HEADER TRANSFERASE/TRANSFERASE INHIBITOR 19-OCT-17 5YLT
TITLE CRYSTAL STRUCTURE OF SET7/9 IN COMPLEX WITH A CYPROHEPTADINE
TITLE 2 DERIVATIVE
COMPND MOL_ID: 1;
COMPND 2 MOLECULE: HISTONE-LYSINE N-METHYLTRANSFERASE SETD7;
COMPND 3 CHAIN: A;
COMPND 4 SYNONYM: HISTONE H3-K4 METHYLTRANSFERASE SETD7,H3-K4-HMTASE SETD7,
COMPND 5 LYSINE N-METHYLTRANSFERASE 7,SET DOMAIN-CONTAINING PROTEIN 7,SET7/9;
COMPND 6 EC: 2.1.1.43;
COMPND 7 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: SETD7, KIAA1717, KMT7, SET7, SET9;
SOURCE 6 EXPRESSION_SYSTEM: CELL-FREE SYNTHESIS;
SOURCE 7 EXPRESSION_SYSTEM_TAXID: 32644;
SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID;
SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PX100709-08
KEYWDS SET DOMAIN, METHYLTRANSFERASE, INHIBITOR, TRANSFERASE, TRANSFERASE-
KEYWDS 2 TRANSFERASE INHIBITOR COMPLEX
EXPDTA X-RAY DIFFRACTION
AUTHOR T.HIRANO,T.FUJIWARA,H.NIWA,M.HIRANO,K.OHIRA,Y.OKAZAKI,S.SATO,
AUTHOR 2 T.UMEHARA,Y.MAEMOTO,A.ITO,M.YOSHIDA,H.KAGECHIKA
REVDAT 4 16-OCT-24 5YLT 1 REMARK
REVDAT 3 22-NOV-23 5YLT 1 REMARK
REVDAT 2 05-SEP-18 5YLT 1 JRNL
REVDAT 1 20-JUN-18 5YLT 0
JRNL AUTH T.HIRANO,T.FUJIWARA,H.NIWA,M.HIRANO,K.OHIRA,Y.OKAZAKI,
JRNL AUTH 2 S.SATO,T.UMEHARA,Y.MAEMOTO,A.ITO,M.YOSHIDA,H.KAGECHIKA
JRNL TITL DEVELOPMENT OF NOVEL INHIBITORS FOR HISTONE
JRNL TITL 2 METHYLTRANSFERASE SET7/9 BASED ON CYPROHEPTADINE.
JRNL REF CHEMMEDCHEM V. 13 1530 2018
JRNL REFN ESSN 1860-7187
JRNL PMID 29882380
JRNL DOI 10.1002/CMDC.201800233
REMARK 2
REMARK 2 RESOLUTION. 1.69 ANGSTROMS.
REMARK 3
REMARK 3 REFINEMENT.
REMARK 3 PROGRAM : PHENIX (1.12_2829: ???)
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) : 1.69
REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 42.77
REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.010
REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6
REMARK 3 NUMBER OF REFLECTIONS : 30193
REMARK 3
REMARK 3 FIT TO DATA USED IN REFINEMENT.
REMARK 3 R VALUE (WORKING + TEST SET) : 0.170
REMARK 3 R VALUE (WORKING SET) : 0.168
REMARK 3 FREE R VALUE : 0.200
REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.820
REMARK 3 FREE R VALUE TEST SET COUNT : 1762
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 42.7861 - 4.8040 1.00 2345 108 0.1702 0.1789
REMARK 3 2 4.8040 - 3.8138 1.00 2308 166 0.1301 0.1770
REMARK 3 3 3.8138 - 3.3320 1.00 2311 157 0.1409 0.1808
REMARK 3 4 3.3320 - 3.0274 1.00 2342 127 0.1519 0.2276
REMARK 3 5 3.0274 - 2.8105 1.00 2346 134 0.1573 0.1657
REMARK 3 6 2.8105 - 2.6448 1.00 2306 148 0.1672 0.2062
REMARK 3 7 2.6448 - 2.5123 1.00 2284 161 0.1666 0.1684
REMARK 3 8 2.5123 - 2.4030 1.00 2361 131 0.1680 0.1998
REMARK 3 9 2.4030 - 2.3105 1.00 2281 150 0.1582 0.1808
REMARK 3 10 2.3105 - 2.2308 1.00 2346 133 0.1596 0.2044
REMARK 3 11 2.2308 - 2.1610 1.00 2299 170 0.1576 0.1806
REMARK 3 12 2.1610 - 2.0992 1.00 2304 175 0.1633 0.1804
REMARK 3 13 2.0992 - 2.0440 1.00 2296 144 0.1704 0.1958
REMARK 3 14 2.0440 - 1.9941 1.00 2291 166 0.1918 0.2716
REMARK 3 15 1.9941 - 1.9488 0.99 2274 146 0.1941 0.2304
REMARK 3 16 1.9488 - 1.9073 1.00 2369 131 0.2043 0.2451
REMARK 3 17 1.9073 - 1.8692 1.00 2309 143 0.2010 0.2310
REMARK 3 18 1.8692 - 1.8339 0.99 2287 124 0.2067 0.2352
REMARK 3 19 1.8339 - 1.8011 0.99 2415 105 0.2142 0.2406
REMARK 3 20 1.8011 - 1.7706 0.99 2294 147 0.2385 0.2496
REMARK 3 21 1.7706 - 1.7420 0.99 2281 129 0.2656 0.2951
REMARK 3 22 1.7420 - 1.7152 0.99 2302 158 0.2678 0.2708
REMARK 3 23 1.7152 - 1.6900 0.98 2301 135 0.2968 0.3464
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) : 0.180
REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 19.730
REMARK 3
REMARK 3 B VALUES.
REMARK 3 FROM WILSON PLOT (A**2) : NULL
REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL
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 : 0.006 2079
REMARK 3 ANGLE : 0.885 2834
REMARK 3 CHIRALITY : 0.060 299
REMARK 3 PLANARITY : 0.005 364
REMARK 3 DIHEDRAL : 16.486 1228
REMARK 3
REMARK 3 TLS DETAILS
REMARK 3 NUMBER OF TLS GROUPS : 3
REMARK 3 TLS GROUP : 1
REMARK 3 SELECTION: CHAIN 'A' AND (RESID 115 THROUGH 174 )
REMARK 3 ORIGIN FOR THE GROUP (A): -7.1616 7.7197 -15.7994
REMARK 3 T TENSOR
REMARK 3 T11: 0.1426 T22: 0.1767
REMARK 3 T33: 0.2136 T12: -0.0336
REMARK 3 T13: -0.0304 T23: 0.0012
REMARK 3 L TENSOR
REMARK 3 L11: 5.5668 L22: 3.0777
REMARK 3 L33: 2.4307 L12: 0.1946
REMARK 3 L13: 0.1744 L23: 0.1071
REMARK 3 S TENSOR
REMARK 3 S11: -0.0968 S12: 0.0183 S13: -0.1555
REMARK 3 S21: 0.0439 S22: 0.1362 S23: -0.6061
REMARK 3 S31: -0.1059 S32: 0.3831 S33: -0.0222
REMARK 3 TLS GROUP : 2
REMARK 3 SELECTION: CHAIN 'A' AND (RESID 175 THROUGH 189 )
REMARK 3 ORIGIN FOR THE GROUP (A): -4.1781 11.1204 -25.4829
REMARK 3 T TENSOR
REMARK 3 T11: 0.4502 T22: 0.6299
REMARK 3 T33: 0.6501 T12: -0.1338
REMARK 3 T13: 0.1110 T23: 0.1446
REMARK 3 L TENSOR
REMARK 3 L11: 4.6974 L22: 7.0824
REMARK 3 L33: 3.2949 L12: -5.3077
REMARK 3 L13: 1.8253 L23: -1.3742
REMARK 3 S TENSOR
REMARK 3 S11: -0.2561 S12: 1.0794 S13: -0.1712
REMARK 3 S21: -0.6422 S22: -0.2645 S23: -0.6403
REMARK 3 S31: 0.0059 S32: 0.5433 S33: 0.3414
REMARK 3 TLS GROUP : 3
REMARK 3 SELECTION: CHAIN 'A' AND (RESID 190 THROUGH 364 )
REMARK 3 ORIGIN FOR THE GROUP (A): -33.5690 3.2780 -17.7545
REMARK 3 T TENSOR
REMARK 3 T11: 0.1539 T22: 0.1321
REMARK 3 T33: 0.0924 T12: -0.0099
REMARK 3 T13: 0.0116 T23: 0.0158
REMARK 3 L TENSOR
REMARK 3 L11: 2.3059 L22: 2.8538
REMARK 3 L33: 1.6652 L12: -0.1904
REMARK 3 L13: 0.1789 L23: 0.4749
REMARK 3 S TENSOR
REMARK 3 S11: -0.0132 S12: -0.2150 S13: -0.0299
REMARK 3 S21: 0.2424 S22: -0.0294 S23: 0.2933
REMARK 3 S31: 0.0771 S32: -0.1792 S33: 0.0222
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 5YLT COMPLIES WITH FORMAT V. 3.30, 13-JUL-11
REMARK 100
REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 27-OCT-17.
REMARK 100 THE DEPOSITION ID IS D_1300005509.
REMARK 200
REMARK 200 EXPERIMENTAL DETAILS
REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION
REMARK 200 DATE OF DATA COLLECTION : 23-MAY-16
REMARK 200 TEMPERATURE (KELVIN) : 100
REMARK 200 PH : NULL
REMARK 200 NUMBER OF CRYSTALS USED : 1
REMARK 200
REMARK 200 SYNCHROTRON (Y/N) : Y
REMARK 200 RADIATION SOURCE : PHOTON FACTORY
REMARK 200 BEAMLINE : BL-17A
REMARK 200 X-RAY GENERATOR MODEL : NULL
REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M
REMARK 200 WAVELENGTH OR RANGE (A) : 0.980
REMARK 200 MONOCHROMATOR : NULL
REMARK 200 OPTICS : NULL
REMARK 200
REMARK 200 DETECTOR TYPE : PIXEL
REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 S 6M
REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000
REMARK 200 DATA SCALING SOFTWARE : HKL-2000
REMARK 200
REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 30706
REMARK 200 RESOLUTION RANGE HIGH (A) : 1.690
REMARK 200 RESOLUTION RANGE LOW (A) : 50.000
REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL
REMARK 200
REMARK 200 OVERALL.
REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9
REMARK 200 DATA REDUNDANCY : 6.300
REMARK 200 R MERGE (I) : NULL
REMARK 200 R SYM (I) : 0.10700
REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 22.6000
REMARK 200
REMARK 200 IN THE HIGHEST RESOLUTION SHELL.
REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.69
REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.72
REMARK 200 COMPLETENESS FOR SHELL (%) : 99.3
REMARK 200 DATA REDUNDANCY IN SHELL : 5.40
REMARK 200 R MERGE FOR SHELL (I) : NULL
REMARK 200 R SYM FOR SHELL (I) : 1.28400
REMARK 200 <I/SIGMA(I)> FOR SHELL : 1.900
REMARK 200
REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH
REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT
REMARK 200 SOFTWARE USED: PHASER
REMARK 200 STARTING MODEL: 5AYF
REMARK 200
REMARK 200 REMARK: NULL
REMARK 280
REMARK 280 CRYSTAL
REMARK 280 SOLVENT CONTENT, VS (%): 45.27
REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.25
REMARK 280
REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M TRIS-HCL PH 8.5, 34% PEG 6000,
REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K
REMARK 290
REMARK 290 CRYSTALLOGRAPHIC SYMMETRY
REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 2
REMARK 290
REMARK 290 SYMOP SYMMETRY
REMARK 290 NNNMMM OPERATOR
REMARK 290 1555 X,Y,Z
REMARK 290 2555 -X,-Y,Z
REMARK 290 3555 -X+1/2,Y+1/2,-Z
REMARK 290 4555 X+1/2,-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 0.00000
REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000
REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 55.08800
REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 17.48150
REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000
REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 55.08800
REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 17.48150
REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000
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 TOTAL BURIED SURFACE AREA: 260 ANGSTROM**2
REMARK 350 SURFACE AREA OF THE COMPLEX: 12320 ANGSTROM**2
REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 0.0 KCAL/MOL
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 375
REMARK 375 SPECIAL POSITION
REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS
REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL
REMARK 375 POSITIONS.
REMARK 375
REMARK 375 ATOM RES CSSEQI
REMARK 375 HOH A 552 LIES ON A SPECIAL POSITION.
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 104
REMARK 465 SER A 105
REMARK 465 SER A 106
REMARK 465 GLY A 107
REMARK 465 SER A 108
REMARK 465 SER A 109
REMARK 465 GLY A 110
REMARK 465 LYS A 111
REMARK 465 ASP A 112
REMARK 465 ASN A 113
REMARK 465 ILE A 114
REMARK 465 GLY A 346
REMARK 465 PRO A 347
REMARK 465 GLU A 348
REMARK 465 GLN A 365
REMARK 465 LYS A 366
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 ARG A 115 CG CD NE CZ NH1 NH2
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 A 590 O HOH A 687 2.13
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 ARG A 152 -46.94 -141.18
REMARK 500 ASP A 194 50.84 -154.27
REMARK 500 THR A 197 -168.24 -119.73
REMARK 500 SER A 202 144.24 -175.68
REMARK 500 TYR A 245 79.72 -111.40
REMARK 500 THR A 300 60.67 -118.22
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 SFG A 401
REMARK 800
REMARK 800 SITE_IDENTIFIER: AC2
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: binding site for residue C7N A 402
REMARK 800
REMARK 800 SITE_IDENTIFIER: AC3
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 403
REMARK 800
REMARK 800 SITE_IDENTIFIER: AC4
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 404
REMARK 800
REMARK 800 SITE_IDENTIFIER: AC5
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 405
DBREF 5YLT A 111 366 UNP Q8WTS6 SETD7_HUMAN 111 366
SEQADV 5YLT GLY A 104 UNP Q8WTS6 EXPRESSION TAG
SEQADV 5YLT SER A 105 UNP Q8WTS6 EXPRESSION TAG
SEQADV 5YLT SER A 106 UNP Q8WTS6 EXPRESSION TAG
SEQADV 5YLT GLY A 107 UNP Q8WTS6 EXPRESSION TAG
SEQADV 5YLT SER A 108 UNP Q8WTS6 EXPRESSION TAG
SEQADV 5YLT SER A 109 UNP Q8WTS6 EXPRESSION TAG
SEQADV 5YLT GLY A 110 UNP Q8WTS6 EXPRESSION TAG
SEQRES 1 A 263 GLY SER SER GLY SER SER GLY LYS ASP ASN ILE ARG HIS
SEQRES 2 A 263 GLY VAL CYS TRP ILE TYR TYR PRO ASP GLY GLY SER LEU
SEQRES 3 A 263 VAL GLY GLU VAL ASN GLU ASP GLY GLU MET THR GLY GLU
SEQRES 4 A 263 LYS ILE ALA TYR VAL TYR PRO ASP GLU ARG THR ALA LEU
SEQRES 5 A 263 TYR GLY LYS PHE ILE ASP GLY GLU MET ILE GLU GLY LYS
SEQRES 6 A 263 LEU ALA THR LEU MET SER THR GLU GLU GLY ARG PRO HIS
SEQRES 7 A 263 PHE GLU LEU MET PRO GLY ASN SER VAL TYR HIS PHE ASP
SEQRES 8 A 263 LYS SER THR SER SER CYS ILE SER THR ASN ALA LEU LEU
SEQRES 9 A 263 PRO ASP PRO TYR GLU SER GLU ARG VAL TYR VAL ALA GLU
SEQRES 10 A 263 SER LEU ILE SER SER ALA GLY GLU GLY LEU PHE SER LYS
SEQRES 11 A 263 VAL ALA VAL GLY PRO ASN THR VAL MET SER PHE TYR ASN
SEQRES 12 A 263 GLY VAL ARG ILE THR HIS GLN GLU VAL ASP SER ARG ASP
SEQRES 13 A 263 TRP ALA LEU ASN GLY ASN THR LEU SER LEU ASP GLU GLU
SEQRES 14 A 263 THR VAL ILE ASP VAL PRO GLU PRO TYR ASN HIS VAL SER
SEQRES 15 A 263 LYS TYR CYS ALA SER LEU GLY HIS LYS ALA ASN HIS SER
SEQRES 16 A 263 PHE THR PRO ASN CYS ILE TYR ASP MET PHE VAL HIS PRO
SEQRES 17 A 263 ARG PHE GLY PRO ILE LYS CYS ILE ARG THR LEU ARG ALA
SEQRES 18 A 263 VAL GLU ALA ASP GLU GLU LEU THR VAL ALA TYR GLY TYR
SEQRES 19 A 263 ASP HIS SER PRO PRO GLY LYS SER GLY PRO GLU ALA PRO
SEQRES 20 A 263 GLU TRP TYR GLN VAL GLU LEU LYS ALA PHE GLN ALA THR
SEQRES 21 A 263 GLN GLN LYS
HET SFG A 401 27
HET C7N A 402 23
HET GOL A 403 6
HET GOL A 404 6
HET GOL A 405 6
HETNAM SFG SINEFUNGIN
HETNAM C7N 2-(1-METHYLPIPERIDIN-4-YLIDENE)TRICYCLO[9.4.0.0^{3,
HETNAM 2 C7N 8}]PENTADECA-1(11),3(8),4,6,9,12,14-HEPTAEN-6-OL
HETNAM GOL GLYCEROL
HETSYN SFG ADENOSYL-ORNITHINE
HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL
FORMUL 2 SFG C15 H23 N7 O5
FORMUL 3 C7N C21 H21 N O
FORMUL 4 GOL 3(C3 H8 O3)
FORMUL 7 HOH *197(H2 O)
HELIX 1 AA1 ASP A 209 ARG A 215 1 7
HELIX 2 AA2 THR A 251 SER A 257 1 7
HELIX 3 AA3 ASP A 259 ASN A 263 5 5
HELIX 4 AA4 LEU A 291 ALA A 295 5 5
HELIX 5 AA5 PRO A 350 THR A 363 1 14
SHEET 1 AA1 6 VAL A 118 TYR A 122 0
SHEET 2 AA1 6 SER A 128 GLU A 132 -1 O LEU A 129 N ILE A 121
SHEET 3 AA1 6 GLY A 141 VAL A 147 -1 O VAL A 147 N SER A 128
SHEET 4 AA1 6 THR A 153 ILE A 160 -1 O GLY A 157 N ILE A 144
SHEET 5 AA1 6 GLU A 163 GLU A 176 -1 O ILE A 165 N LYS A 158
SHEET 6 AA1 6 ARG A 179 LEU A 184 -1 O HIS A 181 N SER A 174
SHEET 1 AA2 6 VAL A 118 TYR A 122 0
SHEET 2 AA2 6 SER A 128 GLU A 132 -1 O LEU A 129 N ILE A 121
SHEET 3 AA2 6 GLY A 141 VAL A 147 -1 O VAL A 147 N SER A 128
SHEET 4 AA2 6 THR A 153 ILE A 160 -1 O GLY A 157 N ILE A 144
SHEET 5 AA2 6 GLU A 163 GLU A 176 -1 O ILE A 165 N LYS A 158
SHEET 6 AA2 6 VAL A 190 TYR A 191 -1 O TYR A 191 N GLY A 167
SHEET 1 AA3 4 VAL A 216 GLU A 220 0
SHEET 2 AA3 4 GLU A 228 SER A 232 -1 O GLY A 229 N ALA A 219
SHEET 3 AA3 4 GLU A 330 VAL A 333 -1 O LEU A 331 N LEU A 230
SHEET 4 AA3 4 ASN A 296 HIS A 297 1 N ASN A 296 O VAL A 333
SHEET 1 AA4 3 VAL A 241 TYR A 245 0
SHEET 2 AA4 3 GLY A 314 THR A 321 -1 O ILE A 319 N MET A 242
SHEET 3 AA4 3 CYS A 303 HIS A 310 -1 N ASP A 306 O CYS A 318
SHEET 1 AA5 3 VAL A 248 ILE A 250 0
SHEET 2 AA5 3 VAL A 274 ASP A 276 -1 O VAL A 274 N ILE A 250
SHEET 3 AA5 3 LEU A 267 SER A 268 -1 N LEU A 267 O ILE A 275
SSBOND 1 CYS A 119 CYS A 119 1555 2555 2.04
CISPEP 1 GLU A 279 PRO A 280 0 4.16
SITE 1 AC1 20 ILE A 223 ALA A 226 GLU A 228 GLY A 264
SITE 2 AC1 20 ASN A 265 HIS A 293 LYS A 294 ASN A 296
SITE 3 AC1 20 HIS A 297 TYR A 335 TRP A 352 GLU A 356
SITE 4 AC1 20 GLN A 364 HOH A 512 HOH A 547 HOH A 557
SITE 5 AC1 20 HOH A 559 HOH A 564 HOH A 566 HOH A 598
SITE 1 AC2 13 TRP A 260 ASN A 263 GLY A 264 THR A 266
SITE 2 AC2 13 TYR A 305 TYR A 335 GLY A 336 TYR A 337
SITE 3 AC2 13 ASP A 338 PRO A 341 PRO A 342 TYR A 353
SITE 4 AC2 13 HOH A 503
SITE 1 AC3 6 ALA A 261 LEU A 262 ASN A 263 GLY A 264
SITE 2 AC3 6 ASN A 265 VAL A 277
SITE 1 AC4 6 TYR A 217 VAL A 218 ALA A 235 GLU A 326
SITE 2 AC4 6 GOL A 405 HOH A 516
SITE 1 AC5 4 VAL A 218 ALA A 219 GOL A 404 HOH A 520
CRYST1 110.176 34.963 67.872 90.00 90.00 90.00 P 21 21 2 4
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 0.009076 0.000000 0.000000 0.00000
SCALE2 0.000000 0.028602 0.000000 0.00000
SCALE3 0.000000 0.000000 0.014734 0.00000