HEADER LIGASE 24-SEP-22 8B5W TITLE CRYSTAL STRUCTURE OF THE E3 MODULE FROM UBR4 COMPND MOL_ID: 1; COMPND 2 MOLECULE: CDNA FLJ12511 FIS, CLONE NT2RM2001727, HIGHLY SIMILAR TO COMPND 3 HOMO SAPIENS UBIQUITIN PROTEIN LIGASE E3 COMPONENT N-RECOGNIN 4 COMPND 4 (UBR4), MRNA; COMPND 5 CHAIN: A; 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 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS UBIQUITIN, E3 LIGASE, ZINC FINGER, LIGASE EXPDTA X-RAY DIFFRACTION AUTHOR S.VIRDEE,P.D.MABBITT,L.BARNSBY-GREER REVDAT 2 17-APR-24 8B5W 1 JRNL REVDAT 1 04-OCT-23 8B5W 0 JRNL AUTH L.BARNSBY-GREER,P.D.MABBITT,M.A.DERY,D.R.SQUAIR,N.T.WOOD, JRNL AUTH 2 F.LAMOLIATTE,S.M.LANGE,S.VIRDEE JRNL TITL UBE2A AND UBE2B ARE RECRUITED BY AN ATYPICAL E3 LIGASE JRNL TITL 2 MODULE IN UBR4. JRNL REF NAT.STRUCT.MOL.BIOL. V. 31 351 2024 JRNL REFN ESSN 1545-9985 JRNL PMID 38182926 JRNL DOI 10.1038/S41594-023-01192-4 REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.17.1 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 : GEOSTD + MONOMER LIBRARY + CDL V1.2 REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 74.07 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.360 REMARK 3 COMPLETENESS FOR RANGE (%) : 91.3 REMARK 3 NUMBER OF REFLECTIONS : 36076 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.199 REMARK 3 R VALUE (WORKING SET) : 0.198 REMARK 3 FREE R VALUE : 0.222 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.840 REMARK 3 FREE R VALUE TEST SET COUNT : 1747 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 74.0700 - 4.1200 1.00 3294 187 0.1720 0.1703 REMARK 3 2 4.1200 - 3.2700 0.92 2933 146 0.1752 0.1904 REMARK 3 3 3.2700 - 2.8600 1.00 3165 142 0.2007 0.2460 REMARK 3 4 2.8600 - 2.6000 1.00 3153 155 0.2009 0.2483 REMARK 3 5 2.6000 - 2.4100 1.00 3086 178 0.2105 0.2429 REMARK 3 6 2.4100 - 2.2700 1.00 3137 159 0.2084 0.2228 REMARK 3 7 2.2700 - 2.1500 1.00 3119 144 0.2129 0.2308 REMARK 3 8 2.1500 - 2.0900 1.00 2113 114 0.2169 0.2581 REMARK 3 9 2.0400 - 1.9800 1.00 2451 125 0.2430 0.3168 REMARK 3 10 1.9800 - 1.9300 1.00 2464 135 0.2514 0.3062 REMARK 3 11 1.9000 - 1.8500 0.97 2624 121 0.2577 0.2748 REMARK 3 12 1.8500 - 1.8000 0.91 2790 141 0.2550 0.3281 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) : 0.215 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 24.373 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 24.64 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 28.12 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 : 0.003 2799 REMARK 3 ANGLE : 0.543 3810 REMARK 3 CHIRALITY : 0.040 426 REMARK 3 PLANARITY : 0.004 490 REMARK 3 DIHEDRAL : 4.958 376 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL 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 8B5W COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 25-SEP-22. REMARK 100 THE DEPOSITION ID IS D_1292125822. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 30-NOV-19 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I24 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.2820 OR 1.2831 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DIALS REMARK 200 DATA SCALING SOFTWARE : DIALS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 36081 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 74.070 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 91.3 REMARK 200 DATA REDUNDANCY : 2.000 REMARK 200 R MERGE (I) : 0.02395 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 23.8400 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.86 REMARK 200 COMPLETENESS FOR SHELL (%) : 91.7 REMARK 200 DATA REDUNDANCY IN SHELL : 2.00 REMARK 200 R MERGE FOR SHELL (I) : 0.29070 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.560 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: CRANK2 2.01 REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 53.94 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.67 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 10 MM NA2HPO4 13% PEG20000, PH 6.5, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 2 2 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,Y,-Z REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z+1/2 REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 X+1/2,-Y+1/2,-Z+1/2 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 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 33.56550 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 42.32200 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 74.06500 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 33.56550 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 42.32200 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 74.06500 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 33.56550 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 42.32200 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 74.06500 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 33.56550 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 42.32200 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 74.06500 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: 350 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 14060 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 5.0 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 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 4725 REMARK 465 PRO A 4726 REMARK 465 LEU A 4727 REMARK 465 GLY A 4728 REMARK 465 SER A 4729 REMARK 465 ALA A 4730 REMARK 465 ILE A 4731 REMARK 465 GLN A 4732 REMARK 465 HIS A 4733 REMARK 465 PRO A 4734 REMARK 465 GLY A 4735 REMARK 465 THR A 4736 REMARK 465 GLN A 4737 REMARK 465 VAL A 4738 REMARK 465 LEU A 4739 REMARK 465 ILE A 4740 REMARK 465 GLY A 4741 REMARK 465 THR A 4742 REMARK 465 ASP A 4743 REMARK 465 SER A 4744 REMARK 465 ILE A 4745 REMARK 465 PRO A 4746 REMARK 465 ASN A 4747 REMARK 465 LEU A 4748 REMARK 465 HIS A 4749 REMARK 465 LYS A 4750 REMARK 465 LEU A 4751 REMARK 465 GLU A 4752 REMARK 465 GLN A 4753 REMARK 465 VAL A 4754 REMARK 465 SER A 4755 REMARK 465 SER A 4756 REMARK 465 ASP A 4757 REMARK 465 GLU A 4758 REMARK 465 GLY A 4759 REMARK 465 ILE A 4760 REMARK 465 GLY A 4761 REMARK 465 THR A 4762 REMARK 465 LEU A 4763 REMARK 465 ALA A 4764 REMARK 465 GLU A 4765 REMARK 465 ASN A 4766 REMARK 465 LEU A 4767 REMARK 465 LEU A 4768 REMARK 465 GLU A 4769 REMARK 465 ALA A 4770 REMARK 465 LEU A 4771 REMARK 465 ARG A 4772 REMARK 465 GLU A 4773 REMARK 465 HIS A 4774 REMARK 465 PRO A 4775 REMARK 465 ASP A 4776 REMARK 465 VAL A 4777 REMARK 465 ASN A 4778 REMARK 465 LYS A 4779 REMARK 465 LYS A 4780 REMARK 465 ILE A 4781 REMARK 465 ASP A 4782 REMARK 465 ALA A 4783 REMARK 465 ALA A 4784 REMARK 465 ARG A 4785 REMARK 465 ARG A 4786 REMARK 465 GLU A 4787 REMARK 465 THR A 4788 REMARK 465 ARG A 4789 REMARK 465 ALA A 4790 REMARK 465 GLU A 4791 REMARK 465 LYS A 4792 REMARK 465 LYS A 4793 REMARK 465 ARG A 4794 REMARK 465 MET A 4795 REMARK 465 ALA A 4796 REMARK 465 MET A 4797 REMARK 465 ALA A 4798 REMARK 465 MET A 4799 REMARK 465 ARG A 4800 REMARK 465 GLN A 4801 REMARK 465 LYS A 4802 REMARK 465 ALA A 4803 REMARK 465 LEU A 4804 REMARK 465 GLY A 4805 REMARK 465 THR A 4806 REMARK 465 LEU A 4807 REMARK 465 GLY A 4808 REMARK 465 MET A 4809 REMARK 465 THR A 4810 REMARK 465 THR A 4811 REMARK 465 ASN A 4812 REMARK 465 GLU A 4813 REMARK 465 LYS A 4814 REMARK 465 GLY A 4815 REMARK 465 GLN A 4816 REMARK 465 VAL A 4817 REMARK 465 VAL A 4818 REMARK 465 THR A 4819 REMARK 465 LYS A 4820 REMARK 465 THR A 4821 REMARK 465 ALA A 4822 REMARK 465 LEU A 4823 REMARK 465 LEU A 4824 REMARK 465 LYS A 4825 REMARK 465 GLN A 4826 REMARK 465 MET A 4827 REMARK 465 GLU A 4828 REMARK 465 GLU A 4829 REMARK 465 LEU A 4830 REMARK 465 ILE A 4831 REMARK 465 GLU A 4832 REMARK 465 LEU A 4897 REMARK 465 ALA A 4898 REMARK 465 ARG A 4899 REMARK 465 GLY A 4900 REMARK 465 ARG A 4901 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 A4842 CG CD NE CZ NH1 NH2 REMARK 470 ARG A4896 CG CD NE CZ NH1 NH2 REMARK 470 GLU A4902 CG CD OE1 OE2 REMARK 470 GLU A4905 CG CD OE1 OE2 REMARK 470 ARG A4950 CG CD NE CZ NH1 NH2 REMARK 470 GLU A4984 CG CD OE1 OE2 REMARK 470 ARG A5005 CG CD NE CZ NH1 NH2 REMARK 470 LYS A5012 CG CD CE NZ REMARK 470 LYS A5108 CG CD CE NZ REMARK 470 LYS A5109 CG CD CE NZ REMARK 470 THR A5169 OG1 CG2 REMARK 470 GLU A5172 CG CD OE1 OE2 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 5507 O HOH A 5658 1.83 REMARK 500 O HOH A 5308 O HOH A 5583 1.98 REMARK 500 O HOH A 5597 O HOH A 5699 1.98 REMARK 500 O HOH A 5591 O HOH A 5654 2.05 REMARK 500 O PRO A 5183 O HOH A 5301 2.06 REMARK 500 O HOH A 5403 O HOH A 5465 2.07 REMARK 500 O HOH A 5623 O HOH A 5629 2.08 REMARK 500 O HOH A 5382 O HOH A 5502 2.10 REMARK 500 O HOH A 5670 O HOH A 5697 2.11 REMARK 500 OE1 GLU A 4866 O HOH A 5302 2.13 REMARK 500 OH TYR A 4888 O LEU A 4919 2.14 REMARK 500 O HOH A 5633 O HOH A 5652 2.14 REMARK 500 OG SER A 5166 O HOH A 5303 2.16 REMARK 500 OE1 GLU A 5027 O HOH A 5304 2.17 REMARK 500 OD1 ASP A 4889 O HOH A 5305 2.17 REMARK 500 O GLU A 5116 O HOH A 5306 2.18 REMARK 500 O HOH A 5679 O HOH A 5707 2.18 REMARK 500 O HOH A 5495 O HOH A 5518 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 5472 O HOH A 5569 3656 1.96 REMARK 500 O HOH A 5595 O HOH A 5602 7645 2.12 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 A4917 19.37 -145.85 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A5708 DISTANCE = 6.15 ANGSTROMS 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 A5201 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A4838 SG REMARK 620 2 CYS A4841 SG 106.1 REMARK 620 3 HIS A4887 ND1 100.6 95.6 REMARK 620 4 CYS A4890 SG 114.7 118.1 118.8 REMARK 620 N 1 2 3 DBREF 8B5W A 4730 5183 UNP B3KMT2 B3KMT2_HUMAN 364 817 SEQADV 8B5W GLY A 4725 UNP B3KMT2 EXPRESSION TAG SEQADV 8B5W PRO A 4726 UNP B3KMT2 EXPRESSION TAG SEQADV 8B5W LEU A 4727 UNP B3KMT2 EXPRESSION TAG SEQADV 8B5W GLY A 4728 UNP B3KMT2 EXPRESSION TAG SEQADV 8B5W SER A 4729 UNP B3KMT2 EXPRESSION TAG SEQRES 1 A 459 GLY PRO LEU GLY SER ALA ILE GLN HIS PRO GLY THR GLN SEQRES 2 A 459 VAL LEU ILE GLY THR ASP SER ILE PRO ASN LEU HIS LYS SEQRES 3 A 459 LEU GLU GLN VAL SER SER ASP GLU GLY ILE GLY THR LEU SEQRES 4 A 459 ALA GLU ASN LEU LEU GLU ALA LEU ARG GLU HIS PRO ASP SEQRES 5 A 459 VAL ASN LYS LYS ILE ASP ALA ALA ARG ARG GLU THR ARG SEQRES 6 A 459 ALA GLU LYS LYS ARG MET ALA MET ALA MET ARG GLN LYS SEQRES 7 A 459 ALA LEU GLY THR LEU GLY MET THR THR ASN GLU LYS GLY SEQRES 8 A 459 GLN VAL VAL THR LYS THR ALA LEU LEU LYS GLN MET GLU SEQRES 9 A 459 GLU LEU ILE GLU GLU PRO GLY LEU THR CYS CYS ILE CYS SEQRES 10 A 459 ARG GLU GLY TYR LYS PHE GLN PRO THR LYS VAL LEU GLY SEQRES 11 A 459 ILE TYR THR PHE THR LYS ARG VAL ALA LEU GLU GLU LEU SEQRES 12 A 459 GLU ASN LYS PRO ARG LYS GLN GLN GLY TYR SER THR VAL SEQRES 13 A 459 SER HIS PHE ASN ILE VAL HIS TYR ASP CYS HIS LEU ALA SEQRES 14 A 459 ALA VAL ARG LEU ALA ARG GLY ARG GLU GLU TRP GLU SER SEQRES 15 A 459 ALA ALA LEU GLN ASN ALA ASN THR LYS CYS ASN GLY LEU SEQRES 16 A 459 LEU PRO VAL TRP GLY PRO HIS VAL PRO GLU SER ALA PHE SEQRES 17 A 459 ALA THR CYS LEU ALA ARG HIS ASN THR TYR LEU GLN GLU SEQRES 18 A 459 CYS THR GLY GLN ARG GLU PRO THR TYR GLN LEU ASN ILE SEQRES 19 A 459 HIS ASP ILE LYS LEU LEU PHE LEU ARG PHE ALA MET GLU SEQRES 20 A 459 GLN SER PHE SER ALA ASP THR GLY GLY GLY GLY ARG GLU SEQRES 21 A 459 SER ASN ILE HIS LEU ILE PRO TYR ILE ILE HIS THR VAL SEQRES 22 A 459 LEU TYR VAL LEU ASN THR THR ARG ALA THR SER ARG GLU SEQRES 23 A 459 GLU LYS ASN LEU GLN GLY PHE LEU GLU GLN PRO LYS GLU SEQRES 24 A 459 LYS TRP VAL GLU SER ALA PHE GLU VAL ASP GLY PRO TYR SEQRES 25 A 459 TYR PHE THR VAL LEU ALA LEU HIS ILE LEU PRO PRO GLU SEQRES 26 A 459 GLN TRP ARG ALA THR ARG VAL GLU ILE LEU ARG ARG LEU SEQRES 27 A 459 LEU VAL THR SER GLN ALA ARG ALA VAL ALA PRO GLY GLY SEQRES 28 A 459 ALA THR ARG LEU THR ASP LYS ALA VAL LYS ASP TYR SER SEQRES 29 A 459 ALA TYR ARG SER SER LEU LEU PHE TRP ALA LEU VAL ASP SEQRES 30 A 459 LEU ILE TYR ASN MET PHE LYS LYS VAL PRO THR SER ASN SEQRES 31 A 459 THR GLU GLY GLY TRP SER CYS SER LEU ALA GLU TYR ILE SEQRES 32 A 459 ARG HIS ASN ASP MET PRO ILE TYR GLU ALA ALA ASP LYS SEQRES 33 A 459 ALA LEU LYS THR PHE GLN GLU GLU PHE MET PRO VAL GLU SEQRES 34 A 459 THR PHE SER GLU PHE LEU ASP VAL ALA GLY LEU LEU SER SEQRES 35 A 459 GLU ILE THR ASP PRO GLU SER PHE LEU LYS ASP LEU LEU SEQRES 36 A 459 ASN SER VAL PRO HET ZN A5201 1 HET EDO A5202 4 HET EDO A5203 4 HETNAM ZN ZINC ION HETNAM EDO 1,2-ETHANEDIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 2 ZN ZN 2+ FORMUL 3 EDO 2(C2 H6 O2) FORMUL 5 HOH *408(H2 O) HELIX 1 AA1 TYR A 4888 ARG A 4896 1 9 HELIX 2 AA2 GLU A 4903 ALA A 4908 1 6 HELIX 3 AA3 PRO A 4928 GLY A 4948 1 21 HELIX 4 AA4 THR A 4953 MET A 4970 1 18 HELIX 5 AA5 GLY A 4982 THR A 5004 1 23 HELIX 6 AA6 ALA A 5006 GLU A 5019 1 14 HELIX 7 AA7 PRO A 5021 GLU A 5023 5 3 HELIX 8 AA8 LYS A 5024 ALA A 5029 1 6 HELIX 9 AA9 GLY A 5034 LEU A 5046 1 13 HELIX 10 AB1 PRO A 5047 ALA A 5072 1 26 HELIX 11 AB2 ASP A 5086 ALA A 5089 5 4 HELIX 12 AB3 TYR A 5090 PHE A 5107 1 18 HELIX 13 AB4 GLY A 5118 ASN A 5130 1 13 HELIX 14 AB5 ASN A 5130 GLU A 5148 1 19 HELIX 15 AB6 THR A 5154 ALA A 5162 1 9 HELIX 16 AB7 ASP A 5170 SER A 5181 1 12 SHEET 1 AA1 3 GLN A4875 HIS A4887 0 SHEET 2 AA1 3 LEU A4853 ALA A4863 -1 N VAL A4862 O GLY A4876 SHEET 3 AA1 3 GLY A4918 PRO A4921 -1 O LEU A4920 N ILE A4855 LINK SG CYS A4838 ZN ZN A5201 1555 1555 2.45 LINK SG CYS A4841 ZN ZN A5201 1555 1555 2.39 LINK ND1 HIS A4887 ZN ZN A5201 1555 1555 2.18 LINK SG CYS A4890 ZN ZN A5201 1555 1555 2.26 CRYST1 67.131 84.644 148.130 90.00 90.00 90.00 I 2 2 2 8 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 0.014896 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011814 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006751 0.00000