HEADER IMMUNE SYSTEM 06-AUG-15 5D3D TITLE CRYSTAL STRUCTURE OF STAPHYLOCOCCAL SUPERANTIGEN-LIKE PROTEIN 3 COMPND MOL_ID: 1; COMPND 2 MOLECULE: STAPHYLOCOCCAL SUPERANTIGEN-LIKE PROTEIN 3; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: UNP RESIDUES 164-356; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STAPHYLOCOCCUS AUREUS (STRAIN NCTC 8325); SOURCE 3 ORGANISM_TAXID: 93061; SOURCE 4 GENE: SAOUHSC_00386; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VARIANT: ROSETTA-GAMI KEYWDS SUPERANTIGENS, SUPERANTIGEN-LIKE PROTEINS, SSL, SSL3, TOLL-LIKE KEYWDS 2 RECEPTOR 2, TLR2, IMMUNOLOGY, INFLAMMATION, INHIBITION, IMMUNE KEYWDS 3 SYSTEM EXPDTA X-RAY DIFFRACTION AUTHOR L.J.FEITSMA,E.G.HUIZINGA REVDAT 4 01-MAY-24 5D3D 1 REMARK REVDAT 3 09-SEP-15 5D3D 1 JRNL REVDAT 2 02-SEP-15 5D3D 1 JRNL REVDAT 1 19-AUG-15 5D3D 0 JRNL AUTH K.J.KOYMANS,L.J.FEITSMA,T.H.BRONDIJK,P.C.AERTS,E.LUKKIEN, JRNL AUTH 2 P.LOSSL,K.P.VAN KESSEL,C.J.DE HAAS,J.A.VAN STRIJP, JRNL AUTH 3 E.G.HUIZINGA JRNL TITL STRUCTURAL BASIS FOR INHIBITION OF TLR2 BY STAPHYLOCOCCAL JRNL TITL 2 SUPERANTIGEN-LIKE PROTEIN 3 (SSL3). JRNL REF PROC.NATL.ACAD.SCI.USA V. 112 11018 2015 JRNL REFN ESSN 1091-6490 JRNL PMID 26283364 JRNL DOI 10.1073/PNAS.1502026112 REMARK 2 REMARK 2 RESOLUTION. 1.94 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0073 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.94 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 61.20 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 31805 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : FREE R-VALUE REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.179 REMARK 3 R VALUE (WORKING SET) : 0.176 REMARK 3 FREE R VALUE : 0.224 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1694 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) : 1.94 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.99 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2307 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.83 REMARK 3 BIN R VALUE (WORKING SET) : 0.2690 REMARK 3 BIN FREE R VALUE SET COUNT : 108 REMARK 3 BIN FREE R VALUE : 0.2780 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3178 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 41 REMARK 3 SOLVENT ATOMS : 214 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 32.20 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 37.31 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.54000 REMARK 3 B22 (A**2) : -0.22000 REMARK 3 B33 (A**2) : -1.32000 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): 0.155 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.147 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.111 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 7.832 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.963 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.934 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3371 ; 0.008 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 3363 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4520 ; 1.206 ; 1.976 REMARK 3 BOND ANGLES OTHERS (DEGREES): 7812 ; 0.668 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 416 ; 5.903 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 154 ;39.496 ;25.195 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 710 ;12.473 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 12 ;21.544 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 491 ; 0.074 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3682 ; 0.004 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 734 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL 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): 1577 ; 1.130 ; 2.340 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1576 ; 1.130 ; 2.340 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1975 ; 1.790 ; 3.498 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 1976 ; 1.790 ; 3.498 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1794 ; 1.485 ; 2.597 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1794 ; 1.485 ; 2.597 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 2530 ; 2.429 ; 3.789 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 3847 ; 5.238 ;19.138 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 3783 ; 5.081 ;18.786 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 : 4 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 1 A 223 REMARK 3 ORIGIN FOR THE GROUP (A): -9.5907 -12.1864 13.3197 REMARK 3 T TENSOR REMARK 3 T11: 0.0957 T22: 0.0395 REMARK 3 T33: 0.0545 T12: 0.0236 REMARK 3 T13: -0.0238 T23: -0.0137 REMARK 3 L TENSOR REMARK 3 L11: 1.4867 L22: 2.0822 REMARK 3 L33: 2.1812 L12: 0.1306 REMARK 3 L13: 0.3711 L23: 1.1582 REMARK 3 S TENSOR REMARK 3 S11: 0.0383 S12: 0.1332 S13: -0.2130 REMARK 3 S21: -0.1527 S22: 0.0631 S23: -0.0409 REMARK 3 S31: 0.1076 S32: 0.0052 S33: -0.1014 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 224 A 326 REMARK 3 ORIGIN FOR THE GROUP (A): -4.0139 1.0975 27.9603 REMARK 3 T TENSOR REMARK 3 T11: 0.0674 T22: 0.0157 REMARK 3 T33: 0.0202 T12: 0.0154 REMARK 3 T13: -0.0097 T23: 0.0105 REMARK 3 L TENSOR REMARK 3 L11: 1.3652 L22: 1.6365 REMARK 3 L33: 2.8716 L12: 0.5667 REMARK 3 L13: 0.9695 L23: 0.9400 REMARK 3 S TENSOR REMARK 3 S11: 0.0010 S12: -0.0539 S13: -0.0663 REMARK 3 S21: 0.0526 S22: 0.0003 S23: -0.0900 REMARK 3 S31: -0.1550 S32: -0.0029 S33: -0.0013 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 1 B 223 REMARK 3 ORIGIN FOR THE GROUP (A): 23.6522 -4.0427 2.8254 REMARK 3 T TENSOR REMARK 3 T11: 0.0670 T22: 0.0228 REMARK 3 T33: 0.0279 T12: -0.0129 REMARK 3 T13: 0.0078 T23: 0.0007 REMARK 3 L TENSOR REMARK 3 L11: 1.6661 L22: 2.3950 REMARK 3 L33: 2.2455 L12: -0.3985 REMARK 3 L13: 0.2708 L23: -0.1743 REMARK 3 S TENSOR REMARK 3 S11: 0.0446 S12: -0.0300 S13: -0.0812 REMARK 3 S21: 0.0136 S22: 0.0202 S23: 0.0515 REMARK 3 S31: 0.1741 S32: 0.1216 S33: -0.0648 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 224 B 326 REMARK 3 ORIGIN FOR THE GROUP (A): 18.0406 14.3227 9.3442 REMARK 3 T TENSOR REMARK 3 T11: 0.2404 T22: 0.0220 REMARK 3 T33: 0.1023 T12: -0.0069 REMARK 3 T13: 0.0780 T23: -0.0210 REMARK 3 L TENSOR REMARK 3 L11: 1.8761 L22: 2.2687 REMARK 3 L33: 2.8768 L12: -0.2928 REMARK 3 L13: -0.4011 L23: -0.2948 REMARK 3 S TENSOR REMARK 3 S11: 0.1240 S12: -0.1436 S13: 0.3424 REMARK 3 S21: 0.2163 S22: 0.0851 S23: 0.0334 REMARK 3 S31: -0.6781 S32: -0.0383 S33: -0.2091 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: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 5D3D COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 06-AUG-15. REMARK 100 THE DEPOSITION ID IS D_1000212604. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 30-MAR-13 REMARK 200 TEMPERATURE (KELVIN) : 80 REMARK 200 PH : 8.2 REMARK 200 NUMBER OF CRYSTALS USED : NULL 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) : 0.9999 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M-F REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM 1.0.6 REMARK 200 DATA SCALING SOFTWARE : AIMLESS 1.7.6 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 33556 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.940 REMARK 200 RESOLUTION RANGE LOW (A) : 61.200 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 6.700 REMARK 200 R MERGE (I) : 0.09300 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 11.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.94 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.99 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : 6.60 REMARK 200 R MERGE FOR SHELL (I) : 0.73000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.700 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER 2.5.2 REMARK 200 STARTING MODEL: SSL4 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.46 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 3350, POTASSIUM THIOCYANATE, PH REMARK 280 8.2, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 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 29.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 48.19000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 39.61000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 48.19000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 29.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 39.61000 REMARK 290 SMTRY3 4 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 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: B 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 132 REMARK 465 SER A 133 REMARK 465 MET A 134 REMARK 465 THR A 135 REMARK 465 PRO A 136 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 OE2 GLU B 257 O HOH B 501 2.11 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 A 174 -106.62 -121.93 REMARK 500 LYS A 191 -111.66 -105.47 REMARK 500 ASN B 174 -79.22 -130.11 REMARK 500 ARG B 175 -54.21 -135.28 REMARK 500 ASP B 192 50.47 -112.26 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 NA B 403 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER B 149 OG REMARK 620 2 GLU B 151 OE2 144.2 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 CL A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SCN A 404 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 405 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 406 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 407 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL B 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SCN B 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA B 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL B 404 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL B 405 DBREF 5D3D A 134 326 UNP Q2G0X7 Q2G0X7_STAA8 164 356 DBREF 5D3D B 134 326 UNP Q2G0X7 Q2G0X7_STAA8 164 356 SEQADV 5D3D GLY A 132 UNP Q2G0X7 EXPRESSION TAG SEQADV 5D3D SER A 133 UNP Q2G0X7 EXPRESSION TAG SEQADV 5D3D GLY B 132 UNP Q2G0X7 EXPRESSION TAG SEQADV 5D3D SER B 133 UNP Q2G0X7 EXPRESSION TAG SEQRES 1 A 195 GLY SER MET THR PRO LYS TYR GLU ASP LEU ARG ALA TYR SEQRES 2 A 195 TYR THR LYS PRO SER PHE GLU PHE GLU LYS GLN PHE GLY SEQRES 3 A 195 PHE MET LEU LYS PRO TRP THR THR VAL ARG PHE MET ASN SEQRES 4 A 195 VAL ILE PRO ASN ARG PHE ILE TYR LYS ILE ALA LEU VAL SEQRES 5 A 195 GLY LYS ASP GLU LYS LYS TYR LYS ASP GLY PRO TYR ASP SEQRES 6 A 195 ASN ILE ASP VAL PHE ILE VAL LEU GLU ASP ASN LYS TYR SEQRES 7 A 195 GLN LEU LYS LYS TYR SER VAL GLY GLY ILE THR LYS THR SEQRES 8 A 195 ASN SER LYS LYS VAL ASN HIS LYS VAL GLU LEU SER ILE SEQRES 9 A 195 THR LYS LYS ASP ASN GLN GLY MET ILE SER ARG ASP VAL SEQRES 10 A 195 SER GLU TYR MET ILE THR LYS GLU GLU ILE SER LEU LYS SEQRES 11 A 195 GLU LEU ASP PHE LYS LEU ARG LYS GLN LEU ILE GLU LYS SEQRES 12 A 195 HIS ASN LEU TYR GLY ASN MET GLY SER GLY THR ILE VAL SEQRES 13 A 195 ILE LYS MET LYS ASN GLY GLY LYS TYR THR PHE GLU LEU SEQRES 14 A 195 HIS LYS LYS LEU GLN GLU HIS ARG MET ALA ASP VAL ILE SEQRES 15 A 195 ASP GLY THR ASN ILE ASP ASN ILE GLU VAL ASN ILE LYS SEQRES 1 B 195 GLY SER MET THR PRO LYS TYR GLU ASP LEU ARG ALA TYR SEQRES 2 B 195 TYR THR LYS PRO SER PHE GLU PHE GLU LYS GLN PHE GLY SEQRES 3 B 195 PHE MET LEU LYS PRO TRP THR THR VAL ARG PHE MET ASN SEQRES 4 B 195 VAL ILE PRO ASN ARG PHE ILE TYR LYS ILE ALA LEU VAL SEQRES 5 B 195 GLY LYS ASP GLU LYS LYS TYR LYS ASP GLY PRO TYR ASP SEQRES 6 B 195 ASN ILE ASP VAL PHE ILE VAL LEU GLU ASP ASN LYS TYR SEQRES 7 B 195 GLN LEU LYS LYS TYR SER VAL GLY GLY ILE THR LYS THR SEQRES 8 B 195 ASN SER LYS LYS VAL ASN HIS LYS VAL GLU LEU SER ILE SEQRES 9 B 195 THR LYS LYS ASP ASN GLN GLY MET ILE SER ARG ASP VAL SEQRES 10 B 195 SER GLU TYR MET ILE THR LYS GLU GLU ILE SER LEU LYS SEQRES 11 B 195 GLU LEU ASP PHE LYS LEU ARG LYS GLN LEU ILE GLU LYS SEQRES 12 B 195 HIS ASN LEU TYR GLY ASN MET GLY SER GLY THR ILE VAL SEQRES 13 B 195 ILE LYS MET LYS ASN GLY GLY LYS TYR THR PHE GLU LEU SEQRES 14 B 195 HIS LYS LYS LEU GLN GLU HIS ARG MET ALA ASP VAL ILE SEQRES 15 B 195 ASP GLY THR ASN ILE ASP ASN ILE GLU VAL ASN ILE LYS HET CL A 401 1 HET CL A 402 1 HET CL A 403 1 HET SCN A 404 3 HET GOL A 405 6 HET GOL A 406 6 HET GOL A 407 6 HET CL B 401 1 HET SCN B 402 3 HET NA B 403 1 HET GOL B 404 6 HET GOL B 405 6 HETNAM CL CHLORIDE ION HETNAM SCN THIOCYANATE ION HETNAM GOL GLYCEROL HETNAM NA SODIUM ION HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 CL 4(CL 1-) FORMUL 6 SCN 2(C N S 1-) FORMUL 7 GOL 5(C3 H8 O3) FORMUL 12 NA NA 1+ FORMUL 15 HOH *214(H2 O) HELIX 1 AA1 TYR A 138 TYR A 145 1 8 HELIX 2 AA2 GLY A 184 TYR A 190 1 7 HELIX 3 AA3 LEU A 260 ASN A 276 1 17 HELIX 4 AA4 GLN A 305 ALA A 310 5 6 HELIX 5 AA5 TYR B 138 TYR B 145 1 8 HELIX 6 AA6 VAL B 183 LYS B 189 5 7 HELIX 7 AA7 LEU B 260 ASN B 276 1 17 HELIX 8 AA8 GLN B 305 ALA B 310 5 6 SHEET 1 AA1 3 PHE A 150 GLY A 157 0 SHEET 2 AA1 3 TYR A 195 ILE A 202 -1 O TYR A 195 N GLY A 157 SHEET 3 AA1 3 ILE A 219 LYS A 221 -1 O THR A 220 N ASP A 199 SHEET 1 AA2 3 PHE A 168 VAL A 171 0 SHEET 2 AA2 3 TYR A 178 ALA A 181 -1 O TYR A 178 N VAL A 171 SHEET 3 AA2 3 SER A 215 VAL A 216 1 O SER A 215 N ALA A 181 SHEET 1 AA3 5 ILE A 244 ILE A 253 0 SHEET 2 AA3 5 HIS A 229 LYS A 238 -1 N LEU A 233 O SER A 249 SHEET 3 AA3 5 ILE A 318 LYS A 326 1 O VAL A 323 N THR A 236 SHEET 4 AA3 5 SER A 283 MET A 290 -1 N LYS A 289 O ASP A 319 SHEET 5 AA3 5 LYS A 295 GLU A 299 -1 O PHE A 298 N ILE A 286 SHEET 1 AA4 2 GLU A 257 SER A 259 0 SHEET 2 AA4 2 VAL A 312 ASP A 314 -1 O ILE A 313 N ILE A 258 SHEET 1 AA5 3 PHE B 150 GLY B 157 0 SHEET 2 AA5 3 TYR B 195 ILE B 202 -1 O TYR B 195 N GLY B 157 SHEET 3 AA5 3 ILE B 219 LYS B 221 -1 O THR B 220 N ASP B 199 SHEET 1 AA6 3 PHE B 168 VAL B 171 0 SHEET 2 AA6 3 TYR B 178 ALA B 181 -1 O ILE B 180 N MET B 169 SHEET 3 AA6 3 SER B 215 VAL B 216 1 O SER B 215 N ALA B 181 SHEET 1 AA7 5 ILE B 244 ILE B 253 0 SHEET 2 AA7 5 HIS B 229 LYS B 238 -1 N VAL B 231 O TYR B 251 SHEET 3 AA7 5 ILE B 318 LYS B 326 1 O VAL B 323 N THR B 236 SHEET 4 AA7 5 SER B 283 MET B 290 -1 N LYS B 289 O ASP B 319 SHEET 5 AA7 5 LYS B 295 GLU B 299 -1 O PHE B 298 N ILE B 286 SHEET 1 AA8 2 GLU B 257 SER B 259 0 SHEET 2 AA8 2 VAL B 312 ASP B 314 -1 O ILE B 313 N ILE B 258 LINK OG SER B 149 NA NA B 403 1555 1555 2.52 LINK OE2 GLU B 151 NA NA B 403 1555 1555 2.20 CISPEP 1 GLY A 193 PRO A 194 0 4.25 CISPEP 2 LYS B 161 PRO B 162 0 -4.33 CISPEP 3 GLY B 193 PRO B 194 0 5.68 SITE 1 AC1 2 ASN A 292 ASN A 317 SITE 1 AC2 3 ILE A 235 GLN A 270 HIS A 275 SITE 1 AC3 2 LYS A 185 HOH A 567 SITE 1 AC4 2 ASP A 140 HOH A 555 SITE 1 AC5 7 GLU A 205 VAL A 216 LYS A 303 GLU A 306 SITE 2 AC5 7 HOH A 504 HOH A 506 TYR B 209 SITE 1 AC6 4 LYS A 230 GLU A 232 GLU A 250 ASN B 174 SITE 1 AC7 4 ARG A 175 ILE B 172 PRO B 173 ASN B 174 SITE 1 AC8 2 ASN B 292 ASN B 317 SITE 1 AC9 4 LYS A 161 MET B 159 GLY B 193 PRO B 194 SITE 1 AD1 3 SER B 149 GLU B 151 PHE B 201 SITE 1 AD2 6 THR B 297 GLU B 299 GLN B 305 ARG B 308 SITE 2 AD2 6 HOH B 502 HOH B 534 SITE 1 AD3 6 GLU B 151 VAL B 200 PHE B 201 LYS B 255 SITE 2 AD3 6 GLU B 262 HOH B 514 CRYST1 58.000 79.220 96.380 90.00 90.00 90.00 P 21 21 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 0.017241 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012623 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010376 0.00000