PDB Short entry for 3LLR HEADER TRANSFERASE 29-JAN-10 3LLR TITLE CRYSTAL STRUCTURE OF THE PWWP DOMAIN OF HUMAN DNA (CYTOSINE-5-)- TITLE 2 METHYLTRANSFERASE 3 ALPHA COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA (CYTOSINE-5)-METHYLTRANSFERASE 3A; COMPND 3 CHAIN: A, B, C, D, E; COMPND 4 FRAGMENT: PWWP DOMAIN (UNP RESIDUES 275-427); COMPND 5 SYNONYM: DNMT3A, DNA METHYLTRANSFERASE HSAIIIA, DNA MTASE HSAIIIA, COMPND 6 M.HSAIIIA; COMPND 7 EC: 2.1.1.37; COMPND 8 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: DNMT3A; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS TRANSFERASE, DNA METHYLTRANSFERASE, METHYLYSINE BINDING, STRUCTURAL KEYWDS 2 GENOMICS CONSORTIUM, SGC, ALTERNATIVE PROMOTER USAGE, CHROMATIN KEYWDS 3 REGULATOR, DNA-BINDING, METAL-BINDING, METHYLTRANSFERASE, NUCLEUS, KEYWDS 4 PHOSPHOPROTEIN, REPRESSOR, S-ADENOSYL-L-METHIONINE, ZINC-FINGER EXPDTA X-RAY DIFFRACTION AUTHOR W.QIU,L.DOMBROVSKI,S.NI,J.WEIGELT,C.BOUTRA,C.H.ARROWSMITH, AUTHOR 2 A.M.EDWARDS,J.MIN,H.WU,STRUCTURAL GENOMICS CONSORTIUM (SGC) REVDAT 5 06-SEP-23 3LLR 1 REMARK SEQADV REVDAT 4 01-NOV-17 3LLR 1 REMARK REVDAT 3 28-MAR-12 3LLR 1 JRNL VERSN REVDAT 2 29-JUN-11 3LLR 1 JRNL REVDAT 1 23-MAR-10 3LLR 0 JRNL AUTH H.WU,H.ZENG,R.LAM,W.TEMPEL,M.F.AMAYA,C.XU,L.DOMBROVSKI, JRNL AUTH 2 W.QIU,Y.WANG,J.MIN JRNL TITL STRUCTURAL AND HISTONE BINDING ABILITY CHARACTERIZATIONS OF JRNL TITL 2 HUMAN PWWP DOMAINS. JRNL REF PLOS ONE V. 6 18919 2011 JRNL REFN ESSN 1932-6203 JRNL PMID 21720545 JRNL DOI 10.1371/JOURNAL.PONE.0018919 REMARK 2 REMARK 2 RESOLUTION. 2.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0072 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.10 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 34711 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.218 REMARK 3 R VALUE (WORKING SET) : 0.216 REMARK 3 FREE R VALUE : 0.256 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1819 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.30 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.36 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2523 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.2430 REMARK 3 BIN FREE R VALUE SET COUNT : 121 REMARK 3 BIN FREE R VALUE : 0.3480 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5340 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 75 REMARK 3 SOLVENT ATOMS : 362 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 15.91 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.01000 REMARK 3 B22 (A**2) : 0.01000 REMARK 3 B33 (A**2) : 0.00000 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 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.360 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.245 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.160 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 6.372 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.908 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.883 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5632 ; 0.006 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7617 ; 0.954 ; 1.939 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 675 ; 4.897 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 241 ;23.738 ;22.241 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 895 ;13.224 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 40 ;12.239 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 733 ; 0.071 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4310 ; 0.004 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 3340 ; 0.379 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 5328 ; 0.706 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2292 ; 0.681 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 2282 ; 1.169 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 3LLR COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 03-FEB-10. REMARK 100 THE DEPOSITION ID IS D_1000057433. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 11-SEP-09 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : CLSI REMARK 200 BEAMLINE : 08ID-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9792 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 36565 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 REMARK 200 RESOLUTION RANGE LOW (A) : 60.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.0 REMARK 200 DATA REDUNDANCY : 3.760 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.07470 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 12.3500 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.40 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.5 REMARK 200 DATA REDUNDANCY IN SHELL : 3.77 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.25590 REMARK 200 <I/SIGMA(I)> FOR SHELL : 4.160 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: BALBES REMARK 200 STARTING MODEL: 1KHC REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 49.50 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.44 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 28% PEG 3,350, 0.1 M AMMONIUM SULFATE, REMARK 280 0.1M BISTRIS, PH 6.0, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE REMARK 280 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y+1/2,-Z 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 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 41.99500 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3, 4, 5 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: 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 350 REMARK 350 BIOMOLECULE: 2 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: 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 350 REMARK 350 BIOMOLECULE: 3 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 350 REMARK 350 BIOMOLECULE: 4 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: D 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: 5 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: E 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 THR A 1 REMARK 465 LYS A 2 REMARK 465 ALA A 3 REMARK 465 GLY A 4 REMARK 465 ASP A 5 REMARK 465 ASP A 6 REMARK 465 GLU A 7 REMARK 465 PRO A 8 REMARK 465 VAL A 112 REMARK 465 CYS A 113 REMARK 465 HIS A 114 REMARK 465 ASP A 115 REMARK 465 SER A 116 REMARK 465 ASP A 117 REMARK 465 GLU A 118 REMARK 465 SER A 119 REMARK 465 ASP A 120 REMARK 465 THR A 121 REMARK 465 ALA A 122 REMARK 465 LYS A 123 REMARK 465 GLU A 152 REMARK 465 GLU A 153 REMARK 465 GLY B 0 REMARK 465 THR B 1 REMARK 465 LYS B 2 REMARK 465 ALA B 3 REMARK 465 GLY B 4 REMARK 465 ASP B 5 REMARK 465 ASP B 6 REMARK 465 GLU B 7 REMARK 465 VAL B 112 REMARK 465 CYS B 113 REMARK 465 HIS B 114 REMARK 465 ASP B 115 REMARK 465 SER B 116 REMARK 465 ASP B 117 REMARK 465 GLU B 118 REMARK 465 SER B 119 REMARK 465 ASP B 120 REMARK 465 THR B 121 REMARK 465 ALA B 122 REMARK 465 LYS B 123 REMARK 465 GLU B 152 REMARK 465 GLU B 153 REMARK 465 GLY C 0 REMARK 465 THR C 1 REMARK 465 LYS C 2 REMARK 465 ALA C 3 REMARK 465 GLY C 4 REMARK 465 ASP C 5 REMARK 465 ASP C 6 REMARK 465 GLU C 7 REMARK 465 PRO C 8 REMARK 465 PRO C 111 REMARK 465 VAL C 112 REMARK 465 CYS C 113 REMARK 465 HIS C 114 REMARK 465 ASP C 115 REMARK 465 SER C 116 REMARK 465 ASP C 117 REMARK 465 GLU C 118 REMARK 465 SER C 119 REMARK 465 ASP C 120 REMARK 465 THR C 121 REMARK 465 ALA C 122 REMARK 465 GLU C 152 REMARK 465 GLU C 153 REMARK 465 GLY D 0 REMARK 465 THR D 1 REMARK 465 LYS D 2 REMARK 465 ALA D 3 REMARK 465 GLY D 4 REMARK 465 ASP D 5 REMARK 465 ASP D 6 REMARK 465 GLU D 7 REMARK 465 PRO D 8 REMARK 465 GLU D 152 REMARK 465 GLU D 153 REMARK 465 GLY E 0 REMARK 465 THR E 1 REMARK 465 LYS E 2 REMARK 465 ALA E 3 REMARK 465 GLY E 4 REMARK 465 ASP E 5 REMARK 465 ASP E 6 REMARK 465 GLU E 7 REMARK 465 PRO E 8 REMARK 465 VAL E 112 REMARK 465 CYS E 113 REMARK 465 HIS E 114 REMARK 465 ASP E 115 REMARK 465 SER E 116 REMARK 465 ASP E 117 REMARK 465 GLU E 118 REMARK 465 SER E 119 REMARK 465 ASP E 120 REMARK 465 THR E 121 REMARK 465 GLU E 152 REMARK 465 GLU E 153 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 PRO B 8 CB CG CD REMARK 470 LYS C 123 CG CD CE NZ 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 11 59.12 -93.18 REMARK 500 ARG A 44 -146.67 -133.22 REMARK 500 SER A 75 31.83 -80.29 REMARK 500 GLU B 11 64.88 -101.42 REMARK 500 ARG B 44 -134.03 -118.72 REMARK 500 SER B 75 34.83 -78.45 REMARK 500 ARG C 44 -132.17 -115.07 REMARK 500 SER C 75 44.70 -82.82 REMARK 500 ARG D 44 -151.81 -111.82 REMARK 500 SER D 75 37.73 -81.42 REMARK 500 ARG E 27 -122.64 49.55 REMARK 500 ARG E 44 -151.45 -103.31 REMARK 500 SER E 75 35.85 -80.89 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BTB A 154 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BTB B 154 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BTB C 154 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BTB D 154 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BTB E 154 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 155 DBREF 3LLR A 1 153 UNP Q9Y6K1 DNM3A_HUMAN 275 427 DBREF 3LLR B 1 153 UNP Q9Y6K1 DNM3A_HUMAN 275 427 DBREF 3LLR C 1 153 UNP Q9Y6K1 DNM3A_HUMAN 275 427 DBREF 3LLR D 1 153 UNP Q9Y6K1 DNM3A_HUMAN 275 427 DBREF 3LLR E 1 153 UNP Q9Y6K1 DNM3A_HUMAN 275 427 SEQADV 3LLR GLY A 0 UNP Q9Y6K1 EXPRESSION TAG SEQADV 3LLR GLY B 0 UNP Q9Y6K1 EXPRESSION TAG SEQADV 3LLR GLY C 0 UNP Q9Y6K1 EXPRESSION TAG SEQADV 3LLR GLY D 0 UNP Q9Y6K1 EXPRESSION TAG SEQADV 3LLR GLY E 0 UNP Q9Y6K1 EXPRESSION TAG SEQRES 1 A 154 GLY THR LYS ALA GLY ASP ASP GLU PRO GLU TYR GLU ASP SEQRES 2 A 154 GLY ARG GLY PHE GLY ILE GLY GLU LEU VAL TRP GLY LYS SEQRES 3 A 154 LEU ARG GLY PHE SER TRP TRP PRO GLY ARG ILE VAL SER SEQRES 4 A 154 TRP TRP MET THR GLY ARG SER ARG ALA ALA GLU GLY THR SEQRES 5 A 154 ARG TRP VAL MET TRP PHE GLY ASP GLY LYS PHE SER VAL SEQRES 6 A 154 VAL CYS VAL GLU LYS LEU MET PRO LEU SER SER PHE CYS SEQRES 7 A 154 SER ALA PHE HIS GLN ALA THR TYR ASN LYS GLN PRO MET SEQRES 8 A 154 TYR ARG LYS ALA ILE TYR GLU VAL LEU GLN VAL ALA SER SEQRES 9 A 154 SER ARG ALA GLY LYS LEU PHE PRO VAL CYS HIS ASP SER SEQRES 10 A 154 ASP GLU SER ASP THR ALA LYS ALA VAL GLU VAL GLN ASN SEQRES 11 A 154 LYS PRO MET ILE GLU TRP ALA LEU GLY GLY PHE GLN PRO SEQRES 12 A 154 SER GLY PRO LYS GLY LEU GLU PRO PRO GLU GLU SEQRES 1 B 154 GLY THR LYS ALA GLY ASP ASP GLU PRO GLU TYR GLU ASP SEQRES 2 B 154 GLY ARG GLY PHE GLY ILE GLY GLU LEU VAL TRP GLY LYS SEQRES 3 B 154 LEU ARG GLY PHE SER TRP TRP PRO GLY ARG ILE VAL SER SEQRES 4 B 154 TRP TRP MET THR GLY ARG SER ARG ALA ALA GLU GLY THR SEQRES 5 B 154 ARG TRP VAL MET TRP PHE GLY ASP GLY LYS PHE SER VAL SEQRES 6 B 154 VAL CYS VAL GLU LYS LEU MET PRO LEU SER SER PHE CYS SEQRES 7 B 154 SER ALA PHE HIS GLN ALA THR TYR ASN LYS GLN PRO MET SEQRES 8 B 154 TYR ARG LYS ALA ILE TYR GLU VAL LEU GLN VAL ALA SER SEQRES 9 B 154 SER ARG ALA GLY LYS LEU PHE PRO VAL CYS HIS ASP SER SEQRES 10 B 154 ASP GLU SER ASP THR ALA LYS ALA VAL GLU VAL GLN ASN SEQRES 11 B 154 LYS PRO MET ILE GLU TRP ALA LEU GLY GLY PHE GLN PRO SEQRES 12 B 154 SER GLY PRO LYS GLY LEU GLU PRO PRO GLU GLU SEQRES 1 C 154 GLY THR LYS ALA GLY ASP ASP GLU PRO GLU TYR GLU ASP SEQRES 2 C 154 GLY ARG GLY PHE GLY ILE GLY GLU LEU VAL TRP GLY LYS SEQRES 3 C 154 LEU ARG GLY PHE SER TRP TRP PRO GLY ARG ILE VAL SER SEQRES 4 C 154 TRP TRP MET THR GLY ARG SER ARG ALA ALA GLU GLY THR SEQRES 5 C 154 ARG TRP VAL MET TRP PHE GLY ASP GLY LYS PHE SER VAL SEQRES 6 C 154 VAL CYS VAL GLU LYS LEU MET PRO LEU SER SER PHE CYS SEQRES 7 C 154 SER ALA PHE HIS GLN ALA THR TYR ASN LYS GLN PRO MET SEQRES 8 C 154 TYR ARG LYS ALA ILE TYR GLU VAL LEU GLN VAL ALA SER SEQRES 9 C 154 SER ARG ALA GLY LYS LEU PHE PRO VAL CYS HIS ASP SER SEQRES 10 C 154 ASP GLU SER ASP THR ALA LYS ALA VAL GLU VAL GLN ASN SEQRES 11 C 154 LYS PRO MET ILE GLU TRP ALA LEU GLY GLY PHE GLN PRO SEQRES 12 C 154 SER GLY PRO LYS GLY LEU GLU PRO PRO GLU GLU SEQRES 1 D 154 GLY THR LYS ALA GLY ASP ASP GLU PRO GLU TYR GLU ASP SEQRES 2 D 154 GLY ARG GLY PHE GLY ILE GLY GLU LEU VAL TRP GLY LYS SEQRES 3 D 154 LEU ARG GLY PHE SER TRP TRP PRO GLY ARG ILE VAL SER SEQRES 4 D 154 TRP TRP MET THR GLY ARG SER ARG ALA ALA GLU GLY THR SEQRES 5 D 154 ARG TRP VAL MET TRP PHE GLY ASP GLY LYS PHE SER VAL SEQRES 6 D 154 VAL CYS VAL GLU LYS LEU MET PRO LEU SER SER PHE CYS SEQRES 7 D 154 SER ALA PHE HIS GLN ALA THR TYR ASN LYS GLN PRO MET SEQRES 8 D 154 TYR ARG LYS ALA ILE TYR GLU VAL LEU GLN VAL ALA SER SEQRES 9 D 154 SER ARG ALA GLY LYS LEU PHE PRO VAL CYS HIS ASP SER SEQRES 10 D 154 ASP GLU SER ASP THR ALA LYS ALA VAL GLU VAL GLN ASN SEQRES 11 D 154 LYS PRO MET ILE GLU TRP ALA LEU GLY GLY PHE GLN PRO SEQRES 12 D 154 SER GLY PRO LYS GLY LEU GLU PRO PRO GLU GLU SEQRES 1 E 154 GLY THR LYS ALA GLY ASP ASP GLU PRO GLU TYR GLU ASP SEQRES 2 E 154 GLY ARG GLY PHE GLY ILE GLY GLU LEU VAL TRP GLY LYS SEQRES 3 E 154 LEU ARG GLY PHE SER TRP TRP PRO GLY ARG ILE VAL SER SEQRES 4 E 154 TRP TRP MET THR GLY ARG SER ARG ALA ALA GLU GLY THR SEQRES 5 E 154 ARG TRP VAL MET TRP PHE GLY ASP GLY LYS PHE SER VAL SEQRES 6 E 154 VAL CYS VAL GLU LYS LEU MET PRO LEU SER SER PHE CYS SEQRES 7 E 154 SER ALA PHE HIS GLN ALA THR TYR ASN LYS GLN PRO MET SEQRES 8 E 154 TYR ARG LYS ALA ILE TYR GLU VAL LEU GLN VAL ALA SER SEQRES 9 E 154 SER ARG ALA GLY LYS LEU PHE PRO VAL CYS HIS ASP SER SEQRES 10 E 154 ASP GLU SER ASP THR ALA LYS ALA VAL GLU VAL GLN ASN SEQRES 11 E 154 LYS PRO MET ILE GLU TRP ALA LEU GLY GLY PHE GLN PRO SEQRES 12 E 154 SER GLY PRO LYS GLY LEU GLU PRO PRO GLU GLU HET BTB A 154 14 HET BTB B 154 14 HET SO4 B 155 5 HET BTB C 154 14 HET BTB D 154 14 HET BTB E 154 14 HETNAM BTB 2-[BIS-(2-HYDROXY-ETHYL)-AMINO]-2-HYDROXYMETHYL- HETNAM 2 BTB PROPANE-1,3-DIOL HETNAM SO4 SULFATE ION HETSYN BTB BIS-TRIS BUFFER FORMUL 6 BTB 5(C8 H19 N O5) FORMUL 8 SO4 O4 S 2- FORMUL 12 HOH *362(H2 O) HELIX 1 1 SER A 38 THR A 42 5 5 HELIX 2 2 SER A 75 PHE A 80 1 6 HELIX 3 3 HIS A 81 GLN A 88 1 8 HELIX 4 4 GLN A 88 GLY A 107 1 20 HELIX 5 5 ALA A 124 GLY A 138 1 15 HELIX 6 6 GLY A 144 GLU A 149 5 6 HELIX 7 7 SER B 38 THR B 42 5 5 HELIX 8 8 SER B 75 PHE B 80 1 6 HELIX 9 9 HIS B 81 GLN B 88 1 8 HELIX 10 10 GLN B 88 GLY B 107 1 20 HELIX 11 11 ALA B 124 GLY B 138 1 15 HELIX 12 12 GLY B 144 GLU B 149 5 6 HELIX 13 13 SER C 38 THR C 42 5 5 HELIX 14 14 SER C 75 PHE C 80 1 6 HELIX 15 15 HIS C 81 GLN C 88 1 8 HELIX 16 16 GLN C 88 GLY C 107 1 20 HELIX 17 17 LYS C 123 GLY C 138 1 16 HELIX 18 18 GLY C 144 GLU C 149 5 6 HELIX 19 19 SER D 38 THR D 42 5 5 HELIX 20 20 SER D 75 PHE D 80 1 6 HELIX 21 21 HIS D 81 GLN D 88 1 8 HELIX 22 22 GLN D 88 GLY D 107 1 20 HELIX 23 23 GLU D 118 ALA D 122 5 5 HELIX 24 24 LYS D 123 GLY D 138 1 16 HELIX 25 25 SER D 143 GLU D 149 5 7 HELIX 26 26 SER E 38 THR E 42 5 5 HELIX 27 27 SER E 75 PHE E 80 1 6 HELIX 28 28 HIS E 81 GLN E 88 1 8 HELIX 29 29 GLN E 88 GLY E 107 1 20 HELIX 30 30 ALA E 122 GLY E 138 1 17 HELIX 31 31 GLY E 144 GLU E 149 5 6 SHEET 1 A 5 PHE A 62 CYS A 66 0 SHEET 2 A 5 THR A 51 TRP A 56 -1 N ARG A 52 O VAL A 65 SHEET 3 A 5 TRP A 32 VAL A 37 -1 N ARG A 35 O MET A 55 SHEET 4 A 5 LEU A 21 GLY A 24 -1 N VAL A 22 O GLY A 34 SHEET 5 A 5 LEU A 70 PRO A 72 -1 O MET A 71 N TRP A 23 SHEET 1 B 5 PHE B 62 CYS B 66 0 SHEET 2 B 5 THR B 51 TRP B 56 -1 N VAL B 54 O SER B 63 SHEET 3 B 5 TRP B 32 VAL B 37 -1 N ARG B 35 O MET B 55 SHEET 4 B 5 LEU B 21 GLY B 24 -1 N VAL B 22 O GLY B 34 SHEET 5 B 5 LEU B 70 PRO B 72 -1 O MET B 71 N TRP B 23 SHEET 1 C 5 PHE C 62 CYS C 66 0 SHEET 2 C 5 THR C 51 TRP C 56 -1 N ARG C 52 O VAL C 65 SHEET 3 C 5 TRP C 32 VAL C 37 -1 N ARG C 35 O MET C 55 SHEET 4 C 5 LEU C 21 GLY C 24 -1 N VAL C 22 O GLY C 34 SHEET 5 C 5 LEU C 70 PRO C 72 -1 O MET C 71 N TRP C 23 SHEET 1 D 5 PHE D 62 CYS D 66 0 SHEET 2 D 5 THR D 51 TRP D 56 -1 N VAL D 54 O SER D 63 SHEET 3 D 5 TRP D 32 VAL D 37 -1 N ARG D 35 O MET D 55 SHEET 4 D 5 LEU D 21 GLY D 24 -1 N VAL D 22 O GLY D 34 SHEET 5 D 5 LEU D 70 PRO D 72 -1 O MET D 71 N TRP D 23 SHEET 1 E 5 PHE E 62 CYS E 66 0 SHEET 2 E 5 THR E 51 TRP E 56 -1 N ARG E 52 O VAL E 65 SHEET 3 E 5 TRP E 31 VAL E 37 -1 N ARG E 35 O MET E 55 SHEET 4 E 5 LEU E 21 LYS E 25 -1 N VAL E 22 O GLY E 34 SHEET 5 E 5 LEU E 70 PRO E 72 -1 O MET E 71 N TRP E 23 CISPEP 1 GLN A 141 PRO A 142 0 5.22 CISPEP 2 GLN B 141 PRO B 142 0 3.02 CISPEP 3 GLN C 141 PRO C 142 0 4.04 CISPEP 4 GLN D 141 PRO D 142 0 3.14 CISPEP 5 GLN E 141 PRO E 142 0 5.03 SITE 1 AC1 7 PHE A 29 TRP A 32 TRP A 56 ASP A 59 SITE 2 AC1 7 LYS A 61 MET A 90 HOH A 184 SITE 1 AC2 7 LEU B 26 PHE B 29 TRP B 32 TRP B 56 SITE 2 AC2 7 ASP B 59 HOH B 171 HOH B 214 SITE 1 AC3 9 LEU C 26 PHE C 29 TRP C 32 TRP C 56 SITE 2 AC3 9 ASP C 59 LYS C 61 MET C 90 HOH C 160 SITE 3 AC3 9 HOH C 354 SITE 1 AC4 7 LEU D 26 PHE D 29 TRP D 32 TRP D 56 SITE 2 AC4 7 ASP D 59 MET D 90 HOH D 339 SITE 1 AC5 7 LEU E 26 PHE E 29 TRP E 32 TRP E 56 SITE 2 AC5 7 ASP E 59 MET E 90 HOH E 166 SITE 1 AC6 4 LEU B 26 ARG B 27 HOH B 216 HOH B 362 CRYST1 67.110 83.990 74.590 90.00 90.48 90.00 P 1 21 1 10 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 0.014901 0.000000 0.000125 0.00000 SCALE2 0.000000 0.011906 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013407 0.00000