PDB Short entry for 6IAM HEADER TRANSFERASE 27-NOV-18 6IAM TITLE MODULATING PROTEIN-PROTEIN INTERACTIONS WITH VISIBLE LIGHT PEPTIDE TITLE 2 BACKBONE SWITCHES COMPND MOL_ID: 1; COMPND 2 MOLECULE: WD REPEAT-CONTAINING PROTEIN 5; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: BMP2-INDUCED 3-KB GENE PROTEIN; COMPND 5 ENGINEERED: YES; COMPND 6 OTHER_DETAILS: FIRST 28 AMINO ACIDS WERE REMOVED; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: SER-ALA-ARG-ALA-XY5-VAL-HIS-LEU-ARG-LYS-SER-ALA; COMPND 9 CHAIN: B; COMPND 10 ENGINEERED: YES; COMPND 11 MOL_ID: 3; COMPND 12 MOLECULE: SMALL UBIQUITIN-RELATED MODIFIER 5; COMPND 13 CHAIN: C; COMPND 14 FRAGMENT: UNP RESIDUES 5-8; COMPND 15 SYNONYM: SUMO-5,SUMO1 PSEUDOGENE 1,UBIQUITIN-LIKE 2,UBIQUITIN-LIKE 6; COMPND 16 ENGINEERED: YES; COMPND 17 OTHER_DETAILS: RESIDUAL PEPTIDE FROM SUMO-TAG, THAT WAS CLEAVED COMPND 18 BEFORE CRYSTALLIISATION SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: WDR5, BIG3; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 MOL_ID: 2; SOURCE 9 SYNTHETIC: YES; SOURCE 10 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 11 ORGANISM_COMMON: HUMAN; SOURCE 12 ORGANISM_TAXID: 9606; SOURCE 13 MOL_ID: 3; SOURCE 14 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 15 ORGANISM_COMMON: HUMAN; SOURCE 16 ORGANISM_TAXID: 9606; SOURCE 17 GENE: SUMO1P1, SUMO5, UBL2, UBL6; SOURCE 18 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 19 EXPRESSION_SYSTEM_TAXID: 469008 KEYWDS HISTONE MODIFICATION, TRIMETHYLATION AT 'LYS-4', EPIGENETIC KEYWDS 2 TRANSCRIPTIONAL ACTIVATION, NSL COMPLEX, OSTEOBLASTS KEYWDS 3 DIFFERENTIATION, LEUKEMIA, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR L.WEREL,L.-O.ESSEN REVDAT 2 12-JUN-19 6IAM 1 JRNL REVDAT 1 06-FEB-19 6IAM 0 JRNL AUTH L.ALBERT,A.PENALVER,N.DJOKOVIC,L.WEREL,M.HOFFARTH,D.RUZIC, JRNL AUTH 2 J.XU,L.O.ESSEN,K.NIKOLIC,Y.DOU,O.VAZQUEZ JRNL TITL MODULATING PROTEIN-PROTEIN INTERACTIONS WITH JRNL TITL 2 VISIBLE-LIGHT-RESPONSIVE PEPTIDE BACKBONE PHOTOSWITCHES. JRNL REF CHEMBIOCHEM V. 20 1417 2019 JRNL REFN ESSN 1439-7633 JRNL PMID 30675988 JRNL DOI 10.1002/CBIC.201800737 REMARK 2 REMARK 2 RESOLUTION. 1.51 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 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.51 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 37.49 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 3 NUMBER OF REFLECTIONS : 42377 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING + TEST SET) : NULL REMARK 3 R VALUE (WORKING SET) : 0.148 REMARK 3 FREE R VALUE : 0.170 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2501 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 5 REMARK 3 SOLVENT ATOMS : 423 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 11.27 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 18.21 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 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): NULL REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): NULL REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 DISTANCE RESTRAINTS. RMS SIGMA REMARK 3 BOND LENGTH (A) : NULL ; NULL REMARK 3 ANGLE DISTANCE (A) : NULL ; NULL REMARK 3 INTRAPLANAR 1-4 DISTANCE (A) : NULL ; NULL REMARK 3 H-BOND OR METAL COORDINATION (A) : NULL ; NULL REMARK 3 REMARK 3 PLANE RESTRAINT (A) : NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINT (A**3) : NULL ; NULL REMARK 3 REMARK 3 NON-BONDED CONTACT RESTRAINTS. REMARK 3 SINGLE TORSION (A) : NULL ; NULL REMARK 3 MULTIPLE TORSION (A) : NULL ; NULL REMARK 3 H-BOND (X...Y) (A) : NULL ; NULL REMARK 3 H-BOND (X-H...Y) (A) : NULL ; NULL REMARK 3 REMARK 3 CONFORMATIONAL TORSION ANGLE RESTRAINTS. REMARK 3 SPECIFIED (DEGREES) : NULL ; NULL REMARK 3 PLANAR (DEGREES) : NULL ; NULL REMARK 3 STAGGERED (DEGREES) : NULL ; NULL REMARK 3 TRANSVERSE (DEGREES) : NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 6IAM COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 27-NOV-18. REMARK 100 THE DEPOSITION ID IS D_1200013107. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 26-SEP-18 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID23-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.873 REMARK 200 MONOCHROMATOR : U20.2 UNDULATOR (14.2 KEV) REMARK 200 OPTICS : MD3-UP MICRODIFFRACTOMETER REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 X 2M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 42377 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.510 REMARK 200 RESOLUTION RANGE LOW (A) : 37.490 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 200 DATA REDUNDANCY : 4.000 REMARK 200 R MERGE (I) : 0.08990 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 9.0400 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.51 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.56 REMARK 200 COMPLETENESS FOR SHELL (%) : 96.2 REMARK 200 DATA REDUNDANCY IN SHELL : 3.90 REMARK 200 R MERGE FOR SHELL (I) : 0.71300 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 1.500 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: NULL REMARK 200 REMARK 200 REMARK: FINE NEEDLES REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 32.83 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.83 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 10% (W/V) PEG20000, 20% (V/V) PEG550 REMARK 280 MME, 0.02 M SODIUM FORMATE, 0.02 M AMMONIUM ACETATE, 0.02 M REMARK 280 TRISODIUM CITRATE, 0.02 M SODIUM POTASSIUM L-TARTRATE, 0.02 M REMARK 280 SODIUM OXAMATE, PH 8.5, VAPOR DIFFUSION, SITTING DROP, REMARK 280 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 23.28000 REMARK 290 SMTRY3 2 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2390 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 12980 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -21.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, 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 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 ALA B 12 CA C O CB 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 HE21 GLN A 204 O HOH A 503 1.25 REMARK 500 HH12 ARG A 196 O HOH A 508 1.55 REMARK 500 O HOH A 759 O HOH A 807 1.72 REMARK 500 OE2 GLU A 322 O HOH A 501 1.76 REMARK 500 OE1 GLN A 204 O HOH A 502 1.78 REMARK 500 O HOH A 785 O HOH A 787 1.83 REMARK 500 O HOH A 819 O HOH A 890 1.93 REMARK 500 O HOH A 697 O HOH A 813 1.94 REMARK 500 O HOH A 510 O HOH A 541 1.95 REMARK 500 O HOH A 501 O HOH A 783 1.96 REMARK 500 O HOH A 743 O HOH A 763 1.99 REMARK 500 O HOH A 853 O HOH B 117 2.00 REMARK 500 O HOH A 718 O HOH A 741 2.05 REMARK 500 NE2 GLN A 204 O HOH A 503 2.05 REMARK 500 O HOH A 512 O HOH A 715 2.08 REMARK 500 O HOH A 553 O HOH A 560 2.12 REMARK 500 OD2 ASP A 211 O HOH A 504 2.13 REMARK 500 O HOH A 770 O HOH A 833 2.15 REMARK 500 O PHE A 263 O HOH A 505 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 659 O HOH A 803 2444 1.96 REMARK 500 O HOH A 713 O HOH A 853 2444 2.04 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 VAL B 6 CA VAL B 6 CB 0.148 REMARK 500 VAL B 6 CA VAL B 6 C -0.177 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 VAL B 6 CB - CA - C ANGL. DEV. = -17.2 DEGREES REMARK 500 VAL B 6 N - CA - C ANGL. DEV. = 41.0 DEGREES REMARK 500 VAL B 6 CA - C - N ANGL. DEV. = -17.5 DEGREES 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 PRO A 30 79.43 -63.92 REMARK 500 ALA A 47 136.75 -39.65 REMARK 500 ASP A 211 -158.56 -104.89 REMARK 500 LEU A 234 39.94 -85.10 REMARK 500 LEU A 321 -159.16 -83.64 REMARK 500 ASP A 324 -63.81 -122.98 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 XY5 B 5 -10.03 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 K A 402 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN A 34 O REMARK 620 2 LYS A 331 O 69.9 REMARK 620 3 HOH A 841 O 98.5 145.2 REMARK 620 4 HOH A 667 O 147.2 98.7 106.5 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 K A 401 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN A 100 OD1 REMARK 620 2 SER A 117 OG 173.7 REMARK 620 3 HOH A 581 O 99.6 77.8 REMARK 620 4 HOH A 656 O 90.4 95.4 92.4 REMARK 620 5 HOH A 790 O 87.0 94.4 166.7 99.2 REMARK 620 6 HOH A 535 O 85.5 88.9 91.7 174.6 77.2 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 K A 403 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 170 O REMARK 620 2 HOH A 610 O 74.2 REMARK 620 3 HOH A 774 O 61.5 53.5 REMARK 620 4 HOH B 115 O 114.8 78.5 54.6 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 404 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 VAL A 268 O REMARK 620 2 HOH A 832 O 104.7 REMARK 620 3 HOH A 825 O 100.4 104.9 REMARK 620 4 HOH A 820 O 105.8 136.1 99.9 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 405 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 322 OE1 REMARK 620 2 HOH A 853 O 115.9 REMARK 620 3 HOH A 796 O 79.3 129.8 REMARK 620 4 HOH B 112 O 111.6 65.1 64.9 REMARK 620 5 HOH A 713 O 103.2 55.6 172.6 119.7 REMARK 620 6 HOH A 829 O 107.3 134.5 70.7 112.0 101.9 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 K A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue K A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue K A 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA A 404 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA A 405 DBREF 6IAM A 29 334 UNP P61964 WDR5_HUMAN 29 334 DBREF 6IAM B 1 12 PDB 6IAM 6IAM 1 12 DBREF 6IAM C 1 4 UNP G2XKQ0 SUMO5_HUMAN 5 8 SEQRES 1 A 306 THR PRO VAL LYS PRO ASN TYR ALA LEU LYS PHE THR LEU SEQRES 2 A 306 ALA GLY HIS THR LYS ALA VAL SER SER VAL LYS PHE SER SEQRES 3 A 306 PRO ASN GLY GLU TRP LEU ALA SER SER SER ALA ASP LYS SEQRES 4 A 306 LEU ILE LYS ILE TRP GLY ALA TYR ASP GLY LYS PHE GLU SEQRES 5 A 306 LYS THR ILE SER GLY HIS LYS LEU GLY ILE SER ASP VAL SEQRES 6 A 306 ALA TRP SER SER ASP SER ASN LEU LEU VAL SER ALA SER SEQRES 7 A 306 ASP ASP LYS THR LEU LYS ILE TRP ASP VAL SER SER GLY SEQRES 8 A 306 LYS CYS LEU LYS THR LEU LYS GLY HIS SER ASN TYR VAL SEQRES 9 A 306 PHE CYS CYS ASN PHE ASN PRO GLN SER ASN LEU ILE VAL SEQRES 10 A 306 SER GLY SER PHE ASP GLU SER VAL ARG ILE TRP ASP VAL SEQRES 11 A 306 LYS THR GLY LYS CYS LEU LYS THR LEU PRO ALA HIS SER SEQRES 12 A 306 ASP PRO VAL SER ALA VAL HIS PHE ASN ARG ASP GLY SER SEQRES 13 A 306 LEU ILE VAL SER SER SER TYR ASP GLY LEU CYS ARG ILE SEQRES 14 A 306 TRP ASP THR ALA SER GLY GLN CYS LEU LYS THR LEU ILE SEQRES 15 A 306 ASP ASP ASP ASN PRO PRO VAL SER PHE VAL LYS PHE SER SEQRES 16 A 306 PRO ASN GLY LYS TYR ILE LEU ALA ALA THR LEU ASP ASN SEQRES 17 A 306 THR LEU LYS LEU TRP ASP TYR SER LYS GLY LYS CYS LEU SEQRES 18 A 306 LYS THR TYR THR GLY HIS LYS ASN GLU LYS TYR CYS ILE SEQRES 19 A 306 PHE ALA ASN PHE SER VAL THR GLY GLY LYS TRP ILE VAL SEQRES 20 A 306 SER GLY SER GLU ASP ASN LEU VAL TYR ILE TRP ASN LEU SEQRES 21 A 306 GLN THR LYS GLU ILE VAL GLN LYS LEU GLN GLY HIS THR SEQRES 22 A 306 ASP VAL VAL ILE SER THR ALA CYS HIS PRO THR GLU ASN SEQRES 23 A 306 ILE ILE ALA SER ALA ALA LEU GLU ASN ASP LYS THR ILE SEQRES 24 A 306 LYS LEU TRP LYS SER ASP CYS SEQRES 1 B 12 SER ALA ARG ALA XY5 VAL HIS LEU ARG LYS SER ALA SEQRES 1 C 4 GLU ALA LYS PRO HET XY5 B 5 35 HET K A 401 1 HET K A 402 1 HET K A 403 1 HET NA A 404 1 HET NA A 405 1 HETNAM XY5 2-[[(5~{Z})-8-AZANYL-11,12-DIHYDROBENZO[C][1, HETNAM 2 XY5 2]BENZODIAZOCIN-3-YL]AMINO]ETHANAL HETNAM K POTASSIUM ION HETNAM NA SODIUM ION FORMUL 2 XY5 C16 H16 N4 O FORMUL 4 K 3(K 1+) FORMUL 7 NA 2(NA 1+) FORMUL 9 HOH *423(H2 O) SHEET 1 AA1 4 ALA A 36 LEU A 41 0 SHEET 2 AA1 4 ILE A 327 LYS A 331 -1 O ILE A 327 N LEU A 41 SHEET 3 AA1 4 ILE A 315 ALA A 320 -1 N ILE A 316 O TRP A 330 SHEET 4 AA1 4 VAL A 304 CYS A 309 -1 N ALA A 308 O ALA A 317 SHEET 1 AA2 4 VAL A 48 PHE A 53 0 SHEET 2 AA2 4 TRP A 59 SER A 64 -1 O ALA A 61 N LYS A 52 SHEET 3 AA2 4 LEU A 68 GLY A 73 -1 O TRP A 72 N LEU A 60 SHEET 4 AA2 4 PHE A 79 SER A 84 -1 O ILE A 83 N ILE A 69 SHEET 1 AA3 4 ILE A 90 TRP A 95 0 SHEET 2 AA3 4 LEU A 101 SER A 106 -1 O ALA A 105 N SER A 91 SHEET 3 AA3 4 THR A 110 ASP A 115 -1 O TRP A 114 N LEU A 102 SHEET 4 AA3 4 LYS A 120 LYS A 126 -1 O LEU A 125 N LEU A 111 SHEET 1 AA4 4 VAL A 132 PHE A 137 0 SHEET 2 AA4 4 LEU A 143 SER A 148 -1 O VAL A 145 N ASN A 136 SHEET 3 AA4 4 VAL A 153 ASP A 157 -1 O TRP A 156 N ILE A 144 SHEET 4 AA4 4 CYS A 163 LEU A 167 -1 O LEU A 167 N VAL A 153 SHEET 1 AA5 4 VAL A 174 PHE A 179 0 SHEET 2 AA5 4 LEU A 185 SER A 190 -1 O VAL A 187 N HIS A 178 SHEET 3 AA5 4 CYS A 195 ASP A 199 -1 O TRP A 198 N ILE A 186 SHEET 4 AA5 4 CYS A 205 LEU A 209 -1 O LEU A 206 N ILE A 197 SHEET 1 AA6 4 VAL A 217 PHE A 222 0 SHEET 2 AA6 4 TYR A 228 THR A 233 -1 O LEU A 230 N LYS A 221 SHEET 3 AA6 4 THR A 237 ASP A 242 -1 O TRP A 241 N ILE A 229 SHEET 4 AA6 4 LYS A 247 TYR A 252 -1 O LEU A 249 N LEU A 240 SHEET 1 AA7 4 ALA A 264 SER A 267 0 SHEET 2 AA7 4 TRP A 273 SER A 276 -1 O TRP A 273 N SER A 267 SHEET 3 AA7 4 VAL A 283 ASN A 287 -1 O TRP A 286 N ILE A 274 SHEET 4 AA7 4 ILE A 293 LEU A 297 -1 O VAL A 294 N ILE A 285 LINK O ASN A 34 K K A 402 1555 1555 3.28 LINK OD1 ASN A 100 K K A 401 1555 1555 2.53 LINK OG SER A 117 K K A 401 1555 1555 2.54 LINK O HIS A 170 K K A 403 1555 1555 2.86 LINK O VAL A 268 NA NA A 404 1555 1555 2.73 LINK OE1 GLU A 322 NA NA A 405 1555 1555 2.66 LINK O LYS A 331 K K A 402 1555 1555 2.73 LINK C ALA B 4 NA2 XY5 B 5 1555 1555 1.31 LINK C XY5 B 5 N VAL B 6 1555 1555 1.28 LINK K K A 401 O HOH A 581 1555 1555 2.51 LINK K K A 401 O HOH A 656 1555 1555 2.68 LINK K K A 401 O HOH A 790 1555 1555 2.37 LINK K K A 402 O HOH A 841 1555 1555 2.53 LINK K K A 402 O HOH A 667 1555 1555 2.70 LINK K K A 403 O HOH A 610 1555 1555 2.91 LINK K K A 403 O HOH A 774 1555 1555 3.35 LINK NA NA A 404 O HOH A 832 1555 1555 2.35 LINK NA NA A 404 O HOH A 825 1555 1555 2.84 LINK NA NA A 405 O HOH A 853 1555 1555 2.34 LINK NA NA A 405 O HOH A 796 1555 1555 2.78 LINK NA NA A 405 O HOH B 112 1555 1555 2.88 LINK K K A 401 O HOH A 535 1555 1655 2.64 LINK K K A 403 O HOH B 115 1555 2444 2.40 LINK NA NA A 404 O HOH A 820 1555 2545 2.12 LINK NA NA A 405 O HOH A 713 1555 2454 1.99 LINK NA NA A 405 O HOH A 829 1555 2454 2.31 SITE 1 AC1 6 ASN A 100 SER A 117 HOH A 535 HOH A 581 SITE 2 AC1 6 HOH A 656 HOH A 790 SITE 1 AC2 4 ASN A 34 LYS A 331 HOH A 667 HOH A 841 SITE 1 AC3 4 PRO A 168 ALA A 169 HIS A 170 HOH A 610 SITE 1 AC4 3 VAL A 268 HOH A 825 HOH A 832 SITE 1 AC5 4 GLU A 322 HOH A 796 HOH A 853 HOH B 112 CRYST1 46.526 46.560 66.168 90.00 107.22 90.00 P 1 21 1 2 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 0.021493 0.000000 0.006662 0.00000 SCALE2 0.000000 0.021478 0.000000 0.00000 SCALE3 0.000000 0.000000 0.015822 0.00000