HEADER HYDROLASE 11-MAY-21 7ESR TITLE CRYSTAL STRUCTURE OF SYNECHOCYSTIS SP PCC6803 GUANIDINIUM HYDROLASE TITLE 2 (R32) COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROBABLE AGMATINASE 2; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: GUANIDINE HYDROLASE,AGMATINE UREOHYDROLASE 2,AUH 2; COMPND 5 EC: 3.5.3.11; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SYNECHOCYSTIS SP. PCC 6803; SOURCE 3 ORGANISM_TAXID: 1148; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS UREOHYDROLASE FAMILY PROTEIN, ARGINASE/AGMATINASE FAMILY PROTEIN, KEYWDS 2 NI2+ ENZYME, 2-METAL ION CLUSTER, METAL BINDING PROTEIN, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR O.M.MAYANS,J.R.FLEMING REVDAT 5 29-NOV-23 7ESR 1 REMARK REVDAT 4 30-MAR-22 7ESR 1 JRNL REVDAT 3 23-MAR-22 7ESR 1 JRNL REVDAT 2 02-FEB-22 7ESR 1 JRNL REVDAT 1 15-DEC-21 7ESR 0 JRNL AUTH D.FUNCK,M.SINN,J.R.FLEMING,M.STANOPPI,J.DIETRICH, JRNL AUTH 2 R.LOPEZ-IGUAL,O.MAYANS,J.S.HARTIG JRNL TITL DISCOVERY OF A NI 2+ -DEPENDENT GUANIDINE HYDROLASE IN JRNL TITL 2 BACTERIA. JRNL REF NATURE V. 603 515 2022 JRNL REFN ESSN 1476-4687 JRNL PMID 35264792 JRNL DOI 10.1038/S41586-022-04490-X REMARK 2 REMARK 2 RESOLUTION. 1.42 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.19.2_4158 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) : 1.42 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 28.97 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.330 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.0 REMARK 3 NUMBER OF REFLECTIONS : 67528 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.132 REMARK 3 R VALUE (WORKING SET) : 0.132 REMARK 3 FREE R VALUE : 0.148 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 3.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2026 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 28.9700 - 3.4200 1.00 4868 156 0.1325 0.1472 REMARK 3 2 3.4200 - 2.7100 1.00 4776 123 0.1127 0.1311 REMARK 3 3 2.7100 - 2.3700 1.00 4738 157 0.1100 0.1193 REMARK 3 4 2.3700 - 2.1500 1.00 4711 141 0.1038 0.1084 REMARK 3 5 2.1500 - 2.0000 1.00 4726 155 0.1056 0.1354 REMARK 3 6 2.0000 - 1.8800 1.00 4689 163 0.1096 0.1306 REMARK 3 7 1.8800 - 1.7900 1.00 4703 155 0.1216 0.1533 REMARK 3 8 1.7900 - 1.7100 1.00 4687 139 0.1400 0.1626 REMARK 3 9 1.7100 - 1.6400 1.00 4721 130 0.1553 0.1711 REMARK 3 10 1.6400 - 1.5900 1.00 4676 141 0.1677 0.1826 REMARK 3 11 1.5900 - 1.5400 1.00 4727 146 0.1825 0.2072 REMARK 3 12 1.5400 - 1.4900 1.00 4654 154 0.2383 0.2737 REMARK 3 13 1.4900 - 1.4500 0.97 4537 135 0.3832 0.3729 REMARK 3 14 1.4500 - 1.4200 0.91 4289 131 0.5676 0.5385 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) : 0.204 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 19.401 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 22.11 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 28.14 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 : 0.008 3022 REMARK 3 ANGLE : 1.007 4114 REMARK 3 CHIRALITY : 0.084 462 REMARK 3 PLANARITY : 0.013 540 REMARK 3 DIHEDRAL : 13.788 1117 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 1 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: (CHAIN 'A' AND RESID 11 THROUGH 601) REMARK 3 ORIGIN FOR THE GROUP (A): -2.3877 22.0836 16.9110 REMARK 3 T TENSOR REMARK 3 T11: 0.2587 T22: 0.1942 REMARK 3 T33: 0.2246 T12: 0.0084 REMARK 3 T13: 0.0193 T23: -0.0294 REMARK 3 L TENSOR REMARK 3 L11: 0.3395 L22: 0.2114 REMARK 3 L33: 0.5012 L12: -0.0563 REMARK 3 L13: 0.0878 L23: -0.0172 REMARK 3 S TENSOR REMARK 3 S11: 0.0041 S12: -0.0718 S13: 0.1034 REMARK 3 S21: 0.0716 S22: 0.0183 S23: -0.0045 REMARK 3 S31: -0.1735 S32: -0.0198 S33: 0.0000 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 7ESR COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 12-MAY-21. REMARK 100 THE DEPOSITION ID IS D_1300022153. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 04-DEC-20 REMARK 200 TEMPERATURE (KELVIN) : 80 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SLS REMARK 200 BEAMLINE : X06SA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 16M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 67577 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.420 REMARK 200 RESOLUTION RANGE LOW (A) : 28.970 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.0 REMARK 200 DATA REDUNDANCY : 9.400 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 15.2400 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.42 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.43 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.030 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: 3NIO REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 41.60 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.11 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.06 M (0.3M MAGNESIUM CHLORIDE REMARK 280 HEXAHYDRATE, 0.3M CALCIUM CHLORIDE DEHYDRATE), 0.1M (1M HEPES; REMARK 280 MOPS) PH7.5, 30 % [V/V] (40% [V/V] ETHYLENE GLYCOL, 20% [W/V] REMARK 280 PEG 8000), VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 291.15K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: H 3 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z REMARK 290 6555 -X,-X+Y,-Z REMARK 290 7555 X+2/3,Y+1/3,Z+1/3 REMARK 290 8555 -Y+2/3,X-Y+1/3,Z+1/3 REMARK 290 9555 -X+Y+2/3,-X+1/3,Z+1/3 REMARK 290 10555 Y+2/3,X+1/3,-Z+1/3 REMARK 290 11555 X-Y+2/3,-Y+1/3,-Z+1/3 REMARK 290 12555 -X+2/3,-X+Y+1/3,-Z+1/3 REMARK 290 13555 X+1/3,Y+2/3,Z+2/3 REMARK 290 14555 -Y+1/3,X-Y+2/3,Z+2/3 REMARK 290 15555 -X+Y+1/3,-X+2/3,Z+2/3 REMARK 290 16555 Y+1/3,X+2/3,-Z+2/3 REMARK 290 17555 X-Y+1/3,-Y+2/3,-Z+2/3 REMARK 290 18555 -X+1/3,-X+Y+2/3,-Z+2/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 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 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 7 1.000000 0.000000 0.000000 70.35000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 40.61659 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 31.79667 REMARK 290 SMTRY1 8 -0.500000 -0.866025 0.000000 70.35000 REMARK 290 SMTRY2 8 0.866025 -0.500000 0.000000 40.61659 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 31.79667 REMARK 290 SMTRY1 9 -0.500000 0.866025 0.000000 70.35000 REMARK 290 SMTRY2 9 -0.866025 -0.500000 0.000000 40.61659 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 31.79667 REMARK 290 SMTRY1 10 -0.500000 0.866025 0.000000 70.35000 REMARK 290 SMTRY2 10 0.866025 0.500000 0.000000 40.61659 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 31.79667 REMARK 290 SMTRY1 11 1.000000 0.000000 0.000000 70.35000 REMARK 290 SMTRY2 11 0.000000 -1.000000 0.000000 40.61659 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 31.79667 REMARK 290 SMTRY1 12 -0.500000 -0.866025 0.000000 70.35000 REMARK 290 SMTRY2 12 -0.866025 0.500000 0.000000 40.61659 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 31.79667 REMARK 290 SMTRY1 13 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 81.23318 REMARK 290 SMTRY3 13 0.000000 0.000000 1.000000 63.59333 REMARK 290 SMTRY1 14 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 14 0.866025 -0.500000 0.000000 81.23318 REMARK 290 SMTRY3 14 0.000000 0.000000 1.000000 63.59333 REMARK 290 SMTRY1 15 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 15 -0.866025 -0.500000 0.000000 81.23318 REMARK 290 SMTRY3 15 0.000000 0.000000 1.000000 63.59333 REMARK 290 SMTRY1 16 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 16 0.866025 0.500000 0.000000 81.23318 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 63.59333 REMARK 290 SMTRY1 17 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 17 0.000000 -1.000000 0.000000 81.23318 REMARK 290 SMTRY3 17 0.000000 0.000000 -1.000000 63.59333 REMARK 290 SMTRY1 18 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 18 -0.866025 0.500000 0.000000 81.23318 REMARK 290 SMTRY3 18 0.000000 0.000000 -1.000000 63.59333 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: HEXAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: HEXAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 46110 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 56440 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -332.0 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 350 BIOMT1 2 -0.500000 -0.866025 0.000000 0.00000 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 350 BIOMT2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 3 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 350 BIOMT2 4 0.866025 0.500000 0.000000 0.00000 REMARK 350 BIOMT3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 350 BIOMT1 5 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 5 0.000000 0.000000 -1.000000 0.00000 REMARK 350 BIOMT1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 350 BIOMT2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 350 BIOMT3 6 0.000000 0.000000 -1.000000 0.00000 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 601 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 657 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 709 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 922 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 923 LIES ON A SPECIAL POSITION. 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 1 REMARK 465 ALA A 2 REMARK 465 MET A 3 REMARK 465 SER A 4 REMARK 465 ASP A 5 REMARK 465 ALA A 6 REMARK 465 THR A 7 REMARK 465 PRO A 8 REMARK 465 PHE A 9 REMARK 465 ARG A 10 REMARK 465 GLU A 389 REMARK 465 PRO A 390 REMARK 465 TRP A 391 REMARK 465 GLN A 392 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 608 O HOH A 878 1.66 REMARK 500 O HOH A 748 O HOH A 855 1.73 REMARK 500 O HOH A 874 O HOH A 882 1.86 REMARK 500 O HOH A 665 O HOH A 864 1.86 REMARK 500 O HOH A 863 O HOH A 890 1.88 REMARK 500 O HOH A 745 O HOH A 906 1.90 REMARK 500 O HOH A 744 O HOH A 850 1.92 REMARK 500 O HOH A 826 O HOH A 836 1.92 REMARK 500 O HOH A 846 O HOH A 876 1.93 REMARK 500 O HOH A 734 O HOH A 864 1.95 REMARK 500 O HOH A 804 O HOH A 862 1.96 REMARK 500 O HOH A 789 O HOH A 920 2.00 REMARK 500 O HOH A 666 O HOH A 847 2.01 REMARK 500 O HOH A 607 O HOH A 849 2.02 REMARK 500 O HOH A 901 O HOH A 921 2.03 REMARK 500 O HOH A 859 O HOH A 905 2.04 REMARK 500 O HOH A 605 O HOH A 758 2.08 REMARK 500 O HOH A 793 O HOH A 814 2.12 REMARK 500 O HOH A 786 O HOH A 898 2.13 REMARK 500 O HOH A 728 O HOH A 843 2.14 REMARK 500 O HOH A 874 O HOH A 893 2.17 REMARK 500 O HOH A 710 O HOH A 843 2.18 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 823 O HOH A 872 10455 1.77 REMARK 500 O HOH A 827 O HOH A 872 10455 1.85 REMARK 500 O HOH A 815 O HOH A 855 3555 1.94 REMARK 500 O HOH A 794 O HOH A 912 6555 2.06 REMARK 500 O HOH A 808 O HOH A 838 6555 2.06 REMARK 500 O HOH A 722 O HOH A 834 2555 2.08 REMARK 500 O HOH A 866 O HOH A 903 3555 2.16 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 LEU A 42 155.53 74.86 REMARK 500 TYR A 100 -95.35 -131.36 REMARK 500 SER A 269 144.96 96.87 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 A 925 DISTANCE = 5.81 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 CA A 501 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 201 OD1 REMARK 620 2 ASP A 293 OD2 89.8 REMARK 620 3 ASP A 295 OD1 80.5 91.2 REMARK 620 4 ASP A 295 OD2 136.0 91.2 55.5 REMARK 620 5 EDO A 503 O1 153.0 92.4 126.3 70.9 REMARK 620 6 EDO A 503 O2 89.5 80.6 167.1 134.0 64.4 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 502 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 201 OD2 REMARK 620 2 ASP A 205 OD2 85.6 REMARK 620 3 ASP A 293 OD2 91.4 171.0 REMARK 620 4 EDO A 503 O2 99.2 86.4 85.8 REMARK 620 N 1 2 3 DBREF 7ESR A 3 392 UNP P73270 SPEB2_SYNY3 1 390 SEQADV 7ESR GLY A 1 UNP P73270 EXPRESSION TAG SEQADV 7ESR ALA A 2 UNP P73270 EXPRESSION TAG SEQRES 1 A 392 GLY ALA MET SER ASP ALA THR PRO PHE ARG PRO PRO SER SEQRES 2 A 392 GLU ALA GLU GLU ALA LEU ILE LYS GLU THR ARG LEU PRO SEQRES 3 A 392 LEU THR GLY TRP GLN GLN GLU VAL ASP GLN GLY LEU THR SEQRES 4 A 392 TYR GLY LEU GLU ALA ALA ALA SER ILE LYS ASP ARG SER SEQRES 5 A 392 ILE PRO THR PHE SER ARG GLY GLU LEU PRO HIS TYR ALA SEQRES 6 A 392 GLY ILE ASN THR PHE MET LYS ALA PRO TYR LEU GLU ASP SEQRES 7 A 392 VAL ARG GLU VAL GLY LYS TYR ASP VAL ALA ILE VAL GLY SEQRES 8 A 392 VAL PRO HIS ASP SER GLY THR THR TYR ARG PRO GLY THR SEQRES 9 A 392 ARG PHE GLY PRO GLN GLY ILE ARG ARG ILE SER ALA LEU SEQRES 10 A 392 TYR THR PRO TYR ASN PHE GLU MET GLY VAL ASP LEU ARG SEQRES 11 A 392 GLU GLN ILE SER LEU CYS ASP VAL GLY ASP ILE PHE THR SEQRES 12 A 392 ILE PRO ALA ASN ASN GLU LYS SER PHE ASP GLN ILE SER SEQRES 13 A 392 LYS GLY ILE ALA HIS ILE PHE SER SER GLY ALA PHE PRO SEQRES 14 A 392 ILE ILE LEU GLY GLY ASP HIS SER ILE GLY PHE PRO THR SEQRES 15 A 392 VAL ARG GLY ILE CYS ARG HIS LEU GLY ASP LYS LYS VAL SEQRES 16 A 392 GLY ILE ILE HIS PHE ASP ARG HIS VAL ASP THR GLN GLU SEQRES 17 A 392 THR ASP LEU ASP GLU ARG MET HIS THR CYS PRO TRP PHE SEQRES 18 A 392 HIS ALA THR ASN MET ALA ASN ALA PRO ALA LYS ASN LEU SEQRES 19 A 392 VAL GLN LEU GLY ILE GLY GLY TRP GLN VAL PRO ARG GLN SEQRES 20 A 392 GLY VAL LYS VAL CYS ARG GLU ARG ALA THR ASN ILE LEU SEQRES 21 A 392 THR VAL THR ASP ILE THR GLU MET SER LEU ASP ALA ALA SEQRES 22 A 392 ALA ASP PHE ALA ILE ALA ARG ALA THR ASP GLY THR ASP SEQRES 23 A 392 CYS VAL TRP ILE SER PHE ASP ILE ASP CYS ILE ASP ALA SEQRES 24 A 392 GLY PHE VAL PRO GLY THR GLY TRP PRO GLU PRO GLY GLY SEQRES 25 A 392 LEU LEU PRO ARG GLU ALA LEU TYR LEU LEU LYS ARG ILE SEQRES 26 A 392 ILE ARG GLU THR ASN VAL CYS GLY MET GLU VAL VAL GLU SEQRES 27 A 392 VAL SER PRO PRO TYR ASP ILE SER ASP MET THR SER LEU SEQRES 28 A 392 MET ALA THR ARG VAL ILE CYS ASP THR MET ALA HIS LEU SEQRES 29 A 392 VAL VAL SER GLY GLN LEU PRO ARG THR GLU LYS PRO ALA SEQRES 30 A 392 TYR ILE HIS ALA GLU ALA ASN MET ALA VAL ASP GLU PRO SEQRES 31 A 392 TRP GLN HET CA A 501 1 HET CA A 502 1 HET EDO A 503 10 HET ACT A 504 7 HET EDO A 505 10 HETNAM CA CALCIUM ION HETNAM EDO 1,2-ETHANEDIOL HETNAM ACT ACETATE ION HETSYN EDO ETHYLENE GLYCOL FORMUL 2 CA 2(CA 2+) FORMUL 4 EDO 2(C2 H6 O2) FORMUL 5 ACT C2 H3 O2 1- FORMUL 7 HOH *325(H2 O) HELIX 1 AA1 SER A 13 ARG A 24 1 12 HELIX 2 AA2 LEU A 27 LEU A 42 1 16 HELIX 3 AA3 THR A 69 ALA A 73 5 5 HELIX 4 AA4 ASP A 78 TYR A 85 5 8 HELIX 5 AA5 GLY A 103 ARG A 105 5 3 HELIX 6 AA6 PHE A 106 ALA A 116 1 11 HELIX 7 AA7 LEU A 129 ILE A 133 1 5 HELIX 8 AA8 ASN A 147 SER A 165 1 19 HELIX 9 AA9 ASP A 175 SER A 177 5 3 HELIX 10 AB1 ILE A 178 ARG A 188 1 11 HELIX 11 AB2 CYS A 218 THR A 224 1 7 HELIX 12 AB3 PRO A 230 ASN A 233 5 4 HELIX 13 AB4 PRO A 245 ALA A 256 1 12 HELIX 14 AB5 THR A 261 SER A 269 1 9 HELIX 15 AB6 SER A 269 ASP A 283 1 15 HELIX 16 AB7 ASP A 295 ILE A 297 5 3 HELIX 17 AB8 ASP A 298 VAL A 302 5 5 HELIX 18 AB9 LEU A 314 GLU A 328 1 15 HELIX 19 AC1 SER A 340 ASP A 344 5 5 HELIX 20 AC2 ASP A 347 SER A 367 1 21 SHEET 1 AA1 8 LEU A 135 ASP A 140 0 SHEET 2 AA1 8 VAL A 87 VAL A 92 1 N ILE A 89 O VAL A 138 SHEET 3 AA1 8 PHE A 168 GLY A 173 1 O LEU A 172 N VAL A 92 SHEET 4 AA1 8 VAL A 331 VAL A 337 1 O VAL A 336 N GLY A 173 SHEET 5 AA1 8 CYS A 287 ASP A 293 1 N PHE A 292 O GLU A 335 SHEET 6 AA1 8 VAL A 195 PHE A 200 1 N ILE A 198 O TRP A 289 SHEET 7 AA1 8 VAL A 235 LEU A 237 1 O VAL A 235 N HIS A 199 SHEET 8 AA1 8 ASN A 258 LEU A 260 1 O ASN A 258 N GLN A 236 SHEET 1 AA2 2 TYR A 121 ASN A 122 0 SHEET 2 AA2 2 VAL A 127 ASP A 128 -1 O VAL A 127 N ASN A 122 LINK OD1 ASP A 201 CA CA A 501 1555 1555 2.17 LINK OD2 ASP A 201 CA CA A 502 1555 1555 2.03 LINK OD2 ASP A 205 CA CA A 502 1555 1555 2.13 LINK OD2 ASP A 293 CA CA A 501 1555 1555 2.24 LINK OD2 ASP A 293 CA CA A 502 1555 1555 2.19 LINK OD1 ASP A 295 CA CA A 501 1555 1555 2.46 LINK OD2 ASP A 295 CA CA A 501 1555 1555 2.23 LINK CA CA A 501 O1 EDO A 503 1555 1555 2.63 LINK CA CA A 501 O2 EDO A 503 1555 1555 2.26 LINK CA CA A 502 O2 EDO A 503 1555 1555 2.09 CISPEP 1 LEU A 61 PRO A 62 0 -11.55 CISPEP 2 GLY A 173 GLY A 174 0 3.07 CISPEP 3 LEU A 370 PRO A 371 0 -4.38 CRYST1 140.700 140.700 95.390 90.00 90.00 120.00 H 3 2 18 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 0.007107 0.004103 0.000000 0.00000 SCALE2 0.000000 0.008207 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010483 0.00000