HEADER TRANSFERASE 10-APR-08 3CSV TITLE CRYSTAL STRUCTURE OF A PUTATIVE AMINOGLYCOSIDE PHOSPHOTRANSFERASE TITLE 2 (YP_614837.1) FROM SILICIBACTER SP. TM1040 AT 2.15 A RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: AMINOGLYCOSIDE PHOSPHOTRANSFERASE; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SILICIBACTER SP.; SOURCE 3 ORGANISM_TAXID: 292414; SOURCE 4 STRAIN: TM1040; SOURCE 5 GENE: YP_614837.1, TM1040_2843; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: HK100; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: SPEEDET KEYWDS YP_614837.1, PUTATIVE AMINOGLYCOSIDE PHOSPHOTRANSFERASE, KEYWDS 2 PHOSPHOTRANSFERASE ENZYME FAMILY, STRUCTURAL GENOMICS, JOINT CENTER KEYWDS 3 FOR STRUCTURAL GENOMICS, JCSG, PROTEIN STRUCTURE INITIATIVE, PSI-2, KEYWDS 4 TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR JOINT CENTER FOR STRUCTURAL GENOMICS (JCSG) REVDAT 6 01-FEB-23 3CSV 1 REMARK SEQADV REVDAT 5 24-JUL-19 3CSV 1 REMARK LINK REVDAT 4 25-OCT-17 3CSV 1 REMARK REVDAT 3 13-JUL-11 3CSV 1 VERSN REVDAT 2 24-FEB-09 3CSV 1 VERSN REVDAT 1 22-APR-08 3CSV 0 JRNL AUTH JOINT CENTER FOR STRUCTURAL GENOMICS (JCSG) JRNL TITL CRYSTAL STRUCTURE OF A PUTATIVE AMINOGLYCOSIDE JRNL TITL 2 PHOSPHOTRANSFERASE (YP_614837.1) FROM SILICIBACTER SP. JRNL TITL 3 TM1040 AT 2.15 A RESOLUTION JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.15 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD WITH PHASES REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.15 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.74 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 20494 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) : 0.171 REMARK 3 R VALUE (WORKING SET) : 0.168 REMARK 3 FREE R VALUE : 0.228 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1050 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) : 2.15 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.21 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1414 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.47 REMARK 3 BIN R VALUE (WORKING SET) : 0.1880 REMARK 3 BIN FREE R VALUE SET COUNT : 66 REMARK 3 BIN FREE R VALUE : 0.2530 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2531 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 52 REMARK 3 SOLVENT ATOMS : 199 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : 29.36 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 26.37 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.56000 REMARK 3 B22 (A**2) : 1.11000 REMARK 3 B33 (A**2) : -0.63000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.19000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.216 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.190 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.118 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 8.559 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.957 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.920 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2654 ; 0.010 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 1822 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3590 ; 1.174 ; 1.962 REMARK 3 BOND ANGLES OTHERS (DEGREES): 4386 ; 0.906 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 328 ; 5.588 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 136 ;36.156 ;23.088 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 415 ;13.222 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 27 ;14.064 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 391 ; 0.070 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2985 ; 0.004 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 567 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 562 ; 0.206 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 1918 ; 0.196 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1263 ; 0.176 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 1381 ; 0.084 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 161 ; 0.157 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 1 ; 0.011 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 18 ; 0.157 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 41 ; 0.258 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 16 ; 0.152 ; 0.200 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): 1622 ; 1.350 ; 3.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 646 ; 0.321 ; 3.000 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2590 ; 2.425 ; 5.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1056 ; 4.455 ; 8.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 996 ; 6.405 ;11.000 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 : 1 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 : A 3 A 332 REMARK 3 ORIGIN FOR THE GROUP (A): 14.2200 30.1930 18.4460 REMARK 3 T TENSOR REMARK 3 T11: -0.0741 T22: -0.0707 REMARK 3 T33: -0.1464 T12: 0.0115 REMARK 3 T13: -0.0243 T23: -0.0069 REMARK 3 L TENSOR REMARK 3 L11: 0.5622 L22: 0.2290 REMARK 3 L33: 0.7762 L12: 0.1701 REMARK 3 L13: -0.3121 L23: -0.2843 REMARK 3 S TENSOR REMARK 3 S11: -0.0150 S12: -0.0172 S13: 0.0014 REMARK 3 S21: -0.0377 S22: 0.0350 S23: -0.0050 REMARK 3 S31: 0.0433 S32: 0.0351 S33: -0.0200 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: REMARK 3 1. HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS. REMARK 3 2. A MET-INHIBITION PROTOCOL WAS USED FOR REMARK 3 SELENOMETHIONINE INCORPORATION DURING PROTEIN EXPRESSION. THE REMARK 3 OCCUPANCY OF THE SE ATOMS IN THE MSE RESIDUES WAS REDUCED TO REMARK 3 0.75 FOR THE REDUCED SCATTERING POWER DUE TO PARTIAL S-MET REMARK 3 INCORPORATION. REMARK 3 3. ATOM RECORD CONTAINS RESIDUAL B FACTORS ONLY. REMARK 3 4. ZN IS MODELED BASED ON AN X-RAY FLOURESCENCE SCAN, REMARK 3 ANOMALOUS DIFFERENCE FOURIERS, AND COORDINATION GEOMETRY. REMARK 3 5. NA, CL, SO4, AND EDO ARE MODELED BASED ON CRYSTALLIZATION AND REMARK 3 CRYO CONDITIONS. REMARK 4 REMARK 4 3CSV COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 11-APR-08. REMARK 100 THE DEPOSITION ID IS D_1000047169. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 17-MAR-08 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 : SSRL REMARK 200 BEAMLINE : BL9-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97915 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL REMARK 200 OPTICS : FLAT COLLIMATING MIRROR, TOROID REMARK 200 FOCUSING MIRROR REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 325 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 20496 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.150 REMARK 200 RESOLUTION RANGE LOW (A) : 29.735 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.2 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : 0.05500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 10.3300 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.15 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.23 REMARK 200 COMPLETENESS FOR SHELL (%) : 96.5 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.32200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.400 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: SHELX, SHELXD, AUTOSHARP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.48 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.48 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NANODROP, 2.0M (NH4)2SO4, 0.2M NACL, REMARK 280 0.1M CACODYLATE PH 6.5, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 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+1/2,Y+1/2,Z 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 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 56.84000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 27.97000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 56.84000 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 27.97000 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 6230 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 28730 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -119.3 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 -1.000000 0.000000 0.000000 -13.66737 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 59.67488 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 427 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 520 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 0 REMARK 465 MSE A 1 REMARK 465 THR A 2 REMARK 465 LEU A 25 REMARK 465 ALA A 26 REMARK 465 GLY A 27 REMARK 465 ASP A 28 REMARK 465 ALA A 29 REMARK 465 SER A 30 REMARK 465 SER A 31 REMARK 465 ARG A 32 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 9 CD NE CZ NH1 NH2 REMARK 470 ARG A 22 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 33 CG CD NE CZ NH1 NH2 REMARK 470 TYR A 34 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 TRP A 50 CG CD1 CD2 NE1 CE2 CE3 CZ2 REMARK 470 TRP A 50 CZ3 CH2 REMARK 470 GLU A 53 CG CD OE1 OE2 REMARK 470 GLU A 54 CG CD OE1 OE2 REMARK 470 GLU A 137 CG CD OE1 OE2 REMARK 470 ARG A 169 CD NE CZ NH1 NH2 REMARK 470 GLU A 201 CG CD OE1 OE2 REMARK 470 GLN A 237 CD OE1 NE2 REMARK 470 ARG A 301 CD NE CZ NH1 NH2 REMARK 470 GLU A 313 CD OE1 OE2 REMARK 470 GLU A 314 CG CD OE1 OE2 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 TYR A 34 67.39 -163.92 REMARK 500 ARG A 187 -21.21 88.61 REMARK 500 ALA A 214 154.05 -47.27 REMARK 500 ASP A 229 110.46 -30.34 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 333 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 81 OE2 REMARK 620 2 HIS A 83 NE2 117.0 REMARK 620 N 1 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 333 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 334 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 335 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 336 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 337 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 338 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 339 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 340 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 341 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 342 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 343 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 344 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 346 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 347 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 387075 RELATED DB: TARGETDB REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE CONSTRUCT WAS EXPRESSED WITH A PURIFICATION TAG REMARK 999 MGSDKIHHHHHHENLYFQG. THE TAG WAS REMOVED WITH TEV PROTEASE REMARK 999 LEAVING ONLY A GLYCINE (0) FOLLOWED BY THE TARGET SEQUENCE. DBREF 3CSV A 1 332 UNP Q1GCP1 Q1GCP1_SILST 1 332 SEQADV 3CSV GLY A 0 UNP Q1GCP1 EXPRESSION TAG SEQRES 1 A 333 GLY MSE THR SER ARG GLU ASP GLU ILE ARG ASP PHE LEU SEQRES 2 A 333 ALA THR HIS GLY TYR ALA ASP TRP ASN ARG THR PRO LEU SEQRES 3 A 333 ALA GLY ASP ALA SER SER ARG ARG TYR GLN ARG LEU ARG SEQRES 4 A 333 SER PRO THR GLY ALA LYS ALA VAL LEU MSE ASP TRP SER SEQRES 5 A 333 PRO GLU GLU GLY GLY ASP THR GLN PRO PHE VAL ASP LEU SEQRES 6 A 333 ALA GLN TYR LEU ARG ASN LEU ASP ILE SER ALA PRO GLU SEQRES 7 A 333 ILE TYR ALA GLU GLU HIS ALA ARG GLY LEU LEU LEU ILE SEQRES 8 A 333 GLU ASP LEU GLY ASP ALA LEU PHE THR GLU VAL ILE ASN SEQRES 9 A 333 ASN ASP PRO ALA GLN GLU MSE PRO LEU TYR ARG ALA ALA SEQRES 10 A 333 VAL ASP LEU LEU ILE HIS LEU HIS ASP ALA GLN THR PRO SEQRES 11 A 333 GLU LEU ALA ARG LEU ASP PRO GLU THR LEU SER GLU MSE SEQRES 12 A 333 THR ARG LEU ALA PHE SER GLU TYR ARG TYR ALA ILE LEU SEQRES 13 A 333 GLY ASP ALA ALA GLU ASP ASN ARG LYS ARG PHE GLU HIS SEQRES 14 A 333 ARG PHE ALA GLN ILE LEU SER ALA GLN LEU GLU GLY ASP SEQRES 15 A 333 MSE VAL PHE VAL HIS ARG ASP PHE HIS ALA GLN ASN LEU SEQRES 16 A 333 LEU TRP LEU PRO GLU ARG GLU GLY LEU ALA ARG VAL GLY SEQRES 17 A 333 VAL ILE ASP PHE GLN ASP ALA LYS LEU GLY HIS ARG ALA SEQRES 18 A 333 TYR ASP LEU VAL SER LEU LEU GLN ASP ALA ARG ARG ASP SEQRES 19 A 333 VAL PRO ALA GLN VAL GLU ALA GLN MSE ILE ASP HIS TYR SEQRES 20 A 333 ILE GLN ALA THR GLY VAL ASP GLU SER HIS PHE ARG SER SEQRES 21 A 333 ALA TYR ALA VAL ILE ALA VAL GLN ARG ASN MSE ARG ILE SEQRES 22 A 333 LEU GLY ILE PHE ALA ARG LEU SER GLN ARG PHE GLY LYS SEQRES 23 A 333 ARG HIS TYR ILE GLU PHE VAL PRO ARG VAL TRP ALA HIS SEQRES 24 A 333 PHE GLU ARG GLY LEU ALA HIS PRO ALA LEU ALA SER ALA SEQRES 25 A 333 ALA GLU GLU ILE LEU ASN ALA LEU PRO ALA PRO ALA PRO SEQRES 26 A 333 GLU VAL LEU GLU ARG LEU ARG ALA MODRES 3CSV MSE A 48 MET SELENOMETHIONINE MODRES 3CSV MSE A 110 MET SELENOMETHIONINE MODRES 3CSV MSE A 142 MET SELENOMETHIONINE MODRES 3CSV MSE A 182 MET SELENOMETHIONINE MODRES 3CSV MSE A 242 MET SELENOMETHIONINE MODRES 3CSV MSE A 270 MET SELENOMETHIONINE HET MSE A 48 13 HET MSE A 110 8 HET MSE A 142 8 HET MSE A 182 8 HET MSE A 242 8 HET MSE A 270 8 HET ZN A 333 1 HET NA A 334 1 HET CL A 335 1 HET SO4 A 336 5 HET EDO A 337 4 HET EDO A 338 4 HET EDO A 339 4 HET EDO A 340 4 HET EDO A 341 4 HET EDO A 342 4 HET EDO A 343 4 HET EDO A 344 4 HET EDO A 345 4 HET EDO A 346 4 HET EDO A 347 4 HETNAM MSE SELENOMETHIONINE HETNAM ZN ZINC ION HETNAM NA SODIUM ION HETNAM CL CHLORIDE ION HETNAM SO4 SULFATE ION HETNAM EDO 1,2-ETHANEDIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 1 MSE 6(C5 H11 N O2 SE) FORMUL 2 ZN ZN 2+ FORMUL 3 NA NA 1+ FORMUL 4 CL CL 1- FORMUL 5 SO4 O4 S 2- FORMUL 6 EDO 11(C2 H6 O2) FORMUL 17 HOH *199(H2 O) HELIX 1 1 SER A 3 HIS A 15 1 13 HELIX 2 2 THR A 58 LEU A 71 1 14 HELIX 3 3 LEU A 97 ASP A 105 1 9 HELIX 4 4 GLN A 108 ASP A 125 1 18 HELIX 5 5 ASP A 135 MSE A 142 1 8 HELIX 6 6 ARG A 144 GLU A 149 1 6 HELIX 7 7 GLU A 149 GLY A 156 1 8 HELIX 8 8 ALA A 159 LEU A 178 1 20 HELIX 9 9 HIS A 190 GLN A 192 5 3 HELIX 10 10 GLU A 201 ALA A 204 5 4 HELIX 11 11 ALA A 220 GLN A 228 1 9 HELIX 12 12 PRO A 235 GLY A 251 1 17 HELIX 13 13 ASP A 253 ARG A 282 1 30 HELIX 14 14 LYS A 285 GLU A 290 5 6 HELIX 15 15 PHE A 291 ALA A 304 1 14 HELIX 16 16 HIS A 305 ALA A 307 5 3 HELIX 17 17 LEU A 308 LEU A 319 1 12 HELIX 18 18 ALA A 323 ALA A 332 1 10 SHEET 1 A 5 ASN A 21 ARG A 22 0 SHEET 2 A 5 GLN A 35 ARG A 38 -1 O ARG A 38 N ASN A 21 SHEET 3 A 5 LYS A 44 ASP A 49 -1 O LEU A 47 N GLN A 35 SHEET 4 A 5 LEU A 87 ILE A 90 -1 O LEU A 88 N MSE A 48 SHEET 5 A 5 ILE A 78 GLU A 82 -1 N TYR A 79 O LEU A 89 SHEET 1 B 2 VAL A 183 VAL A 185 0 SHEET 2 B 2 LYS A 215 GLY A 217 -1 O LYS A 215 N VAL A 185 SHEET 1 C 2 LEU A 194 TRP A 196 0 SHEET 2 C 2 VAL A 206 VAL A 208 -1 O GLY A 207 N LEU A 195 LINK C LEU A 47 N MSE A 48 1555 1555 1.34 LINK C MSE A 48 N ASP A 49 1555 1555 1.33 LINK C GLU A 109 N MSE A 110 1555 1555 1.33 LINK C MSE A 110 N PRO A 111 1555 1555 1.35 LINK C GLU A 141 N MSE A 142 1555 1555 1.33 LINK C MSE A 142 N THR A 143 1555 1555 1.34 LINK C ASP A 181 N MSE A 182 1555 1555 1.32 LINK C MSE A 182 N VAL A 183 1555 1555 1.32 LINK C GLN A 241 N MSE A 242 1555 1555 1.33 LINK C MSE A 242 N ILE A 243 1555 1555 1.34 LINK C ASN A 269 N MSE A 270 1555 1555 1.33 LINK C MSE A 270 N ARG A 271 1555 1555 1.33 LINK OG SER A 39 NA NA A 334 1555 1555 2.95 LINK OE2 GLU A 81 ZN ZN A 333 1555 1555 2.01 LINK NE2 HIS A 83 ZN ZN A 333 1555 1555 2.21 SITE 1 AC1 2 GLU A 81 HIS A 83 SITE 1 AC2 2 SER A 39 THR A 41 SITE 1 AC3 2 GLU A 91 LEU A 93 SITE 1 AC4 2 ARG A 286 HOH A 511 SITE 1 AC5 4 ARG A 9 TYR A 17 ALA A 18 TRP A 20 SITE 1 AC6 8 LYS A 44 ASP A 92 LEU A 93 GLY A 94 SITE 2 AC6 8 LEU A 197 GLN A 281 ALA A 332 HOH A 381 SITE 1 AC7 3 ARG A 144 ARG A 163 LYS A 164 SITE 1 AC8 3 LYS A 285 ARG A 286 HIS A 287 SITE 1 AC9 5 GLN A 228 ALA A 265 HIS A 298 ARG A 301 SITE 2 AC9 5 GLY A 302 SITE 1 BC1 3 ARG A 271 ARG A 278 HOH A 477 SITE 1 BC2 7 SER A 225 GLN A 228 ALA A 230 ARG A 268 SITE 2 BC2 7 ASN A 269 HOH A 374 HOH A 459 SITE 1 BC3 3 GLU A 149 HOH A 418 HOH A 448 SITE 1 BC4 7 GLY A 16 TYR A 17 TYR A 67 LEU A 71 SITE 2 BC4 7 GLN A 127 HOH A 377 HOH A 498 SITE 1 BC5 5 ARG A 187 TYR A 221 ARG A 268 ARG A 271 SITE 2 BC5 5 HOH A 489 CRYST1 113.680 55.940 61.220 90.00 102.90 90.00 C 1 2 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 0.008797 0.000000 0.002014 0.00000 SCALE2 0.000000 0.017876 0.000000 0.00000 SCALE3 0.000000 0.000000 0.016757 0.00000