PDB Short entry for 5DKD HEADER HYDROLASE 03-SEP-15 5DKD TITLE CRYSTAL STRUCTURE OF THE BROMODOMAIN OF HUMAN BRG1 (SMARCA4) IN TITLE 2 COMPLEX WITH PFI-3 CHEMICAL PROBE COMPND MOL_ID: 1; COMPND 2 MOLECULE: TRANSCRIPTION ACTIVATOR BRG1; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: UNP RESIDUES 1418-1536; COMPND 5 SYNONYM: ATP-DEPENDENT HELICASE SMARCA4,BRG1-ASSOCIATED FACTOR 190A, COMPND 6 BAF190A,MITOTIC GROWTH AND TRANSCRIPTION ACTIVATOR,PROTEIN BRG-1, COMPND 7 PROTEIN BRAHMA HOMOLOG 1,SNF2-BETA,SWI/SNF-RELATED MATRIX-ASSOCIATED COMPND 8 ACTIN-DEPENDENT REGULATOR OF CHROMATIN SUBFAMILY A MEMBER 4; COMPND 9 EC: 3.6.4.-; 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: SMARCA4, BAF190A, BRG1, SNF2B, SNF2L4; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PNIC28-BSA4 KEYWDS SWI-SNF COMPLEX, CHROMATIN REMODELING, BRG ASSOCIATED FACTORS (BAF), KEYWDS 2 TRANSCRIPTION, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR C.TALLANT,D.R.OWEN,B.S.GERSTENBERGER,O.FEDOROV,P.SAVITSKY,G.NUNEZ- AUTHOR 2 ALONSO,J.A.NEWMAN,P.FILIPPAKOPOULOS,N.BURGESS-BROWN,F.VON DELFT, AUTHOR 3 C.H.ARROWSMITH,A.M.EDWARDS,C.BOUNTRA,S.MULLER,S.KNAPP REVDAT 2 10-JAN-24 5DKD 1 LINK REVDAT 1 14-OCT-15 5DKD 0 JRNL AUTH C.TALLANT,D.R.OWEN,B.S.GERSTENBERGER,O.FEDOROV,P.SAVITSKY, JRNL AUTH 2 G.NUNEZ-ALONSO,J.A.NEWMAN,P.FILIPPAKOPOULOS,N.BURGESS-BROWN, JRNL AUTH 3 F.VON DELFT,C.H.ARROWSMITH,A.M.EDWARDS,C.BOUNTRA,S.MULLER, JRNL AUTH 4 S.KNAPP JRNL TITL CRYSTAL STRUCTURE OF THE BROMODOMAIN OF HUMAN BRG1 (SMARCA4) JRNL TITL 2 IN COMPLEX WITH PFI-3 CHEMICAL PROBE JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0073 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) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.78 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 93.9 REMARK 3 NUMBER OF REFLECTIONS : 20159 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) : 0.269 REMARK 3 R VALUE (WORKING SET) : 0.268 REMARK 3 FREE R VALUE : 0.297 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.800 REMARK 3 FREE R VALUE TEST SET COUNT : 1027 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) : 2.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.05 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1479 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 95.64 REMARK 3 BIN R VALUE (WORKING SET) : 0.2330 REMARK 3 BIN FREE R VALUE SET COUNT : 80 REMARK 3 BIN FREE R VALUE : 0.2680 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1827 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 74 REMARK 3 SOLVENT ATOMS : 101 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 32.20 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 2.12000 REMARK 3 B22 (A**2) : -1.20000 REMARK 3 B33 (A**2) : -0.82000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.16000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.226 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.195 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.153 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 9.907 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.849 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.829 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1923 ; 0.015 ; 0.020 REMARK 3 BOND LENGTHS OTHERS (A): 1954 ; 0.004 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2563 ; 1.741 ; 2.029 REMARK 3 BOND ANGLES OTHERS (DEGREES): 4508 ; 1.246 ; 3.006 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 218 ; 6.168 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 86 ;31.766 ;24.419 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 401 ;16.667 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 14 ;15.155 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 286 ; 0.107 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2052 ; 0.009 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 420 ; 0.003 ; 0.020 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): 878 ; 1.773 ; 2.196 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 877 ; 1.771 ; 2.193 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1094 ; 2.708 ; 3.275 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 1095 ; 2.707 ; 3.279 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1045 ; 2.647 ; 2.651 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1044 ; 2.647 ; 2.651 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 1470 ; 4.260 ; 3.788 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 2324 ; 5.897 ;18.104 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 2297 ; 5.860 ;17.976 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 NCS TYPE: LOCAL REMARK 3 NUMBER OF DIFFERENT NCS PAIRS : 1 REMARK 3 GROUP CHAIN1 RANGE CHAIN2 RANGE COUNT RMS WEIGHT REMARK 3 1 A 1457 1566 B 1457 1566 6793 0.14 0.05 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 2 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 1457 B 1566 REMARK 3 ORIGIN FOR THE GROUP (A): 14.4062 12.9203 29.2681 REMARK 3 T TENSOR REMARK 3 T11: 0.0539 T22: 0.0274 REMARK 3 T33: 0.0540 T12: 0.0004 REMARK 3 T13: 0.0470 T23: -0.0019 REMARK 3 L TENSOR REMARK 3 L11: 0.5040 L22: 2.0513 REMARK 3 L33: 0.6872 L12: 0.1599 REMARK 3 L13: 0.4800 L23: 0.7407 REMARK 3 S TENSOR REMARK 3 S11: -0.0218 S12: -0.0156 S13: 0.0552 REMARK 3 S21: -0.0107 S22: -0.0920 S23: 0.0495 REMARK 3 S31: 0.0321 S32: -0.0356 S33: 0.1137 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 1457 B 1566 REMARK 3 ORIGIN FOR THE GROUP (A): 1.9528 4.1867 52.7679 REMARK 3 T TENSOR REMARK 3 T11: 0.0977 T22: 0.0144 REMARK 3 T33: 0.0334 T12: -0.0228 REMARK 3 T13: 0.0128 T23: 0.0081 REMARK 3 L TENSOR REMARK 3 L11: 1.2854 L22: 1.8019 REMARK 3 L33: 0.8299 L12: 0.9947 REMARK 3 L13: -0.4224 L23: -0.3813 REMARK 3 S TENSOR REMARK 3 S11: 0.0788 S12: -0.1140 S13: -0.0676 REMARK 3 S21: -0.1557 S22: -0.0305 S23: 0.0269 REMARK 3 S31: -0.1221 S32: 0.0616 S33: -0.0483 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 ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 5DKD COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 03-SEP-15. REMARK 100 THE DEPOSITION ID IS D_1000213340. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-APR-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.2 REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I03 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9207 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 21859 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 29.780 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.8 REMARK 200 DATA REDUNDANCY : 3.500 REMARK 200 R MERGE (I) : 0.07600 REMARK 200 R SYM (I) : 0.05400 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 9.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.05 REMARK 200 COMPLETENESS FOR SHELL (%) : 95.7 REMARK 200 DATA REDUNDANCY IN SHELL : 3.60 REMARK 200 R MERGE FOR SHELL (I) : 0.30400 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 3.300 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: 3UVD REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 58.78 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.98 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M BIS TRIS PH 7.2, 0.1 M AMMONIUM REMARK 280 ACETATE, 0.1 M ZNCL2, 15% PEG SMEAR HIGH (MIXTURE FROM PEG8K TO REMARK 280 20K), VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 277.15K 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 37.28300 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 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 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 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 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 SER A 1449 REMARK 465 MET A 1450 REMARK 465 LEU A 1451 REMARK 465 SER A 1452 REMARK 465 PRO A 1453 REMARK 465 ASN A 1454 REMARK 465 PRO A 1455 REMARK 465 PRO A 1456 REMARK 465 GLU A 1567 REMARK 465 ASP A 1568 REMARK 465 ASP A 1569 REMARK 465 SER B 1449 REMARK 465 MET B 1450 REMARK 465 LEU B 1451 REMARK 465 SER B 1452 REMARK 465 PRO B 1453 REMARK 465 ASN B 1454 REMARK 465 PRO B 1455 REMARK 465 PRO B 1456 REMARK 465 GLU B 1567 REMARK 465 ASP B 1568 REMARK 465 ASP B 1569 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 B1460 CD CE NZ 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 NE2 GLN B 1487 O HOH B 1701 1.97 REMARK 500 OE2 GLU B 1493 O HOH B 1702 2.08 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 ARG B1513 NE - CZ - NH2 ANGL. DEV. = -3.3 DEGREES 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 A1601 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A1517 ND1 REMARK 620 2 HOH A1740 O 100.7 REMARK 620 3 HOH B1712 O 102.6 92.0 REMARK 620 4 HOH B1719 O 103.2 153.0 70.6 REMARK 620 5 HOH B1723 O 109.3 86.2 147.7 97.5 REMARK 620 6 HOH B1747 O 171.9 84.2 83.5 73.6 64.3 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B1601 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A1709 O REMARK 620 2 HOH A1714 O 72.4 REMARK 620 3 HOH A1735 O 156.6 99.1 REMARK 620 4 HOH A1750 O 82.4 71.4 74.2 REMARK 620 5 HIS B1517 ND1 98.3 103.9 105.0 174.9 REMARK 620 6 HOH B1741 O 96.5 151.4 80.6 81.1 103.8 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 1601 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 1602 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 1603 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 1604 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 5BW A 1605 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN B 1601 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO B 1602 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO B 1603 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO B 1604 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 5BW B 1605 DBREF 5DKD A 1451 1569 UNP P51532 SMCA4_HUMAN 1418 1536 DBREF 5DKD B 1451 1569 UNP P51532 SMCA4_HUMAN 1418 1536 SEQADV 5DKD SER A 1449 UNP P51532 EXPRESSION TAG SEQADV 5DKD MET A 1450 UNP P51532 EXPRESSION TAG SEQADV 5DKD SER B 1449 UNP P51532 EXPRESSION TAG SEQADV 5DKD MET B 1450 UNP P51532 EXPRESSION TAG SEQRES 1 A 121 SER MET LEU SER PRO ASN PRO PRO ASN LEU THR LYS LYS SEQRES 2 A 121 MET LYS LYS ILE VAL ASP ALA VAL ILE LYS TYR LYS ASP SEQRES 3 A 121 SER SER SER GLY ARG GLN LEU SER GLU VAL PHE ILE GLN SEQRES 4 A 121 LEU PRO SER ARG LYS GLU LEU PRO GLU TYR TYR GLU LEU SEQRES 5 A 121 ILE ARG LYS PRO VAL ASP PHE LYS LYS ILE LYS GLU ARG SEQRES 6 A 121 ILE ARG ASN HIS LYS TYR ARG SER LEU ASN ASP LEU GLU SEQRES 7 A 121 LYS ASP VAL MET LEU LEU CYS GLN ASN ALA GLN THR PHE SEQRES 8 A 121 ASN LEU GLU GLY SER LEU ILE TYR GLU ASP SER ILE VAL SEQRES 9 A 121 LEU GLN SER VAL PHE THR SER VAL ARG GLN LYS ILE GLU SEQRES 10 A 121 LYS GLU ASP ASP SEQRES 1 B 121 SER MET LEU SER PRO ASN PRO PRO ASN LEU THR LYS LYS SEQRES 2 B 121 MET LYS LYS ILE VAL ASP ALA VAL ILE LYS TYR LYS ASP SEQRES 3 B 121 SER SER SER GLY ARG GLN LEU SER GLU VAL PHE ILE GLN SEQRES 4 B 121 LEU PRO SER ARG LYS GLU LEU PRO GLU TYR TYR GLU LEU SEQRES 5 B 121 ILE ARG LYS PRO VAL ASP PHE LYS LYS ILE LYS GLU ARG SEQRES 6 B 121 ILE ARG ASN HIS LYS TYR ARG SER LEU ASN ASP LEU GLU SEQRES 7 B 121 LYS ASP VAL MET LEU LEU CYS GLN ASN ALA GLN THR PHE SEQRES 8 B 121 ASN LEU GLU GLY SER LEU ILE TYR GLU ASP SER ILE VAL SEQRES 9 B 121 LEU GLN SER VAL PHE THR SER VAL ARG GLN LYS ILE GLU SEQRES 10 B 121 LYS GLU ASP ASP HET ZN A1601 1 HET EDO A1602 4 HET EDO A1603 4 HET EDO A1604 4 HET 5BW A1605 24 HET ZN B1601 1 HET EDO B1602 4 HET EDO B1603 4 HET EDO B1604 4 HET 5BW B1605 24 HETNAM ZN ZINC ION HETNAM EDO 1,2-ETHANEDIOL HETNAM 5BW (2E)-1-(2-HYDROXYPHENYL)-3-[(1R,4R)-5-(PYRIDIN-2-YL)-2, HETNAM 2 5BW 5-DIAZABICYCLO[2.2.1]HEPT-2-YL]PROP-2-EN-1-ONE HETSYN EDO ETHYLENE GLYCOL FORMUL 3 ZN 2(ZN 2+) FORMUL 4 EDO 6(C2 H6 O2) FORMUL 7 5BW 2(C19 H19 N3 O2) FORMUL 13 HOH *101(H2 O) HELIX 1 AA1 ASN A 1457 TYR A 1472 1 16 HELIX 2 AA2 SER A 1482 ILE A 1486 5 5 HELIX 3 AA3 LEU A 1494 ILE A 1501 1 8 HELIX 4 AA4 ASP A 1506 ASN A 1516 1 11 HELIX 5 AA5 SER A 1521 ASN A 1540 1 20 HELIX 6 AA6 SER A 1544 LYS A 1566 1 23 HELIX 7 AA7 LEU B 1458 TYR B 1472 1 15 HELIX 8 AA8 SER B 1482 ILE B 1486 5 5 HELIX 9 AA9 LEU B 1494 ILE B 1501 1 8 HELIX 10 AB1 ASP B 1506 ASN B 1516 1 11 HELIX 11 AB2 SER B 1521 ASN B 1540 1 20 HELIX 12 AB3 SER B 1544 LYS B 1566 1 23 LINK ND1 HIS A1517 ZN ZN A1601 1555 1555 1.97 LINK ZN ZN A1601 O HOH A1740 1555 1555 2.02 LINK ZN ZN A1601 O HOH B1712 1555 1554 2.03 LINK ZN ZN A1601 O HOH B1719 1555 1554 2.11 LINK ZN ZN A1601 O HOH B1723 1555 1554 2.17 LINK ZN ZN A1601 O HOH B1747 1555 1554 2.36 LINK O HOH A1709 ZN ZN B1601 1555 1555 2.00 LINK O HOH A1714 ZN ZN B1601 1555 1555 2.17 LINK O HOH A1735 ZN ZN B1601 1555 1555 1.86 LINK O HOH A1750 ZN ZN B1601 1555 1555 2.29 LINK ND1 HIS B1517 ZN ZN B1601 1555 1555 2.11 LINK ZN ZN B1601 O HOH B1741 1555 1555 2.17 SITE 1 AC1 6 HIS A1517 HOH A1740 HOH B1712 HOH B1719 SITE 2 AC1 6 HOH B1723 HOH B1747 SITE 1 AC2 4 GLU A1512 ARG A1513 ASN A1516 LYS A1518 SITE 1 AC3 2 ASP A1506 LYS A1509 SITE 1 AC4 2 GLN A1487 EDO B1604 SITE 1 AC5 9 VAL A1484 PHE A1485 LEU A1488 PRO A1489 SITE 2 AC5 9 TYR A1497 VAL A1505 ALA A1536 ASN A1540 SITE 3 AC5 9 ILE A1546 SITE 1 AC6 6 HOH A1709 HOH A1714 HOH A1735 HOH A1750 SITE 2 AC6 6 HIS B1517 HOH B1741 SITE 1 AC7 6 ASN A1523 GLN B1487 LYS B1508 EDO B1603 SITE 2 AC7 6 HOH B1736 HOH B1744 SITE 1 AC8 2 GLN B1487 EDO B1602 SITE 1 AC9 3 EDO A1604 ASN B1523 HOH B1703 SITE 1 AD1 9 VAL B1484 PHE B1485 LEU B1488 PRO B1489 SITE 2 AD1 9 TYR B1497 VAL B1505 ALA B1536 ASN B1540 SITE 3 AD1 9 ILE B1546 CRYST1 45.926 74.566 52.626 90.00 109.90 90.00 P 1 21 1 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 0.021774 0.000000 0.007880 0.00000 SCALE2 0.000000 0.013411 0.000000 0.00000 SCALE3 0.000000 0.000000 0.020208 0.00000