PDB Short entry for 3QWP HEADER TRANSFERASE 28-FEB-11 3QWP TITLE CRYSTAL STRUCTURE OF SET AND MYND DOMAIN CONTAINING 3; ZINC FINGER TITLE 2 MYND DOMAIN-CONTAINING PROTEIN 1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: SET AND MYND DOMAIN-CONTAINING PROTEIN 3; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: ZINC FINGER MYND DOMAIN-CONTAINING PROTEIN 1; COMPND 5 EC: 2.1.1.43; COMPND 6 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: SMYD3, ZMYND1, ZNFN3A1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3) V2RPRARE; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET28-MHL KEYWDS SMYD3, SET AND MYND DOMAIN, ZINC FINGER MYND DOMAIN-CONTAINING KEYWDS 2 PROTEIN 1, STRUCTURAL GENOMICS, STRUCTURAL GENOMICS CONSORTIUM, SGC, KEYWDS 3 TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR A.DONG,L.DOMBROVSKI,Y.LI,A.WERNIMONT,J.WEIGELT,C.BOUNTRA, AUTHOR 2 C.H.ARROWSMITH,A.M.EDWARDS,J.MIN,H.WU,STRUCTURAL GENOMICS CONSORTIUM AUTHOR 3 (SGC) REVDAT 2 13-SEP-23 3QWP 1 REMARK SEQADV LINK REVDAT 1 06-APR-11 3QWP 0 JRNL AUTH L.DOMBROVSKI,A.DONG,H.WU,J.MIN JRNL TITL THE CRYSTAL STRUCTURE OF HUMAN HISTONE-LYSINE JRNL TITL 2 N-METHYLTRANSFERASE SMYD3 JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.53 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0102 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) : 1.53 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 40.39 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 3 NUMBER OF REFLECTIONS : 62914 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) : 0.177 REMARK 3 R VALUE (WORKING SET) : 0.174 REMARK 3 FREE R VALUE : 0.217 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 3372 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) : 1.53 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.57 REMARK 3 REFLECTION IN BIN (WORKING SET) : 4245 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 92.40 REMARK 3 BIN R VALUE (WORKING SET) : 0.2610 REMARK 3 BIN FREE R VALUE SET COUNT : 220 REMARK 3 BIN FREE R VALUE : 0.2970 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3348 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 78 REMARK 3 SOLVENT ATOMS : 485 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 15.80 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 18.25 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.61000 REMARK 3 B22 (A**2) : -0.31000 REMARK 3 B33 (A**2) : -0.31000 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): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.085 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.051 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.378 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.964 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.941 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3598 ; 0.016 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4862 ; 1.507 ; 1.986 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 447 ; 6.473 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 165 ;34.494 ;24.182 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 636 ;13.134 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 26 ;16.669 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 530 ; 0.121 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2707 ; 0.017 ; 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): 2202 ; 1.599 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3557 ; 2.532 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1396 ; 3.899 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1305 ; 6.013 ; 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 3QWP COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 02-MAR-11. REMARK 100 THE DEPOSITION ID IS D_1000064198. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 08-DEC-10 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) : 0.97929 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-3000 REMARK 200 DATA SCALING SOFTWARE : HKL-3000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 66393 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.530 REMARK 200 RESOLUTION RANGE LOW (A) : 100.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 200 DATA REDUNDANCY : 8.100 REMARK 200 R MERGE (I) : 0.07400 REMARK 200 R SYM (I) : 0.07400 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 30.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.53 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.56 REMARK 200 COMPLETENESS FOR SHELL (%) : 92.3 REMARK 200 DATA REDUNDANCY IN SHELL : 4.30 REMARK 200 R MERGE FOR SHELL (I) : 0.56400 REMARK 200 R SYM FOR SHELL (I) : 0.56400 REMARK 200 <I/SIGMA(I)> FOR SHELL : 1.700 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: PDB ENTRY 3MEK REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.42 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.21 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20% PEG 3350, 0.2M CACL2, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 297K 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 30.65150 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 53.69350 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 33.10300 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 53.69350 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 30.65150 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 33.10300 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 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 0 REMARK 465 MET A 1 REMARK 465 GLU A 2 REMARK 465 SER A 428 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 25 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 56 CG CD CE NZ REMARK 470 GLU A 57 CG CD OE1 OE2 REMARK 470 LYS A 58 CG CD CE NZ REMARK 470 GLN A 64 CD OE1 NE2 REMARK 470 LYS A 74 CE NZ REMARK 470 LYS A 77 CD CE NZ REMARK 470 LYS A 78 CD CE NZ REMARK 470 LYS A 88 CG CD CE NZ REMARK 470 LYS A 91 CE NZ REMARK 470 LYS A 94 CG CD CE NZ REMARK 470 ARG A 96 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 111 NZ REMARK 470 GLU A 119 CD OE1 OE2 REMARK 470 LYS A 301 CE NZ REMARK 470 ARG A 406 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 OD1 ASP A 262 O HOH A 879 1.44 REMARK 500 OD2 ASP A 262 O HOH A 860 2.11 REMARK 500 O HOH A 651 O HOH A 669 2.14 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 CYS A 71 CB CYS A 71 SG -0.162 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 ASN A 13 11.77 -144.20 REMARK 500 LYS A 271 -8.65 76.45 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 A 501 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 49 SG REMARK 620 2 CYS A 52 SG 106.6 REMARK 620 3 CYS A 71 SG 114.0 109.5 REMARK 620 4 CYS A 75 SG 107.1 118.0 101.8 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 500 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 62 SG REMARK 620 2 CYS A 65 SG 110.6 REMARK 620 3 HIS A 83 NE2 114.1 101.5 REMARK 620 4 CYS A 87 SG 110.7 113.4 106.1 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 502 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 208 SG REMARK 620 2 CYS A 261 SG 100.6 REMARK 620 3 CYS A 261 SG 126.5 26.0 REMARK 620 4 CYS A 263 SG 98.3 113.7 106.2 REMARK 620 5 CYS A 263 SG 117.8 113.5 97.4 20.9 REMARK 620 6 CYS A 266 SG 99.2 119.4 108.5 119.0 105.9 REMARK 620 N 1 2 3 4 5 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 500 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SAM A 510 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 3001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 3004 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 3005 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 3006 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 3007 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 3008 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 3009 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 3010 DBREF 3QWP A 1 428 UNP Q9H7B4 SMYD3_HUMAN 1 428 SEQADV 3QWP GLY A 0 UNP Q9H7B4 EXPRESSION TAG SEQADV 3QWP ASN A 13 UNP Q9H7B4 LYS 13 CONFLICT SEQADV 3QWP ARG A 140 UNP Q9H7B4 LYS 140 CONFLICT SEQRES 1 A 429 GLY MET GLU PRO LEU LYS VAL GLU LYS PHE ALA THR ALA SEQRES 2 A 429 ASN ARG GLY ASN GLY LEU ARG ALA VAL THR PRO LEU ARG SEQRES 3 A 429 PRO GLY GLU LEU LEU PHE ARG SER ASP PRO LEU ALA TYR SEQRES 4 A 429 THR VAL CYS LYS GLY SER ARG GLY VAL VAL CYS ASP ARG SEQRES 5 A 429 CYS LEU LEU GLY LYS GLU LYS LEU MET ARG CYS SER GLN SEQRES 6 A 429 CYS ARG VAL ALA LYS TYR CYS SER ALA LYS CYS GLN LYS SEQRES 7 A 429 LYS ALA TRP PRO ASP HIS LYS ARG GLU CYS LYS CYS LEU SEQRES 8 A 429 LYS SER CYS LYS PRO ARG TYR PRO PRO ASP SER VAL ARG SEQRES 9 A 429 LEU LEU GLY ARG VAL VAL PHE LYS LEU MET ASP GLY ALA SEQRES 10 A 429 PRO SER GLU SER GLU LYS LEU TYR SER PHE TYR ASP LEU SEQRES 11 A 429 GLU SER ASN ILE ASN LYS LEU THR GLU ASP ARG LYS GLU SEQRES 12 A 429 GLY LEU ARG GLN LEU VAL MET THR PHE GLN HIS PHE MET SEQRES 13 A 429 ARG GLU GLU ILE GLN ASP ALA SER GLN LEU PRO PRO ALA SEQRES 14 A 429 PHE ASP LEU PHE GLU ALA PHE ALA LYS VAL ILE CYS ASN SEQRES 15 A 429 SER PHE THR ILE CYS ASN ALA GLU MET GLN GLU VAL GLY SEQRES 16 A 429 VAL GLY LEU TYR PRO SER ILE SER LEU LEU ASN HIS SER SEQRES 17 A 429 CYS ASP PRO ASN CYS SER ILE VAL PHE ASN GLY PRO HIS SEQRES 18 A 429 LEU LEU LEU ARG ALA VAL ARG ASP ILE GLU VAL GLY GLU SEQRES 19 A 429 GLU LEU THR ILE CYS TYR LEU ASP MET LEU MET THR SER SEQRES 20 A 429 GLU GLU ARG ARG LYS GLN LEU ARG ASP GLN TYR CYS PHE SEQRES 21 A 429 GLU CYS ASP CYS PHE ARG CYS GLN THR GLN ASP LYS ASP SEQRES 22 A 429 ALA ASP MET LEU THR GLY ASP GLU GLN VAL TRP LYS GLU SEQRES 23 A 429 VAL GLN GLU SER LEU LYS LYS ILE GLU GLU LEU LYS ALA SEQRES 24 A 429 HIS TRP LYS TRP GLU GLN VAL LEU ALA MET CYS GLN ALA SEQRES 25 A 429 ILE ILE SER SER ASN SER GLU ARG LEU PRO ASP ILE ASN SEQRES 26 A 429 ILE TYR GLN LEU LYS VAL LEU ASP CYS ALA MET ASP ALA SEQRES 27 A 429 CYS ILE ASN LEU GLY LEU LEU GLU GLU ALA LEU PHE TYR SEQRES 28 A 429 GLY THR ARG THR MET GLU PRO TYR ARG ILE PHE PHE PRO SEQRES 29 A 429 GLY SER HIS PRO VAL ARG GLY VAL GLN VAL MET LYS VAL SEQRES 30 A 429 GLY LYS LEU GLN LEU HIS GLN GLY MET PHE PRO GLN ALA SEQRES 31 A 429 MET LYS ASN LEU ARG LEU ALA PHE ASP ILE MET ARG VAL SEQRES 32 A 429 THR HIS GLY ARG GLU HIS SER LEU ILE GLU ASP LEU ILE SEQRES 33 A 429 LEU LEU LEU GLU GLU CYS ASP ALA ASN ILE ARG ALA SER HET ZN A 500 1 HET ZN A 501 1 HET ZN A 502 1 HET SAM A 510 27 HET GOL A3001 6 HET GOL A3004 6 HET GOL A3005 6 HET GOL A3006 6 HET GOL A3007 6 HET GOL A3008 6 HET GOL A3009 6 HET GOL A3010 6 HETNAM ZN ZINC ION HETNAM SAM S-ADENOSYLMETHIONINE HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 ZN 3(ZN 2+) FORMUL 5 SAM C15 H22 N6 O5 S FORMUL 6 GOL 8(C3 H8 O3) FORMUL 14 HOH *485(H2 O) HELIX 1 1 LYS A 42 ARG A 45 5 4 HELIX 2 2 SER A 72 ALA A 79 1 8 HELIX 3 3 ALA A 79 CYS A 93 1 15 HELIX 4 4 PRO A 99 GLY A 115 1 17 HELIX 5 5 SER A 118 LYS A 122 5 5 HELIX 6 6 SER A 125 LEU A 129 5 5 HELIX 7 7 ASN A 132 LEU A 136 5 5 HELIX 8 8 THR A 137 MET A 155 1 19 HELIX 9 9 ASP A 161 LEU A 165 5 5 HELIX 10 10 ASP A 170 SER A 182 1 13 HELIX 11 11 SER A 200 LEU A 204 5 5 HELIX 12 12 THR A 245 CYS A 258 1 14 HELIX 13 13 CYS A 263 GLN A 269 1 7 HELIX 14 14 LYS A 271 LEU A 276 1 6 HELIX 15 15 ASP A 279 HIS A 299 1 21 HELIX 16 16 LYS A 301 SER A 314 1 14 HELIX 17 17 ASN A 324 GLY A 342 1 19 HELIX 18 18 LEU A 343 PHE A 362 1 20 HELIX 19 19 HIS A 366 GLN A 383 1 18 HELIX 20 20 MET A 385 HIS A 404 1 20 HELIX 21 21 HIS A 408 ALA A 427 1 20 SHEET 1 A 4 VAL A 6 ALA A 10 0 SHEET 2 A 4 ASN A 16 ALA A 20 -1 O GLY A 17 N PHE A 9 SHEET 3 A 4 GLU A 234 ILE A 237 -1 O LEU A 235 N LEU A 18 SHEET 4 A 4 ASN A 205 HIS A 206 1 N ASN A 205 O ILE A 237 SHEET 1 B 3 LEU A 29 SER A 33 0 SHEET 2 B 3 HIS A 220 ALA A 225 -1 O LEU A 223 N LEU A 30 SHEET 3 B 3 CYS A 212 ASN A 217 -1 N ASN A 217 O HIS A 220 SHEET 1 C 3 ALA A 37 VAL A 40 0 SHEET 2 C 3 GLU A 192 LEU A 197 -1 O LEU A 197 N ALA A 37 SHEET 3 C 3 PHE A 183 CYS A 186 -1 N ILE A 185 O VAL A 193 SHEET 1 D 2 MET A 60 ARG A 61 0 SHEET 2 D 2 LYS A 69 TYR A 70 -1 O TYR A 70 N MET A 60 LINK SG CYS A 49 ZN ZN A 501 1555 1555 2.39 LINK SG CYS A 52 ZN ZN A 501 1555 1555 2.23 LINK SG CYS A 62 ZN ZN A 500 1555 1555 2.26 LINK SG CYS A 65 ZN ZN A 500 1555 1555 2.38 LINK SG CYS A 71 ZN ZN A 501 1555 1555 2.27 LINK SG CYS A 75 ZN ZN A 501 1555 1555 2.32 LINK NE2 HIS A 83 ZN ZN A 500 1555 1555 2.08 LINK SG CYS A 87 ZN ZN A 500 1555 1555 2.38 LINK SG CYS A 208 ZN ZN A 502 1555 1555 2.46 LINK SG ACYS A 261 ZN ZN A 502 1555 1555 2.30 LINK SG BCYS A 261 ZN ZN A 502 1555 1555 2.34 LINK SG ACYS A 263 ZN ZN A 502 1555 1555 2.16 LINK SG BCYS A 263 ZN ZN A 502 1555 1555 2.49 LINK SG CYS A 266 ZN ZN A 502 1555 1555 2.33 CISPEP 1 LYS A 94 PRO A 95 0 12.79 SITE 1 AC1 4 CYS A 62 CYS A 65 HIS A 83 CYS A 87 SITE 1 AC2 4 CYS A 49 CYS A 52 CYS A 71 CYS A 75 SITE 1 AC3 4 CYS A 208 CYS A 261 CYS A 263 CYS A 266 SITE 1 AC4 22 ARG A 14 ASN A 16 TYR A 124 GLU A 130 SITE 2 AC4 22 ASN A 132 ASN A 181 SER A 202 LEU A 203 SITE 3 AC4 22 LEU A 204 ASN A 205 HIS A 206 TYR A 239 SITE 4 AC4 22 TYR A 257 PHE A 259 HOH A 491 HOH A 497 SITE 5 AC4 22 HOH A 512 HOH A 564 HOH A 567 HOH A 629 SITE 6 AC4 22 HOH A 679 GOL A3001 SITE 1 AC5 11 ASN A 181 SER A 182 PHE A 183 SER A 202 SITE 2 AC5 11 ILE A 237 TYR A 239 TYR A 257 SAM A 510 SITE 3 AC5 11 HOH A 518 HOH A 751 GOL A3004 SITE 1 AC6 6 SER A 182 PHE A 183 THR A 184 HOH A 553 SITE 2 AC6 6 HOH A 591 GOL A3001 SITE 1 AC7 7 GLN A 191 LYS A 297 ASP A 332 ASP A 336 SITE 2 AC7 7 TYR A 358 GLN A 372 LYS A 375 SITE 1 AC8 5 PHE A 151 GLN A 152 ILE A 159 GLN A 160 SITE 2 AC8 5 HOH A 724 SITE 1 AC9 4 ARG A 140 ILE A 179 GLN A 256 HOH A 640 SITE 1 BC1 7 ASP A 82 PHE A 110 ASP A 114 GLU A 142 SITE 2 BC1 7 HOH A 582 HOH A 685 HOH A 876 SITE 1 BC2 7 CYS A 238 LEU A 240 MET A 242 HIS A 366 SITE 2 BC2 7 HOH A 494 HOH A 591 GOL A3010 SITE 1 BC3 9 ILE A 214 VAL A 215 HIS A 366 PRO A 367 SITE 2 BC3 9 VAL A 368 HOH A 520 HOH A 535 HOH A 553 SITE 3 BC3 9 GOL A3009 CRYST1 61.303 66.206 107.387 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 0.016312 0.000000 0.000000 0.00000 SCALE2 0.000000 0.015104 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009312 0.00000