HEADER TRANSFERASE 10-SEP-12 4H12 TITLE THE CRYSTAL STRUCTURE OF METHYLTRANSFERASE DOMAIN OF HUMAN SET DOMAIN- TITLE 2 CONTAINING PROTEIN 2 IN COMPLEX WITH S-ADENOSYL-L-HOMOCYSTEINE COMPND MOL_ID: 1; COMPND 2 MOLECULE: HISTONE-LYSINE N-METHYLTRANSFERASE SETD2; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: METHYLTRANSFERASE DOMAIN (UNP RESIDUES 1434-1711); COMPND 5 SYNONYM: HIF-1, HUNTINGTIN YEAST PARTNER B, HUNTINGTIN-INTERACTING COMPND 6 PROTEIN 1, HIP-1, HUNTINGTIN-INTERACTING PROTEIN B, LYSINE N- COMPND 7 METHYLTRANSFERASE 3A, SET DOMAIN-CONTAINING PROTEIN 2, HSET2, COMPND 8 P231HBP; COMPND 9 EC: 2.1.1.43; COMPND 10 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: SETD2, HIF1, HYPB, KIAA1732, KMT3A, SET2, HSPC069; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21-V2R-PRARE2; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET28-LIC KEYWDS METHYLTRANSFERASE, SET DOMAIN-CONTAINING PROTEIN 2, S-ADENOSYL-L- KEYWDS 2 HOMOCYSTEINE, STRUCTURAL GENOMICS, STRUCTURAL GENOMICS CONSORTIUM, KEYWDS 3 SGC, ACTIVATOR, CHROMATIN REGULATOR, DNA-BINDING, METHYLATION, KEYWDS 4 NUCLEUS, PHOSPHOPROTEIN, TRANSCRIPTION, TRANSCRIPTION REGULATION, KEYWDS 5 TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR M.F.AMAYA,A.DONG,H.ZENG,F.MACKENZIE,M.BUNNAGE,J.WEIGELT,C.BOUNTRA, AUTHOR 2 C.H.ARROWSMITH,A.M.EDWARDS,J.MIN,H.WU,STRUCTURAL GENOMICS CONSORTIUM AUTHOR 3 (SGC) REVDAT 4 13-SEP-23 4H12 1 REMARK LINK REVDAT 3 14-NOV-12 4H12 1 JRNL REVDAT 2 24-OCT-12 4H12 1 JRNL REVDAT 1 03-OCT-12 4H12 0 SPRSDE 03-OCT-12 4H12 3H6L JRNL AUTH W.ZHENG,G.IBANEZ,H.WU,G.BLUM,H.ZENG,A.DONG,F.LI,T.HAJIAN, JRNL AUTH 2 A.ALLALI-HASSANI,M.F.AMAYA,A.SIARHEYEVA,W.YU,P.J.BROWN, JRNL AUTH 3 M.SCHAPIRA,M.VEDADI,J.MIN,M.LUO JRNL TITL SINEFUNGIN DERIVATIVES AS INHIBITORS AND STRUCTURE PROBES OF JRNL TITL 2 PROTEIN LYSINE METHYLTRANSFERASE SETD2. JRNL REF J.AM.CHEM.SOC. V. 134 18004 2012 JRNL REFN ISSN 0002-7863 JRNL PMID 23043551 JRNL DOI 10.1021/JA307060P REMARK 2 REMARK 2 RESOLUTION. 2.06 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 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) : 2.06 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 38.36 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 3 NUMBER OF REFLECTIONS : 18905 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) : 0.210 REMARK 3 R VALUE (WORKING SET) : 0.207 REMARK 3 FREE R VALUE : 0.249 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1011 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) : 2.06 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.11 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1342 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 97.72 REMARK 3 BIN R VALUE (WORKING SET) : 0.3320 REMARK 3 BIN FREE R VALUE SET COUNT : 71 REMARK 3 BIN FREE R VALUE : 0.3420 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1778 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 30 REMARK 3 SOLVENT ATOMS : 124 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 39.61 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 5.62000 REMARK 3 B22 (A**2) : -4.55000 REMARK 3 B33 (A**2) : -1.07000 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): 0.182 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.168 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.126 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 10.679 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.949 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.923 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1853 ; 0.009 ; 0.020 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2506 ; 1.251 ; 1.954 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 233 ; 5.630 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 87 ;34.318 ;24.023 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 288 ;12.749 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 11 ;19.050 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 264 ; 0.085 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1434 ; 0.005 ; 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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 : 1 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 3 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 1447 A 1691 REMARK 3 RESIDUE RANGE : A 1801 A 1805 REMARK 3 RESIDUE RANGE : A 1901 A 2024 REMARK 3 ORIGIN FOR THE GROUP (A): 1.8258 16.0767 14.4687 REMARK 3 T TENSOR REMARK 3 T11: 0.0179 T22: 0.0471 REMARK 3 T33: 0.0178 T12: -0.0196 REMARK 3 T13: -0.0034 T23: 0.0068 REMARK 3 L TENSOR REMARK 3 L11: 1.3620 L22: 3.0820 REMARK 3 L33: 0.9939 L12: -1.2652 REMARK 3 L13: -0.4221 L23: 0.4505 REMARK 3 S TENSOR REMARK 3 S11: -0.0397 S12: -0.0916 S13: -0.0266 REMARK 3 S21: 0.1361 S22: 0.0065 S23: 0.0011 REMARK 3 S31: 0.0736 S32: -0.0018 S33: 0.0332 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN USED IF PRESENT IN REMARK 3 THE INPUT REMARK 4 REMARK 4 4H12 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 11-SEP-12. REMARK 100 THE DEPOSITION ID IS D_1000074884. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 18-MAR-09 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 : APS REMARK 200 BEAMLINE : 19-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97935 REMARK 200 MONOCHROMATOR : SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-3000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK, HKL-3000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 21811 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.991 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 (%) : 98.9 REMARK 200 DATA REDUNDANCY : 6.900 REMARK 200 R MERGE (I) : 0.10100 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 8.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.99 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.03 REMARK 200 COMPLETENESS FOR SHELL (%) : 90.7 REMARK 200 DATA REDUNDANCY IN SHELL : 2.90 REMARK 200 R MERGE FOR SHELL (I) : 0.75300 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> 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: MOLREP REMARK 200 STARTING MODEL: PDB ENTRY 2R3A REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 49.78 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.45 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1 UL PROTEIN (1:10 MOLAR RATIO OF REMARK 280 SETD2:ADOMET) + 1 UL RESERVOIR SOLUTION (30% PEG2000 MME, 0.1 M REMARK 280 POTASSIUM THIOCYANATE), VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 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 26.14650 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 39.04650 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 38.33150 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 39.04650 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 26.14650 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 38.33150 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 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 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 1434 REMARK 465 GLU A 1435 REMARK 465 THR A 1436 REMARK 465 SER A 1437 REMARK 465 VAL A 1438 REMARK 465 PRO A 1439 REMARK 465 PRO A 1440 REMARK 465 GLY A 1441 REMARK 465 SER A 1442 REMARK 465 ALA A 1443 REMARK 465 LEU A 1444 REMARK 465 VAL A 1445 REMARK 465 GLY A 1446 REMARK 465 ARG A 1485 REMARK 465 LYS A 1486 REMARK 465 LYS A 1487 REMARK 465 ASN A 1488 REMARK 465 LYS A 1489 REMARK 465 SER A 1490 REMARK 465 HIS A 1491 REMARK 465 ARG A 1492 REMARK 465 ASP A 1493 REMARK 465 ILE A 1494 REMARK 465 LYS A 1495 REMARK 465 ARG A 1496 REMARK 465 GLU A 1692 REMARK 465 ASN A 1693 REMARK 465 ARG A 1694 REMARK 465 VAL A 1695 REMARK 465 SER A 1696 REMARK 465 ILE A 1697 REMARK 465 ARG A 1698 REMARK 465 ALA A 1699 REMARK 465 ALA A 1700 REMARK 465 GLY A 1701 REMARK 465 GLY A 1702 REMARK 465 LYS A 1703 REMARK 465 MET A 1704 REMARK 465 LYS A 1705 REMARK 465 LYS A 1706 REMARK 465 GLU A 1707 REMARK 465 ARG A 1708 REMARK 465 SER A 1709 REMARK 465 ARG A 1710 REMARK 465 LYS A 1711 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 VAL A1450 CG1 CG2 REMARK 470 ARG A1455 CD NE CZ NH1 NH2 REMARK 470 GLN A1458 CG CD OE1 NE2 REMARK 470 ARG A1459 CG CD NE CZ NH1 NH2 REMARK 470 GLU A1462 CG CD OE1 OE2 REMARK 470 LYS A1465 CG CD CE NZ REMARK 470 GLN A1466 CG CD OE1 NE2 REMARK 470 LYS A1468 CG CD CE NZ REMARK 470 GLU A1478 CG CD OE1 OE2 REMARK 470 GLU A1484 CG CD OE1 OE2 REMARK 470 MET A1497 CG SD CE REMARK 470 GLN A1498 CG CD OE1 NE2 REMARK 470 GLU A1500 CG CD OE1 OE2 REMARK 470 LEU A1504 CD1 CD2 REMARK 470 LYS A1506 CG CD CE NZ REMARK 470 ARG A1509 CG CD NE CZ NH1 NH2 REMARK 470 GLU A1513 CD OE1 OE2 REMARK 470 GLU A1518 CG CD OE1 OE2 REMARK 470 ARG A1532 CD NE CZ NH1 NH2 REMARK 470 GLU A1558 CD OE1 OE2 REMARK 470 LYS A1568 CG CD CE NZ REMARK 470 LYS A1600 CE NZ REMARK 470 ILE A1602 CD1 REMARK 470 LYS A1610 CE NZ REMARK 470 LYS A1673 CG CD CE NZ REMARK 470 GLU A1674 CG CD OE1 OE2 REMARK 470 ASN A1684 CG OD1 ND2 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 ASN A1541 40.51 -105.07 REMARK 500 VAL A1576 -65.84 -92.80 REMARK 500 ASN A1622 -167.41 -127.77 REMARK 500 PHE A1668 -8.32 73.57 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 A1801 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A1499 SG REMARK 620 2 CYS A1501 SG 107.5 REMARK 620 3 CYS A1516 SG 108.9 104.3 REMARK 620 4 CYS A1520 SG 113.8 107.7 114.0 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A1802 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A1516 SG REMARK 620 2 CYS A1529 SG 117.3 REMARK 620 3 CYS A1533 SG 94.1 116.2 REMARK 620 4 CYS A1539 SG 113.0 102.7 114.1 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A1803 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A1631 SG REMARK 620 2 CYS A1678 SG 116.7 REMARK 620 3 CYS A1680 SG 107.2 108.6 REMARK 620 4 CYS A1685 SG 108.3 107.3 108.6 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 1801 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 1802 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 1803 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SAH A 1804 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 1805 DBREF 4H12 A 1434 1711 UNP Q9BYW2 SETD2_HUMAN 1434 1711 SEQRES 1 A 278 GLY GLU THR SER VAL PRO PRO GLY SER ALA LEU VAL GLY SEQRES 2 A 278 PRO SER CYS VAL MET ASP ASP PHE ARG ASP PRO GLN ARG SEQRES 3 A 278 TRP LYS GLU CYS ALA LYS GLN GLY LYS MET PRO CYS TYR SEQRES 4 A 278 PHE ASP LEU ILE GLU GLU ASN VAL TYR LEU THR GLU ARG SEQRES 5 A 278 LYS LYS ASN LYS SER HIS ARG ASP ILE LYS ARG MET GLN SEQRES 6 A 278 CYS GLU CYS THR PRO LEU SER LYS ASP GLU ARG ALA GLN SEQRES 7 A 278 GLY GLU ILE ALA CYS GLY GLU ASP CYS LEU ASN ARG LEU SEQRES 8 A 278 LEU MET ILE GLU CYS SER SER ARG CYS PRO ASN GLY ASP SEQRES 9 A 278 TYR CYS SER ASN ARG ARG PHE GLN ARG LYS GLN HIS ALA SEQRES 10 A 278 ASP VAL GLU VAL ILE LEU THR GLU LYS LYS GLY TRP GLY SEQRES 11 A 278 LEU ARG ALA ALA LYS ASP LEU PRO SER ASN THR PHE VAL SEQRES 12 A 278 LEU GLU TYR CYS GLY GLU VAL LEU ASP HIS LYS GLU PHE SEQRES 13 A 278 LYS ALA ARG VAL LYS GLU TYR ALA ARG ASN LYS ASN ILE SEQRES 14 A 278 HIS TYR TYR PHE MET ALA LEU LYS ASN ASP GLU ILE ILE SEQRES 15 A 278 ASP ALA THR GLN LYS GLY ASN CYS SER ARG PHE MET ASN SEQRES 16 A 278 HIS SER CYS GLU PRO ASN CYS GLU THR GLN LYS TRP THR SEQRES 17 A 278 VAL ASN GLY GLN LEU ARG VAL GLY PHE PHE THR THR LYS SEQRES 18 A 278 LEU VAL PRO SER GLY SER GLU LEU THR PHE ASP TYR GLN SEQRES 19 A 278 PHE GLN ARG TYR GLY LYS GLU ALA GLN LYS CYS PHE CYS SEQRES 20 A 278 GLY SER ALA ASN CYS ARG GLY TYR LEU GLY GLY GLU ASN SEQRES 21 A 278 ARG VAL SER ILE ARG ALA ALA GLY GLY LYS MET LYS LYS SEQRES 22 A 278 GLU ARG SER ARG LYS HET ZN A1801 1 HET ZN A1802 1 HET ZN A1803 1 HET SAH A1804 26 HET CL A1805 1 HETNAM ZN ZINC ION HETNAM SAH S-ADENOSYL-L-HOMOCYSTEINE HETNAM CL CHLORIDE ION FORMUL 2 ZN 3(ZN 2+) FORMUL 5 SAH C14 H20 N6 O5 S FORMUL 6 CL CL 1- FORMUL 7 HOH *124(H2 O) HELIX 1 1 ASP A 1452 ARG A 1455 5 4 HELIX 2 2 ASP A 1456 GLN A 1466 1 11 HELIX 3 3 SER A 1505 GLY A 1512 1 8 HELIX 4 4 ASN A 1522 MET A 1526 5 5 HELIX 5 5 ASN A 1535 CYS A 1539 5 5 HELIX 6 6 ASP A 1585 ASN A 1599 1 15 HELIX 7 7 ASN A 1622 MET A 1627 5 6 SHEET 1 A 5 SER A1448 VAL A1450 0 SHEET 2 A 5 VAL A1552 LEU A1556 -1 O VAL A1554 N CYS A1449 SHEET 3 A 5 TRP A1562 ALA A1566 -1 O ARG A1565 N GLU A1553 SHEET 4 A 5 GLU A1661 PHE A1664 -1 O LEU A1662 N LEU A1564 SHEET 5 A 5 ASN A1628 HIS A1629 1 N ASN A1628 O PHE A1664 SHEET 1 B 2 ASP A1474 LEU A1475 0 SHEET 2 B 2 LYS A1620 GLY A1621 1 O GLY A1621 N ASP A1474 SHEET 1 C 5 VAL A1480 TYR A1481 0 SHEET 2 C 5 GLU A1582 LEU A1584 1 O VAL A1583 N VAL A1480 SHEET 3 C 5 GLU A1613 ASP A1616 -1 O ILE A1614 N LEU A1584 SHEET 4 C 5 PHE A1606 LYS A1610 -1 N MET A1607 O ILE A1615 SHEET 5 C 5 ARG A1670 TYR A1671 -1 O TYR A1671 N PHE A1606 SHEET 1 D 3 PHE A1575 GLU A1578 0 SHEET 2 D 3 GLN A1645 THR A1652 -1 O PHE A1650 N VAL A1576 SHEET 3 D 3 CYS A1635 VAL A1642 -1 N VAL A1642 O GLN A1645 SHEET 1 E 2 GLN A1676 LYS A1677 0 SHEET 2 E 2 TYR A1688 LEU A1689 -1 O LEU A1689 N GLN A1676 LINK SG CYS A1499 ZN ZN A1801 1555 1555 2.22 LINK SG CYS A1501 ZN ZN A1801 1555 1555 2.27 LINK SG CYS A1516 ZN ZN A1801 1555 1555 2.39 LINK SG CYS A1516 ZN ZN A1802 1555 1555 2.35 LINK SG CYS A1520 ZN ZN A1801 1555 1555 2.40 LINK SG CYS A1529 ZN ZN A1802 1555 1555 2.35 LINK SG CYS A1533 ZN ZN A1802 1555 1555 2.24 LINK SG CYS A1539 ZN ZN A1802 1555 1555 2.29 LINK SG CYS A1631 ZN ZN A1803 1555 1555 2.43 LINK SG CYS A1678 ZN ZN A1803 1555 1555 2.23 LINK SG CYS A1680 ZN ZN A1803 1555 1555 2.36 LINK SG CYS A1685 ZN ZN A1803 1555 1555 2.43 SITE 1 AC1 4 CYS A1499 CYS A1501 CYS A1516 CYS A1520 SITE 1 AC2 4 CYS A1516 CYS A1529 CYS A1533 CYS A1539 SITE 1 AC3 4 CYS A1631 CYS A1678 CYS A1680 CYS A1685 SITE 1 AC4 22 LYS A1560 GLY A1561 TRP A1562 ILE A1602 SITE 2 AC4 22 HIS A1603 TYR A1604 TYR A1605 ARG A1625 SITE 3 AC4 22 PHE A1626 ASN A1628 HIS A1629 TYR A1666 SITE 4 AC4 22 ARG A1670 GLN A1676 LYS A1677 CYS A1678 SITE 5 AC4 22 PHE A1679 LEU A1689 HOH A1914 HOH A1922 SITE 6 AC4 22 HOH A1963 HOH A1982 SITE 1 AC5 3 GLU A1558 LYS A1559 LYS A1560 CRYST1 52.293 76.663 78.093 90.00 90.00 90.00 P 21 21 21 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 0.019123 0.000000 0.000000 0.00000 SCALE2 0.000000 0.013044 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012805 0.00000