HEADER TRANSFERASE 10-APR-09 3H14 TITLE CRYSTAL STRUCTURE OF A PUTATIVE AMINOTRANSFERASE FROM SILICIBACTER TITLE 2 POMEROYI COMPND MOL_ID: 1; COMPND 2 MOLECULE: AMINOTRANSFERASE, CLASSES I AND II; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SILICIBACTER POMEROYI DSS-3; SOURCE 3 ORGANISM_TAXID: 246200; SOURCE 4 STRAIN: DSS-3 / DSM 15171; SOURCE 5 ATCC: 700808; SOURCE 6 GENE: SPO2589, YP_167802.1; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)-CODON+RIL; SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: PET; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: BC-PSGX3(BC), MODIFIED PET26B KEYWDS AMINOTRANSFERASE, SILICIBACTER POMEROYI, YP_167802.1, SPO2589, KEYWDS 2 STRUCTURAL GENOMICS, PSI-2, PROTEIN STRUCTURE INITIATIVE, NEW YORK KEYWDS 3 STRUCTURAL GENOMIX RESEARCH CONSORTIUM, NYSGXRC, PYRIDOXAL KEYWDS 4 PHOSPHATE, TRANSFERASE, NEW YORK SGX RESEARCH CENTER FOR STRUCTURAL KEYWDS 5 GENOMICS EXPDTA X-RAY DIFFRACTION AUTHOR P.SAMPATHKUMAR,S.ATWELL,S.WASSERMAN,S.MILLER,K.BAIN,M.RUTTER,G.TARUN, AUTHOR 2 J.M.SAUDER,S.K.BURLEY,NEW YORK SGX RESEARCH CENTER FOR STRUCTURAL AUTHOR 3 GENOMICS (NYSGXRC) REVDAT 5 10-FEB-21 3H14 1 AUTHOR REMARK SEQADV LINK REVDAT 4 21-NOV-18 3H14 1 AUTHOR REVDAT 3 01-NOV-17 3H14 1 REMARK REVDAT 2 13-JUL-11 3H14 1 VERSN REVDAT 1 05-MAY-09 3H14 0 JRNL AUTH P.SAMPATHKUMAR JRNL TITL CRYSTAL STRUCTURE OF A PUTATIVE AMINOTRANSFERASE FROM JRNL TITL 2 SILICIBACTER POMEROYI JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.90 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) : 1.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 21.81 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 29645 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) : 0.192 REMARK 3 R VALUE (WORKING SET) : 0.189 REMARK 3 FREE R VALUE : 0.238 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1503 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) : 1.90 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.95 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2044 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.2490 REMARK 3 BIN FREE R VALUE SET COUNT : 117 REMARK 3 BIN FREE R VALUE : 0.2940 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2727 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 12 REMARK 3 SOLVENT ATOMS : 231 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 19.56 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 25.84 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.01000 REMARK 3 B22 (A**2) : -0.02000 REMARK 3 B33 (A**2) : 0.03000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.157 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.150 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.107 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.627 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.951 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.923 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2822 ; 0.015 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 1865 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3850 ; 1.497 ; 1.975 REMARK 3 BOND ANGLES OTHERS (DEGREES): 4534 ; 0.971 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 377 ; 5.445 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 117 ;32.752 ;23.248 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 412 ;13.022 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 23 ;14.663 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 437 ; 0.086 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3240 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 584 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 557 ; 0.218 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 2038 ; 0.194 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1431 ; 0.174 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 1458 ; 0.088 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 196 ; 0.136 ; 0.200 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): 13 ; 0.120 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 51 ; 0.264 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 9 ; 0.291 ; 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): 2010 ; 1.165 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 754 ; 0.251 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2941 ; 1.369 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1051 ; 2.694 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 904 ; 3.570 ; 4.500 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 : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 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 3H14 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 17-APR-09. REMARK 100 THE DEPOSITION ID IS D_1000052559. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 09-APR-09 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 31-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97929 REMARK 200 MONOCHROMATOR : DIAMOND REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MAR CCD 165 MM REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 29683 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.900 REMARK 200 RESOLUTION RANGE LOW (A) : 21.810 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 14.60 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.09800 REMARK 200 FOR THE DATA SET : 17.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.00 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 14.60 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.48900 REMARK 200 FOR SHELL : 6.700 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: HKL2MAP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 43.27 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.17 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 200MM CALCIUM ACETATE, 25% PEG 3350, REMARK 280 VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 294K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z 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 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 72.16250 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 72.16250 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 29.68350 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 43.18800 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 29.68350 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 43.18800 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 72.16250 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 29.68350 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 43.18800 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 72.16250 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 29.68350 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 43.18800 REMARK 290 SMTRY3 8 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4260 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 26270 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -24.1 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 59.36700 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 72.16250 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 MSE A 1 REMARK 465 SER A 2 REMARK 465 THR A 59 REMARK 465 ASP A 60 REMARK 465 ALA A 61 REMARK 465 LEU A 62 REMARK 465 GLY A 63 REMARK 465 TYR A 64 REMARK 465 THR A 65 REMARK 465 VAL A 66 REMARK 465 ALA A 67 REMARK 465 LEU A 68 REMARK 465 GLY A 383 REMARK 465 GLU A 384 REMARK 465 GLY A 385 REMARK 465 HIS A 386 REMARK 465 HIS A 387 REMARK 465 HIS A 388 REMARK 465 HIS A 389 REMARK 465 HIS A 390 REMARK 465 HIS A 391 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 A 4 CG CD CE NZ REMARK 470 GLU A 21 CG CD OE1 OE2 REMARK 470 GLU A 28 CG CD OE1 OE2 REMARK 470 ARG A 31 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 47 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 55 CG CD CE NZ REMARK 470 GLU A 58 CG CD OE1 OE2 REMARK 470 GLU A 188 CG CD OE1 OE2 REMARK 470 GLN A 191 CG CD OE1 NE2 REMARK 470 ARG A 238 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 250 NE CZ NH1 NH2 REMARK 470 PHE A 260 CG CD1 CD2 CE1 CE2 CZ REMARK 470 GLU A 297 CG CD OE1 OE2 REMARK 470 LYS A 301 CG CD CE NZ REMARK 470 LYS A 337 CG CD CE NZ REMARK 470 GLU A 351 CG CD OE1 OE2 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 ASP A 12 ND2 ASN A 258 3655 2.13 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 MSE A 166 CG - SE - CE ANGL. DEV. = -16.4 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 98 33.80 -72.95 REMARK 500 TYR A 208 -88.04 -111.92 REMARK 500 LYS A 230 -90.41 -112.73 REMARK 500 CYS A 277 41.31 -91.71 REMARK 500 ALA A 313 -158.58 57.49 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 502 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: NYSGXRC-11247N RELATED DB: TARGETDB DBREF 3H14 A 4 383 UNP Q5LQA4 Q5LQA4_SILPO 10 389 SEQADV 3H14 MSE A 1 UNP Q5LQA4 EXPRESSION TAG SEQADV 3H14 SER A 2 UNP Q5LQA4 EXPRESSION TAG SEQADV 3H14 LEU A 3 UNP Q5LQA4 EXPRESSION TAG SEQADV 3H14 GLU A 384 UNP Q5LQA4 EXPRESSION TAG SEQADV 3H14 GLY A 385 UNP Q5LQA4 EXPRESSION TAG SEQADV 3H14 HIS A 386 UNP Q5LQA4 EXPRESSION TAG SEQADV 3H14 HIS A 387 UNP Q5LQA4 EXPRESSION TAG SEQADV 3H14 HIS A 388 UNP Q5LQA4 EXPRESSION TAG SEQADV 3H14 HIS A 389 UNP Q5LQA4 EXPRESSION TAG SEQADV 3H14 HIS A 390 UNP Q5LQA4 EXPRESSION TAG SEQADV 3H14 HIS A 391 UNP Q5LQA4 EXPRESSION TAG SEQRES 1 A 391 MSE SER LEU LYS ASN SER SER ARG SER ALA VAL ASP PRO SEQRES 2 A 391 PHE ILE VAL MSE ASP VAL MSE GLU ALA ALA ARG ARG ALA SEQRES 3 A 391 GLU GLU ALA GLY ARG ARG ILE ILE HIS MSE GLU VAL GLY SEQRES 4 A 391 GLN PRO GLY THR GLY ALA PRO ARG GLY ALA VAL GLU ALA SEQRES 5 A 391 LEU ALA LYS SER LEU GLU THR ASP ALA LEU GLY TYR THR SEQRES 6 A 391 VAL ALA LEU GLY LEU PRO ALA LEU ARG GLN ARG ILE ALA SEQRES 7 A 391 ARG LEU TYR GLY GLU TRP TYR GLY VAL ASP LEU ASP PRO SEQRES 8 A 391 GLY ARG VAL VAL ILE THR PRO GLY SER SER GLY GLY PHE SEQRES 9 A 391 LEU LEU ALA PHE THR ALA LEU PHE ASP SER GLY ASP ARG SEQRES 10 A 391 VAL GLY ILE GLY ALA PRO GLY TYR PRO SER TYR ARG GLN SEQRES 11 A 391 ILE LEU ARG ALA LEU GLY LEU VAL PRO VAL ASP LEU PRO SEQRES 12 A 391 THR ALA PRO GLU ASN ARG LEU GLN PRO VAL PRO ALA ASP SEQRES 13 A 391 PHE ALA GLY LEU ASP LEU ALA GLY LEU MSE VAL ALA SER SEQRES 14 A 391 PRO ALA ASN PRO THR GLY THR MSE LEU ASP HIS ALA ALA SEQRES 15 A 391 MSE GLY ALA LEU ILE GLU ALA ALA GLN ALA GLN GLY ALA SEQRES 16 A 391 SER PHE ILE SER ASP GLU ILE TYR HIS GLY ILE GLU TYR SEQRES 17 A 391 GLU ALA LYS ALA VAL THR ALA LEU GLU LEU THR ASP GLU SEQRES 18 A 391 CYS TYR VAL ILE ASN SER PHE SER LYS TYR PHE SER MSE SEQRES 19 A 391 THR GLY TRP ARG VAL GLY TRP MSE VAL VAL PRO GLU ASP SEQRES 20 A 391 GLN VAL ARG VAL VAL GLU ARG ILE ALA GLN ASN MSE PHE SEQRES 21 A 391 ILE CYS ALA PRO HIS ALA SER GLN VAL ALA ALA LEU ALA SEQRES 22 A 391 ALA LEU ASP CYS ASP ALA GLU LEU GLN ALA ASN LEU ASP SEQRES 23 A 391 VAL TYR LYS ALA ASN ARG LYS LEU MSE LEU GLU ARG LEU SEQRES 24 A 391 PRO LYS ALA GLY PHE THR ARG ILE ALA PRO PRO ASP GLY SEQRES 25 A 391 ALA PHE TYR VAL TYR ALA ASP VAL SER ASP LEU THR ASP SEQRES 26 A 391 ASP SER ARG ALA PHE ALA ALA GLU ILE LEU GLU LYS ALA SEQRES 27 A 391 GLY VAL ALA VAL THR PRO GLY LEU ASP PHE ASP PRO GLU SEQRES 28 A 391 ARG GLY ALA GLY THR LEU ARG PHE SER TYR ALA ARG ALA SEQRES 29 A 391 THR ALA ASP ILE GLU GLU GLY LEU ASP ARG LEU GLU ALA SEQRES 30 A 391 PHE MSE GLN ALA ARG GLY GLU GLY HIS HIS HIS HIS HIS SEQRES 31 A 391 HIS MODRES 3H14 MSE A 17 MET SELENOMETHIONINE MODRES 3H14 MSE A 20 MET SELENOMETHIONINE MODRES 3H14 MSE A 36 MET SELENOMETHIONINE MODRES 3H14 MSE A 166 MET SELENOMETHIONINE MODRES 3H14 MSE A 177 MET SELENOMETHIONINE MODRES 3H14 MSE A 183 MET SELENOMETHIONINE MODRES 3H14 MSE A 234 MET SELENOMETHIONINE MODRES 3H14 MSE A 242 MET SELENOMETHIONINE MODRES 3H14 MSE A 259 MET SELENOMETHIONINE MODRES 3H14 MSE A 295 MET SELENOMETHIONINE MODRES 3H14 MSE A 379 MET SELENOMETHIONINE HET MSE A 17 8 HET MSE A 20 8 HET MSE A 36 8 HET MSE A 166 13 HET MSE A 177 8 HET MSE A 183 8 HET MSE A 234 8 HET MSE A 242 8 HET MSE A 259 8 HET MSE A 295 8 HET MSE A 379 8 HET GOL A 501 6 HET GOL A 502 6 HETNAM MSE SELENOMETHIONINE HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 1 MSE 11(C5 H11 N O2 SE) FORMUL 2 GOL 2(C3 H8 O3) FORMUL 4 HOH *231(H2 O) HELIX 1 1 VAL A 16 ALA A 29 1 14 HELIX 2 2 PRO A 46 GLU A 58 1 13 HELIX 3 3 LEU A 70 GLY A 86 1 17 HELIX 4 4 ASP A 90 GLY A 92 5 3 HELIX 5 5 GLY A 99 PHE A 112 1 14 HELIX 6 6 PRO A 126 LEU A 135 1 10 HELIX 7 7 ALA A 145 ARG A 149 5 5 HELIX 8 8 VAL A 153 ALA A 158 1 6 HELIX 9 9 ASP A 179 GLN A 193 1 15 HELIX 10 10 THR A 214 LEU A 218 5 5 HELIX 11 11 PRO A 245 ASP A 247 5 3 HELIX 12 12 GLN A 248 MSE A 259 1 12 HELIX 13 13 PRO A 264 LEU A 275 1 12 HELIX 14 14 CYS A 277 GLY A 303 1 27 HELIX 15 15 ASP A 326 GLY A 339 1 14 HELIX 16 16 LEU A 346 PHE A 348 5 3 HELIX 17 17 ARG A 352 ALA A 354 5 3 HELIX 18 18 ALA A 364 ARG A 382 1 19 SHEET 1 A 2 ILE A 34 HIS A 35 0 SHEET 2 A 2 VAL A 340 ALA A 341 1 O ALA A 341 N ILE A 34 SHEET 1 B 7 VAL A 94 THR A 97 0 SHEET 2 B 7 GLY A 240 VAL A 243 -1 O MSE A 242 N VAL A 95 SHEET 3 B 7 TYR A 223 SER A 227 -1 N ASN A 226 O TRP A 241 SHEET 4 B 7 SER A 196 ASP A 200 1 N SER A 199 O ILE A 225 SHEET 5 B 7 GLY A 164 ALA A 168 1 N VAL A 167 O ASP A 200 SHEET 6 B 7 ARG A 117 ALA A 122 1 N GLY A 119 O GLY A 164 SHEET 7 B 7 VAL A 138 PRO A 143 1 O LEU A 142 N ILE A 120 SHEET 1 C 3 TYR A 315 ASP A 319 0 SHEET 2 C 3 THR A 356 SER A 360 -1 O PHE A 359 N VAL A 316 SHEET 3 C 3 THR A 343 PRO A 344 -1 N THR A 343 O ARG A 358 LINK C VAL A 16 N MSE A 17 1555 1555 1.34 LINK C MSE A 17 N ASP A 18 1555 1555 1.33 LINK C VAL A 19 N MSE A 20 1555 1555 1.33 LINK C MSE A 20 N GLU A 21 1555 1555 1.33 LINK C HIS A 35 N MSE A 36 1555 1555 1.34 LINK C MSE A 36 N GLU A 37 1555 1555 1.32 LINK C LEU A 165 N MSE A 166 1555 1555 1.33 LINK C MSE A 166 N VAL A 167 1555 1555 1.33 LINK C THR A 176 N MSE A 177 1555 1555 1.33 LINK C MSE A 177 N LEU A 178 1555 1555 1.32 LINK C ALA A 182 N MSE A 183 1555 1555 1.33 LINK C MSE A 183 N GLY A 184 1555 1555 1.34 LINK C SER A 233 N MSE A 234 1555 1555 1.34 LINK C MSE A 234 N THR A 235 1555 1555 1.34 LINK C TRP A 241 N MSE A 242 1555 1555 1.34 LINK C MSE A 242 N VAL A 243 1555 1555 1.33 LINK C ASN A 258 N MSE A 259 1555 1555 1.34 LINK C MSE A 259 N PHE A 260 1555 1555 1.34 LINK C LEU A 294 N MSE A 295 1555 1555 1.33 LINK C MSE A 295 N LEU A 296 1555 1555 1.32 LINK C PHE A 378 N MSE A 379 1555 1555 1.32 LINK C MSE A 379 N GLN A 380 1555 1555 1.32 CISPEP 1 ALA A 122 PRO A 123 0 10.11 CISPEP 2 SER A 169 PRO A 170 0 -11.92 CISPEP 3 ASN A 172 PRO A 173 0 12.75 SITE 1 AC1 8 ARG A 76 LEU A 80 GLU A 83 TRP A 84 SITE 2 AC1 8 PHE A 232 LEU A 275 ASP A 278 HOH A 679 SITE 1 AC2 10 ILE A 120 GLY A 121 PRO A 123 GLN A 151 SITE 2 AC2 10 PRO A 152 MSE A 166 VAL A 167 ALA A 168 SITE 3 AC2 10 ALA A 171 HOH A 698 CRYST1 59.367 86.376 144.325 90.00 90.00 90.00 C 2 2 21 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 0.016844 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011577 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006929 0.00000