HEADER DNA BINDING PROTEIN, TRANSCRIPTION/DNA 12-SEP-14 4RBO TITLE CRYSTAL STRUCTURE OF A NANOG HOMEOBOX (NANOG) FROM HOMO SAPIENS AT TITLE 2 3.30 A RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: PUTATIVE HOMEOBOX PROTEIN NANOGP8; COMPND 3 CHAIN: A, D; COMPND 4 FRAGMENT: UNP RESIDUES 94-162; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: 5'-D(*GP*GP*CP*CP*CP*AP*TP*TP*CP*AP*AP*G)-3'; COMPND 8 CHAIN: B, E; COMPND 9 ENGINEERED: YES; COMPND 10 MOL_ID: 3; COMPND 11 MOLECULE: 5'-D(*CP*TP*TP*GP*AP*AP*TP*GP*GP*GP*CP*C)-3'; COMPND 12 CHAIN: C, F; COMPND 13 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: NANOGP8, NM_024865; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)STAR; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: 46EKTEVLIC; SOURCE 11 MOL_ID: 2; SOURCE 12 SYNTHETIC: YES; SOURCE 13 MOL_ID: 3; SOURCE 14 SYNTHETIC: YES KEYWDS HOMEOBOX, PF00046 FAMILY, STRUCTURAL GENOMICS, JOINT CENTER FOR KEYWDS 2 STRUCTURAL GENOMICS, JCSG, PARTNERSHIP FOR STEM CELL BIOLOGY, KEYWDS 3 STEMCELL, PROTEIN STRUCTURE INITIATIVE, PSI-BIOLOGY, DNA BINDING KEYWDS 4 PROTEIN, TRANSCRIPTION, TRANSCRIPTION-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR JOINT CENTER FOR STRUCTURAL GENOMICS (JCSG),PARTNERSHIP FOR STEM CELL AUTHOR 2 BIOLOGY (STEMCELL) REVDAT 6 06-NOV-24 4RBO 1 REMARK REVDAT 5 01-FEB-23 4RBO 1 SEQADV REVDAT 4 22-NOV-17 4RBO 1 REMARK REVDAT 3 29-APR-15 4RBO 1 JRNL REVDAT 2 08-APR-15 4RBO 1 JRNL REVDAT 1 01-OCT-14 4RBO 0 JRNL AUTH Y.HAYASHI,L.CABONI,D.DAS,F.YUMOTO,T.CLAYTON,M.C.DELLER, JRNL AUTH 2 P.NGUYEN,C.L.FARR,H.J.CHIU,M.D.MILLER,M.A.ELSLIGER, JRNL AUTH 3 A.M.DEACON,A.GODZIK,S.A.LESLEY,K.TOMODA,B.R.CONKLIN, JRNL AUTH 4 I.A.WILSON,S.YAMANAKA,R.J.FLETTERICK JRNL TITL STRUCTURE-BASED DISCOVERY OF NANOG VARIANT WITH ENHANCED JRNL TITL 2 PROPERTIES TO PROMOTE SELF-RENEWAL AND REPROGRAMMING OF JRNL TITL 3 PLURIPOTENT STEM CELLS. JRNL REF PROC.NATL.ACAD.SCI.USA V. 112 4666 2015 JRNL REFN ISSN 0027-8424 JRNL PMID 25825768 JRNL DOI 10.1073/PNAS.1502855112 REMARK 2 REMARK 2 RESOLUTION. 3.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 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) : 3.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.90 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 96.1 REMARK 3 NUMBER OF REFLECTIONS : 8823 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.237 REMARK 3 R VALUE (WORKING SET) : 0.235 REMARK 3 FREE R VALUE : 0.268 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.730 REMARK 3 FREE R VALUE TEST SET COUNT : 417 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 29.9000 - 4.7556 0.96 2940 127 0.2079 0.2393 REMARK 3 2 4.7556 - 3.7771 0.96 2763 137 0.2676 0.2935 REMARK 3 3 3.7771 - 3.3003 0.96 2703 153 0.2804 0.3111 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.480 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 30.150 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 188.3 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL 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 : 0.003 2036 REMARK 3 ANGLE : 0.778 2938 REMARK 3 CHIRALITY : 0.036 325 REMARK 3 PLANARITY : 0.002 207 REMARK 3 DIHEDRAL : 23.088 830 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 6 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 100 THROUGH 154) REMARK 3 ORIGIN FOR THE GROUP (A): 121.2803 110.5140 46.7518 REMARK 3 T TENSOR REMARK 3 T11: 0.9485 T22: 1.2723 REMARK 3 T33: 1.0420 T12: 0.1095 REMARK 3 T13: -0.2282 T23: 0.0135 REMARK 3 L TENSOR REMARK 3 L11: 0.3914 L22: 0.6299 REMARK 3 L33: 3.4839 L12: 0.7958 REMARK 3 L13: -1.6096 L23: -1.3960 REMARK 3 S TENSOR REMARK 3 S11: -0.3275 S12: 0.3694 S13: 0.4547 REMARK 3 S21: -0.6281 S22: 0.2215 S23: 0.1144 REMARK 3 S31: 1.5177 S32: -0.5774 S33: -0.0082 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 1 THROUGH 12) REMARK 3 ORIGIN FOR THE GROUP (A): 124.8855 123.2258 40.6024 REMARK 3 T TENSOR REMARK 3 T11: 0.7894 T22: 0.9774 REMARK 3 T33: 1.1227 T12: -0.1378 REMARK 3 T13: -0.2192 T23: 0.1046 REMARK 3 L TENSOR REMARK 3 L11: 1.4647 L22: 0.2148 REMARK 3 L33: 3.4663 L12: 0.9129 REMARK 3 L13: -2.4538 L23: -1.5656 REMARK 3 S TENSOR REMARK 3 S11: -0.5546 S12: 0.6171 S13: 0.5751 REMARK 3 S21: -0.1187 S22: 0.3736 S23: 0.4921 REMARK 3 S31: -1.0788 S32: 0.2675 S33: -0.0005 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'C' AND (RESID 1 THROUGH 12) REMARK 3 ORIGIN FOR THE GROUP (A): 124.6114 123.1968 39.0230 REMARK 3 T TENSOR REMARK 3 T11: 1.4261 T22: 0.7221 REMARK 3 T33: 1.4195 T12: -0.1448 REMARK 3 T13: -0.4113 T23: 0.0385 REMARK 3 L TENSOR REMARK 3 L11: 1.9168 L22: 0.0404 REMARK 3 L33: 4.0348 L12: 1.1172 REMARK 3 L13: -2.9601 L23: -1.8493 REMARK 3 S TENSOR REMARK 3 S11: 0.0137 S12: -1.5123 S13: 0.5008 REMARK 3 S21: -0.8117 S22: 0.5776 S23: 0.4078 REMARK 3 S31: -1.4029 S32: 0.2991 S33: 0.2563 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'D' AND (RESID 100 THROUGH 153) REMARK 3 ORIGIN FOR THE GROUP (A): 122.0444 99.8007 25.7571 REMARK 3 T TENSOR REMARK 3 T11: 2.0677 T22: 1.6145 REMARK 3 T33: 0.9790 T12: -0.1177 REMARK 3 T13: 0.0319 T23: 0.0603 REMARK 3 L TENSOR REMARK 3 L11: 2.5578 L22: 3.0781 REMARK 3 L33: 0.5826 L12: 0.6460 REMARK 3 L13: 1.4700 L23: 1.6177 REMARK 3 S TENSOR REMARK 3 S11: -1.5164 S12: 0.1908 S13: 0.2798 REMARK 3 S21: -0.7582 S22: 1.0540 S23: -0.4985 REMARK 3 S31: 1.4063 S32: -0.3094 S33: -0.0011 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'E' AND (RESID 1 THROUGH 12) REMARK 3 ORIGIN FOR THE GROUP (A): 123.0005 85.8029 31.0926 REMARK 3 T TENSOR REMARK 3 T11: 1.6453 T22: 1.3955 REMARK 3 T33: 1.7822 T12: 0.2892 REMARK 3 T13: 0.0975 T23: -0.0475 REMARK 3 L TENSOR REMARK 3 L11: 1.2662 L22: 1.3320 REMARK 3 L33: 0.3969 L12: -1.4690 REMARK 3 L13: 1.2116 L23: -0.8824 REMARK 3 S TENSOR REMARK 3 S11: -1.2382 S12: -0.3223 S13: -1.6123 REMARK 3 S21: 0.5553 S22: 0.4635 S23: 0.9773 REMARK 3 S31: 1.6906 S32: 0.8096 S33: 0.0001 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'F' AND (RESID 1 THROUGH 12) REMARK 3 ORIGIN FOR THE GROUP (A): 123.2159 86.0311 32.8668 REMARK 3 T TENSOR REMARK 3 T11: 2.7525 T22: 1.9018 REMARK 3 T33: 2.0894 T12: -0.1215 REMARK 3 T13: 0.4876 T23: 0.2474 REMARK 3 L TENSOR REMARK 3 L11: 0.3115 L22: 0.0014 REMARK 3 L33: -0.0503 L12: -0.5227 REMARK 3 L13: 0.2961 L23: -0.1807 REMARK 3 S TENSOR REMARK 3 S11: -0.4334 S12: -1.0354 S13: -1.8512 REMARK 3 S21: 0.1070 S22: 0.5401 S23: -0.8408 REMARK 3 S31: 0.9698 S32: 0.8207 S33: -0.0012 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: 1. HYDROGENS HAVE BEEN ADDED IN THE REMARK 3 RIDING POSITIONS 2. ATOM RECORD CONTAINS SUM OF TLS AND RESIDUAL REMARK 3 B FACTORS. ANISOU RECORD CONTAINS SUM OF TLS AND RESIDUAL U REMARK 3 FACTORS. REMARK 4 REMARK 4 4RBO COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 16-SEP-14. REMARK 100 THE DEPOSITION ID IS D_1000087145. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 22-FEB-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.66 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL11-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 REMARK 200 MONOCHROMATOR : SINGLE CRYSTAL SI(111) BENT REMARK 200 OPTICS : FLAT MIRROR (VERTICAL FOCUSING); REMARK 200 SINGLE CRYSTAL SI(111) BENT REMARK 200 MONOCHROMATOR (HORIZONTAL REMARK 200 FOCUSING) REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA 3.3.20 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 8834 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.300 REMARK 200 RESOLUTION RANGE LOW (A) : 29.899 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.0 REMARK 200 DATA REDUNDANCY : 3.400 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.08300 REMARK 200 FOR THE DATA SET : 9.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.39 REMARK 200 COMPLETENESS FOR SHELL (%) : 94.3 REMARK 200 DATA REDUNDANCY IN SHELL : 3.20 REMARK 200 R MERGE FOR SHELL (I) : 0.55200 REMARK 200 R SYM FOR SHELL (I) : 0.55200 REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER 2.3.0 REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 72.35 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 4.45 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.200M CALCIUM ACETATE, 12.00% 2 REMARK 280 -PROPANOL, 0.1M SODIUM CACODYLATE PH 5.66, NANODROP, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 65 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/6 REMARK 290 6555 X-Y,X,Z+5/6 REMARK 290 7555 Y,X,-Z+2/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+1/3 REMARK 290 10555 -Y,-X,-Z+1/6 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-Z+5/6 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 28.17933 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 14.08967 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 21.13450 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 7.04483 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 35.22417 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 28.17933 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 14.08967 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 7.04483 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 21.13450 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 35.22417 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2370 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 7730 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -21.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2290 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 7560 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -19.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: D, E, F 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 GLY A 0 REMARK 465 LYS A 94 REMARK 465 LYS A 95 REMARK 465 GLN A 96 REMARK 465 LYS A 97 REMARK 465 THR A 98 REMARK 465 ARG A 99 REMARK 465 LYS A 155 REMARK 465 ASN A 156 REMARK 465 ASN A 157 REMARK 465 TRP A 158 REMARK 465 PRO A 159 REMARK 465 LYS A 160 REMARK 465 ASN A 161 REMARK 465 SER A 162 REMARK 465 GLY D 0 REMARK 465 LYS D 94 REMARK 465 LYS D 95 REMARK 465 GLN D 96 REMARK 465 LYS D 97 REMARK 465 THR D 98 REMARK 465 ARG D 99 REMARK 465 GLN D 154 REMARK 465 LYS D 155 REMARK 465 ASN D 156 REMARK 465 ASN D 157 REMARK 465 TRP D 158 REMARK 465 PRO D 159 REMARK 465 LYS D 160 REMARK 465 ASN D 161 REMARK 465 SER D 162 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 LYS D 140 CG CD CE NZ REMARK 470 TRP D 153 CG CD1 CD2 NE1 CE2 CE3 CZ2 REMARK 470 TRP D 153 CZ3 CH2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 SG CYS A 108 HG CYS D 108 1556 1.10 REMARK 500 HG CYS A 108 HG CYS D 108 1556 1.16 REMARK 500 HG CYS A 108 SG CYS D 108 1556 1.17 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 DA C 6 O4' - C1' - N9 ANGL. DEV. = 1.9 DEGREES REMARK 500 DG C 9 O4' - C1' - N9 ANGL. DEV. = 2.3 DEGREES REMARK 500 DG C 10 O4' - C1' - N9 ANGL. DEV. = 2.4 DEGREES REMARK 500 DC E 3 O4' - C1' - N1 ANGL. DEV. = 1.9 DEGREES REMARK 500 DC E 4 O4' - C1' - N1 ANGL. DEV. = 2.4 DEGREES REMARK 500 DA F 6 O4' - C1' - N9 ANGL. DEV. = 1.9 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 TRP A 153 99.56 -58.86 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: JCSG-423217 RELATED DB: TARGETTRACK REMARK 999 REMARK 999 SEQUENCE REMARK 999 THIS CONSTRUCT WAS EXPRESSED WITH AN N-TERMINAL PURIFICATION TAG REMARK 999 MAHHHHHHVDDDDKMSENLYFQ. THE TAG WAS REMOVED WITH TEV PROTEASE REMARK 999 LEAVING ONLY A GLYCINE (0) FOLLOWED BY RESIDUES 94-162 OF THE REMARK 999 TARGET SEQUENCE. DBREF 4RBO A 94 162 UNP Q6NSW7 NANP8_HUMAN 94 162 DBREF 4RBO D 94 162 UNP Q6NSW7 NANP8_HUMAN 94 162 DBREF 4RBO B 1 12 PDB 4RBO 4RBO 1 12 DBREF 4RBO E 1 12 PDB 4RBO 4RBO 1 12 DBREF 4RBO C 1 12 PDB 4RBO 4RBO 1 12 DBREF 4RBO F 1 12 PDB 4RBO 4RBO 1 12 SEQADV 4RBO GLY A 0 UNP Q6NSW7 EXPRESSION TAG SEQADV 4RBO GLY D 0 UNP Q6NSW7 EXPRESSION TAG SEQRES 1 A 70 GLY LYS LYS GLN LYS THR ARG THR VAL PHE SER SER THR SEQRES 2 A 70 GLN LEU CYS VAL LEU ASN ASP ARG PHE GLN ARG GLN LYS SEQRES 3 A 70 TYR LEU SER LEU GLN GLN MET GLN GLU LEU SER ASN ILE SEQRES 4 A 70 LEU ASN LEU SER TYR LYS GLN VAL LYS THR TRP PHE GLN SEQRES 5 A 70 ASN GLN ARG MET LYS SER LYS ARG TRP GLN LYS ASN ASN SEQRES 6 A 70 TRP PRO LYS ASN SER SEQRES 1 B 12 DG DG DC DC DC DA DT DT DC DA DA DG SEQRES 1 C 12 DC DT DT DG DA DA DT DG DG DG DC DC SEQRES 1 D 70 GLY LYS LYS GLN LYS THR ARG THR VAL PHE SER SER THR SEQRES 2 D 70 GLN LEU CYS VAL LEU ASN ASP ARG PHE GLN ARG GLN LYS SEQRES 3 D 70 TYR LEU SER LEU GLN GLN MET GLN GLU LEU SER ASN ILE SEQRES 4 D 70 LEU ASN LEU SER TYR LYS GLN VAL LYS THR TRP PHE GLN SEQRES 5 D 70 ASN GLN ARG MET LYS SER LYS ARG TRP GLN LYS ASN ASN SEQRES 6 D 70 TRP PRO LYS ASN SER SEQRES 1 E 12 DG DG DC DC DC DA DT DT DC DA DA DG SEQRES 1 F 12 DC DT DT DG DA DA DT DG DG DG DC DC HELIX 1 1 SER A 103 GLN A 117 1 15 HELIX 2 2 SER A 121 LEU A 132 1 12 HELIX 3 3 SER A 135 TRP A 153 1 19 HELIX 4 4 SER D 103 GLN D 117 1 15 HELIX 5 5 SER D 121 LEU D 132 1 12 HELIX 6 6 SER D 135 TRP D 153 1 19 SSBOND 1 CYS A 108 CYS D 108 1555 1556 2.03 CRYST1 215.603 215.603 42.269 90.00 90.00 120.00 P 65 2 2 24 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 0.004638 0.002678 0.000000 0.00000 SCALE2 0.000000 0.005356 0.000000 0.00000 SCALE3 0.000000 0.000000 0.023658 0.00000