : 0.72 REMARK 3 K_SOL : 0.40 REMARK 3 B_SOL : 51.59 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.350 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 27.370 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 58.76 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 5.73350 REMARK 3 B22 (A**2) : 5.73350 REMARK 3 B33 (A**2) : -11.46690 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.009 1361 REMARK 3 ANGLE : 1.139 1826 REMARK 3 CHIRALITY : 0.082 195 REMARK 3 PLANARITY : 0.005 237 REMARK 3 DIHEDRAL : 17.870 517 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 3U50 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 11-OCT-11. REMARK 100 THE DEPOSITION ID IS D_1000068313. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 10-JUN-09 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.2 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 21-ID-D REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : NULL REMARK 200 WAVELENGTH OR RANGE (A) : 0.97870 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MAR SCANNER 300 MM PLATE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 10822 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.500 REMARK 200 RESOLUTION RANGE LOW (A) : 100.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.9 REMARK 200 DATA REDUNDANCY : 10.00 REMARK 200 R MERGE (I) : 0.05800 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 17.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.59 REMARK 200 COMPLETENESS FOR SHELL (%) : 82.2 REMARK 200 DATA REDUNDANCY IN SHELL : 6.10 REMARK 200 R MERGE FOR SHELL (I) : 0.35700 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 67.59 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.80 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 3.8 M NACL, PH 5.2, VAPOR DIFFUSION, REMARK 280 SITTING DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 31 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+2/3 REMARK 290 6555 -X,-X+Y,-Z+1/3 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 27.36033 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 54.72067 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 54.72067 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 27.36033 REMARK 290 REMARK 290 REMARK: NULL 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: C 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. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 GLU C 661 REMARK 465 PHE C 662 REMARK 465 ASN C 663 REMARK 465 ASN C 664 REMARK 465 GLU C 665 REMARK 465 GLN C 666 REMARK 465 ASN C 679 REMARK 465 ILE C 680 REMARK 465 LYS C 681 REMARK 465 GLU C 682 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT 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 O HOH C 17 O HOH C 18 2.07 REMARK 500 O VAL C 620 O HOH C 13 2.11 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 C 684 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS C 555 SG REMARK 620 2 CYS C 557 SG 109.0 REMARK 620 3 CYS C 572 SG 100.4 113.6 REMARK 620 4 CYS C 575 SG 96.2 137.8 93.5 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 C 684 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3U4V RELATED DB: PDB REMARK 900 RELATED ID: 3U4Z RELATED DB: PDB DBREF 3U50 C 511 682 UNP D2CVN6 D2CVN6_TETTH 511 682 SEQRES 1 C 172 GLN ARG ILE TYR SER SER ILE GLU GLU ILE ILE GLN GLN SEQRES 2 C 172 ALA GLN ALA SER GLU ILE GLY GLN LYS LYS GLU PHE TYR SEQRES 3 C 172 VAL TYR GLY ASN LEU VAL SER ILE GLN MET LYS ASN LYS SEQRES 4 C 172 LEU TYR TYR TYR ARG CYS THR CYS GLN GLY LYS SER VAL SEQRES 5 C 172 LEU LYS TYR HIS GLY ASP SER PHE PHE CYS GLU SER CYS SEQRES 6 C 172 GLN GLN PHE ILE ASN PRO GLN VAL HIS LEU MET LEU ARG SEQRES 7 C 172 ALA PHE VAL GLN ASP SER THR GLY THR ILE PRO VAL MET SEQRES 8 C 172 ILE PHE ASP GLN GLN SER SER GLN LEU ILE ASN GLN ILE SEQRES 9 C 172 ASP PRO SER ILE HIS VAL GLN GLU ALA GLY GLN TYR VAL SEQRES 10 C 172 LYS ASN CYS ILE GLU ASN GLY GLN GLU GLU ILE ILE ARG SEQRES 11 C 172 GLN LEU PHE SER LYS LEU ASP PHE ALA ARG PHE ILE PHE SEQRES 12 C 172 GLU ILE GLN PHE GLU ASN LYS GLU PHE ASN ASN GLU GLN SEQRES 13 C 172 GLU ILE ALA TYR LYS VAL LEU LYS ILE GLU LYS GLU ASN SEQRES 14 C 172 ILE LYS GLU HET ZN C 684 1 HETNAM ZN ZINC ION FORMUL 2 ZN ZN 2+ FORMUL 3 HOH *18(H2 O) HELIX 1 1 SER C 516 ALA C 526 1 11 HELIX 2 2 PHE C 603 ASP C 615 1 13 HELIX 3 3 HIS C 619 GLN C 621 5 3 HELIX 4 4 GLU C 622 GLU C 632 1 11 HELIX 5 5 GLN C 635 LYS C 645 1 11 SHEET 1 A 6 LYS C 532 VAL C 542 0 SHEET 2 A 6 LEU C 587 ASP C 593 -1 O PHE C 590 N VAL C 542 SHEET 3 A 6 GLY C 596 ILE C 602 -1 O ILE C 602 N LEU C 587 SHEET 4 A 6 ALA C 669 LYS C 677 1 O VAL C 672 N MET C 601 SHEET 5 A 6 ARG C 650 GLU C 658 -1 N GLU C 654 O LEU C 673 SHEET 6 A 6 LYS C 532 VAL C 542 -1 N VAL C 537 O PHE C 653 SHEET 1 B 2 TYR C 551 ARG C 554 0 SHEET 2 B 2 GLN C 582 LEU C 585 -1 O HIS C 584 N TYR C 552 SHEET 1 C 3 VAL C 562 TYR C 565 0 SHEET 2 C 3 SER C 569 CYS C 572 -1 O PHE C 571 N LEU C 563 SHEET 3 C 3 GLN C 577 PHE C 578 -1 O GLN C 577 N CYS C 572 LINK SG CYS C 555 ZN ZN C 684 1555 1555 2.60 LINK SG CYS C 557 ZN ZN C 684 1555 1555 1.32 LINK SG CYS C 572 ZN ZN C 684 1555 1555 2.49 LINK SG CYS C 575 ZN ZN C 684 1555 1555 2.50 SITE 1 AC1 4 CYS C 555 CYS C 557 CYS C 572 CYS C 575 CRYST1 80.609 80.609 82.081 90.00 90.00 120.00 P 31 2 1 6 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 0.012406 0.007162 0.000000 0.00000 SCALE2 0.000000 0.014325 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012183 0.00000