HEADER CELL ADHESION 18-OCT-21 7SJK TITLE STRUCTURE OF PLS A-DOMAIN (RESIDUES 391-656) FROM STAPHYLOCOCCUS TITLE 2 AUREUS COMPND MOL_ID: 1; COMPND 2 MOLECULE: PLS PLASMIN SENSITIVE SURFACE PROTEIN; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: A DOMAIN (UNP RESIDUES 391-656); COMPND 5 SYNONYM: 230 KDA CELL-WALL PROTEIN,PLASMIN-SENSITIVE SURFACE PROTEIN; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STAPHYLOCOCCUS AUREUS SUBSP. AUREUS NCTC 8325; SOURCE 3 ORGANISM_TAXID: 93061; SOURCE 4 GENE: PLS; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008 KEYWDS CELL ADHESION, L-TYPE LECTIN EXPDTA X-RAY DIFFRACTION AUTHOR L.CLARK,F.WHELAN,K.E.ATKIN,A.S.BRENTNALL,E.J.DODSON,J.P.TURKENBURG, AUTHOR 2 J.R.POTTS REVDAT 3 25-OCT-23 7SJK 1 REMARK REVDAT 2 03-MAY-23 7SJK 1 JRNL REVDAT 1 26-OCT-22 7SJK 0 JRNL AUTH L.C.CLARK,K.E.ATKIN,F.WHELAN,A.S.BRENTNALL,G.HARRIS, JRNL AUTH 2 A.M.TOWELL,J.P.TURKENBURG,Y.LIU,T.FEIZI,S.C.GRIFFITHS, JRNL AUTH 3 J.A.GEOGHEGAN,J.R.POTTS JRNL TITL STAPHYLOCOCCAL PERISCOPE PROTEINS AAP, SASG, AND PLS PROJECT JRNL TITL 2 NONCANONICAL LEGUME-LIKE LECTIN ADHESIN DOMAINS FROM THE JRNL TITL 3 BACTERIAL SURFACE. JRNL REF J.BIOL.CHEM. V. 299 02936 2023 JRNL REFN ESSN 1083-351X JRNL PMID 36702253 JRNL DOI 10.1016/J.JBC.2023.102936 REMARK 2 REMARK 2 RESOLUTION. 1.21 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0267 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) : 1.21 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 67.06 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 3 NUMBER OF REFLECTIONS : 132407 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) : 0.122 REMARK 3 R VALUE (WORKING SET) : 0.120 REMARK 3 FREE R VALUE : 0.158 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.200 REMARK 3 FREE R VALUE TEST SET COUNT : 7281 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) : 1.21 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.24 REMARK 3 REFLECTION IN BIN (WORKING SET) : 9271 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 95.15 REMARK 3 BIN R VALUE (WORKING SET) : 0.2230 REMARK 3 BIN FREE R VALUE SET COUNT : 536 REMARK 3 BIN FREE R VALUE : 0.2450 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4028 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 2 REMARK 3 SOLVENT ATOMS : 736 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 7.40 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 14.76 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.55000 REMARK 3 B22 (A**2) : 1.52000 REMARK 3 B33 (A**2) : -0.15000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.30000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.037 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.039 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.036 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.936 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.985 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.975 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4641 ; 0.018 ; 0.013 REMARK 3 BOND LENGTHS OTHERS (A): 4266 ; 0.001 ; 0.016 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6334 ; 2.001 ; 1.652 REMARK 3 BOND ANGLES OTHERS (DEGREES): 9864 ; 1.573 ; 1.601 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 636 ; 7.942 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 240 ;36.503 ;26.125 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 792 ;11.686 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 8 ;23.258 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 630 ; 0.109 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5761 ; 0.011 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1131 ; 0.003 ; 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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): 8905 ; 5.478 ; 3.000 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 NCS TYPE: LOCAL REMARK 3 NUMBER OF DIFFERENT NCS PAIRS : 1 REMARK 3 GROUP CHAIN1 RANGE CHAIN2 RANGE COUNT RMS WEIGHT REMARK 3 1 A 393 653 B 393 653 8685 0.140 0.050 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL 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 U VALUES : REFINED INDIVIDUALLY REMARK 4 REMARK 4 7SJK COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 18-OCT-21. REMARK 100 THE DEPOSITION ID IS D_1000260294. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 21-SEP-18 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I04-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.91587 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 : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 139773 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.208 REMARK 200 RESOLUTION RANGE LOW (A) : 67.170 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 3.900 REMARK 200 R MERGE (I) : 0.11800 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 5.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.21 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.23 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.8 REMARK 200 DATA REDUNDANCY IN SHELL : 3.60 REMARK 200 R MERGE FOR SHELL (I) : 0.89800 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.800 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: PDB ENTRY 4CCI REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 40.20 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.06 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 25% PEG3350, 0.1 M BIS-TRIS, PH 5.5, REMARK 280 VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 33.34450 REMARK 290 SMTRY3 2 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 387 REMARK 465 PRO A 388 REMARK 465 ALA A 389 REMARK 465 MET A 390 REMARK 465 GLY B 387 REMARK 465 PRO B 388 REMARK 465 ALA B 389 REMARK 465 MET B 390 REMARK 465 GLN B 391 REMARK 465 ASP B 392 REMARK 465 ILE B 529 REMARK 465 ALA B 655 REMARK 465 ASP B 656 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 GLY B 530 N CA 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 OD1 ASN B 571 O HOH B 801 1.70 REMARK 500 O HOH A 918 O HOH A 1022 2.14 REMARK 500 O HOH A 831 O HOH A 1160 2.18 REMARK 500 O HOH A 992 O HOH A 1022 2.18 REMARK 500 OD1 ASN B 486 O HOH B 802 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 NZ LYS B 411 O HOH A 1179 2746 1.96 REMARK 500 O HOH A 1176 O HOH B 1063 2656 2.18 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 HIS A 410 CE1 HIS A 410 NE2 0.117 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 ARG A 492 NE - CZ - NH1 ANGL. DEV. = 4.0 DEGREES REMARK 500 ARG A 492 NE - CZ - NH2 ANGL. DEV. = -3.9 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 ASN A 427 15.34 80.23 REMARK 500 ASN A 431 97.96 -168.03 REMARK 500 ARG A 492 -149.41 -121.20 REMARK 500 ASN A 498 -2.25 73.08 REMARK 500 LYS A 533 57.04 -90.19 REMARK 500 TYR A 636 51.58 -109.92 REMARK 500 ASN B 431 83.63 -156.15 REMARK 500 ASP B 444 -169.51 -111.84 REMARK 500 ARG B 492 -140.44 -124.16 REMARK 500 ASN B 498 -5.42 72.29 REMARK 500 LYS B 533 49.67 -101.77 REMARK 500 LYS B 533 49.36 -101.22 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 CA A 700 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 505 OD1 REMARK 620 2 ASP A 505 OD2 52.3 REMARK 620 3 ALA A 507 O 73.2 121.5 REMARK 620 4 ASN A 509 OD1 131.0 150.4 80.7 REMARK 620 5 ASP A 519 OD1 92.4 75.8 88.2 127.9 REMARK 620 6 ASP A 519 OD2 135.0 125.5 77.7 75.2 52.8 REMARK 620 7 HOH A 874 O 129.8 79.5 156.8 83.8 87.8 81.7 REMARK 620 8 HOH A 947 O 76.3 77.0 112.2 76.3 151.9 147.7 80.5 REMARK 620 N 1 2 3 4 5 6 7 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B 700 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 505 OD1 REMARK 620 2 ASP B 505 OD2 52.6 REMARK 620 3 ALA B 507 O 73.1 122.8 REMARK 620 4 ASN B 509 OD1 132.1 147.8 81.5 REMARK 620 5 ASP B 519 OD1 90.3 75.2 90.0 130.2 REMARK 620 6 ASP B 519 OD2 132.7 124.8 78.1 77.6 52.6 REMARK 620 7 HOH B 877 O 131.4 79.8 155.1 82.4 86.0 79.9 REMARK 620 8 HOH B 979 O 76.8 75.1 111.7 76.0 149.5 149.9 82.4 REMARK 620 N 1 2 3 4 5 6 7 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 7SIE RELATED DB: PDB REMARK 900 7SIE CONTAINS THE STRUCTURE OF AAP A-DOMAIN (RESIDUES 351-605) FROM REMARK 900 STAPHYLOCOCCUS EPIDERMIDIS REMARK 900 RELATED ID: 7SMH RELATED DB: PDB REMARK 900 7SMH CONTAINS THE STRUCTURE OF THE SASG A DOMAIN (144-423) FROM REMARK 900 STAPHYLOCOCCUS AUREUS DBREF 7SJK A 391 656 UNP P80544 PLS_STAAU 391 656 DBREF 7SJK B 391 656 UNP P80544 PLS_STAAU 391 656 SEQADV 7SJK GLY A 387 UNP P80544 EXPRESSION TAG SEQADV 7SJK PRO A 388 UNP P80544 EXPRESSION TAG SEQADV 7SJK ALA A 389 UNP P80544 EXPRESSION TAG SEQADV 7SJK MET A 390 UNP P80544 EXPRESSION TAG SEQADV 7SJK GLY B 387 UNP P80544 EXPRESSION TAG SEQADV 7SJK PRO B 388 UNP P80544 EXPRESSION TAG SEQADV 7SJK ALA B 389 UNP P80544 EXPRESSION TAG SEQADV 7SJK MET B 390 UNP P80544 EXPRESSION TAG SEQRES 1 A 270 GLY PRO ALA MET GLN ASP THR VAL THR LYS LYS GLY THR SEQRES 2 A 270 GLY ASN PHE THR ALA HIS GLY ASP ILE ILE HIS LYS THR SEQRES 3 A 270 TYR LYS GLU GLU PHE PRO ASN GLU GLY THR LEU THR ALA SEQRES 4 A 270 PHE ASN THR ASN PHE ASN PRO ASN THR GLY THR LYS GLY SEQRES 5 A 270 ALA LEU GLU TYR ASN ASP LYS ILE ASP PHE ASN LYS ASP SEQRES 6 A 270 PHE THR ILE THR VAL PRO VAL ALA ASN ASN ASN GLN GLY SEQRES 7 A 270 ASN THR THR GLY ALA ASP GLY TRP GLY PHE MET PHE THR SEQRES 8 A 270 GLN GLY ASN GLY GLN ASP PHE LEU ASN GLN GLY GLY ILE SEQRES 9 A 270 LEU ARG ASP LYS GLY MET ALA ASN ALA SER GLY PHE LYS SEQRES 10 A 270 ILE ASP THR ALA TYR ASN ASN VAL ASN GLY LYS VAL ASP SEQRES 11 A 270 LYS LEU ASP ALA ASP LYS THR ASN ASN LEU SER GLN ILE SEQRES 12 A 270 GLY ALA ALA LYS VAL GLY TYR GLY THR PHE VAL LYS ASN SEQRES 13 A 270 GLY ALA ASP GLY VAL THR ASN GLN VAL GLY GLN ASN ALA SEQRES 14 A 270 LEU ASN THR LYS ASP LYS PRO VAL ASN LYS ILE ILE TYR SEQRES 15 A 270 ALA ASP ASN THR THR ASN HIS LEU ASP GLY GLN PHE HIS SEQRES 16 A 270 GLY GLN ARG LEU ASN ASP VAL VAL LEU ASN TYR ASP ALA SEQRES 17 A 270 ALA THR SER THR ILE THR ALA THR TYR ALA GLY LYS THR SEQRES 18 A 270 TRP LYS ALA THR THR ASP ASP LEU GLY ILE ASP LYS SER SEQRES 19 A 270 GLN LYS TYR ASN PHE LEU ILE THR SER SER HIS MET GLN SEQRES 20 A 270 ASN ARG TYR SER ASN GLY ILE MET ARG THR ASN LEU GLU SEQRES 21 A 270 GLY VAL THR ILE THR THR PRO GLN ALA ASP SEQRES 1 B 270 GLY PRO ALA MET GLN ASP THR VAL THR LYS LYS GLY THR SEQRES 2 B 270 GLY ASN PHE THR ALA HIS GLY ASP ILE ILE HIS LYS THR SEQRES 3 B 270 TYR LYS GLU GLU PHE PRO ASN GLU GLY THR LEU THR ALA SEQRES 4 B 270 PHE ASN THR ASN PHE ASN PRO ASN THR GLY THR LYS GLY SEQRES 5 B 270 ALA LEU GLU TYR ASN ASP LYS ILE ASP PHE ASN LYS ASP SEQRES 6 B 270 PHE THR ILE THR VAL PRO VAL ALA ASN ASN ASN GLN GLY SEQRES 7 B 270 ASN THR THR GLY ALA ASP GLY TRP GLY PHE MET PHE THR SEQRES 8 B 270 GLN GLY ASN GLY GLN ASP PHE LEU ASN GLN GLY GLY ILE SEQRES 9 B 270 LEU ARG ASP LYS GLY MET ALA ASN ALA SER GLY PHE LYS SEQRES 10 B 270 ILE ASP THR ALA TYR ASN ASN VAL ASN GLY LYS VAL ASP SEQRES 11 B 270 LYS LEU ASP ALA ASP LYS THR ASN ASN LEU SER GLN ILE SEQRES 12 B 270 GLY ALA ALA LYS VAL GLY TYR GLY THR PHE VAL LYS ASN SEQRES 13 B 270 GLY ALA ASP GLY VAL THR ASN GLN VAL GLY GLN ASN ALA SEQRES 14 B 270 LEU ASN THR LYS ASP LYS PRO VAL ASN LYS ILE ILE TYR SEQRES 15 B 270 ALA ASP ASN THR THR ASN HIS LEU ASP GLY GLN PHE HIS SEQRES 16 B 270 GLY GLN ARG LEU ASN ASP VAL VAL LEU ASN TYR ASP ALA SEQRES 17 B 270 ALA THR SER THR ILE THR ALA THR TYR ALA GLY LYS THR SEQRES 18 B 270 TRP LYS ALA THR THR ASP ASP LEU GLY ILE ASP LYS SER SEQRES 19 B 270 GLN LYS TYR ASN PHE LEU ILE THR SER SER HIS MET GLN SEQRES 20 B 270 ASN ARG TYR SER ASN GLY ILE MET ARG THR ASN LEU GLU SEQRES 21 B 270 GLY VAL THR ILE THR THR PRO GLN ALA ASP HET CA A 700 1 HET CA B 700 1 HETNAM CA CALCIUM ION FORMUL 3 CA 2(CA 2+) FORMUL 5 HOH *736(H2 O) HELIX 1 AA1 ASN A 480 GLY A 488 1 9 HELIX 2 AA2 LYS A 517 ASP A 521 5 5 HELIX 3 AA3 ALA A 594 THR A 596 5 3 HELIX 4 AA4 THR A 612 GLY A 616 1 5 HELIX 5 AA5 LEU A 645 GLY A 647 5 3 HELIX 6 AA6 ASN B 480 GLY B 488 1 9 HELIX 7 AA7 LYS B 517 ASP B 521 5 5 HELIX 8 AA8 ALA B 594 THR B 596 5 3 HELIX 9 AA9 THR B 612 GLY B 616 1 5 HELIX 10 AB1 LEU B 645 GLY B 647 5 3 SHEET 1 AA1 6 THR A 393 LYS A 397 0 SHEET 2 AA1 6 THR A 649 PRO A 653 -1 O THR A 652 N VAL A 394 SHEET 3 AA1 6 PHE A 452 ALA A 459 -1 N THR A 453 O THR A 651 SHEET 4 AA1 6 MET A 641 THR A 643 -1 O ARG A 642 N ALA A 459 SHEET 5 AA1 6 LEU A 423 PHE A 426 -1 N PHE A 426 O MET A 641 SHEET 6 AA1 6 ILE A 408 LYS A 411 -1 N LYS A 411 O LEU A 423 SHEET 1 AA2 6 THR A 393 LYS A 397 0 SHEET 2 AA2 6 THR A 649 PRO A 653 -1 O THR A 652 N VAL A 394 SHEET 3 AA2 6 PHE A 452 ALA A 459 -1 N THR A 453 O THR A 651 SHEET 4 AA2 6 ASN A 586 ASP A 593 -1 O LEU A 590 N ILE A 454 SHEET 5 AA2 6 THR A 598 TYR A 603 -1 O THR A 600 N ASN A 591 SHEET 6 AA2 6 LYS A 606 THR A 611 -1 O ALA A 610 N ILE A 599 SHEET 1 AA3 7 PHE A 402 GLY A 406 0 SHEET 2 AA3 7 THR A 436 TYR A 442 -1 O GLU A 441 N THR A 403 SHEET 3 AA3 7 ASN A 624 HIS A 631 -1 O PHE A 625 N TYR A 442 SHEET 4 AA3 7 GLY A 471 THR A 477 -1 N THR A 477 O ASN A 624 SHEET 5 AA3 7 SER A 500 ASP A 505 -1 O SER A 500 N PHE A 476 SHEET 6 AA3 7 VAL A 534 ASN A 542 -1 O TYR A 536 N ASP A 505 SHEET 7 AA3 7 THR A 548 GLN A 550 -1 O ASN A 549 N LYS A 541 SHEET 1 AA4 7 PHE A 402 GLY A 406 0 SHEET 2 AA4 7 THR A 436 TYR A 442 -1 O GLU A 441 N THR A 403 SHEET 3 AA4 7 ASN A 624 HIS A 631 -1 O PHE A 625 N TYR A 442 SHEET 4 AA4 7 GLY A 471 THR A 477 -1 N THR A 477 O ASN A 624 SHEET 5 AA4 7 SER A 500 ASP A 505 -1 O SER A 500 N PHE A 476 SHEET 6 AA4 7 VAL A 534 ASN A 542 -1 O TYR A 536 N ASP A 505 SHEET 7 AA4 7 LYS A 565 ILE A 567 -1 O ILE A 566 N GLY A 535 SHEET 1 AA5 2 ASN A 510 VAL A 511 0 SHEET 2 AA5 2 LYS A 514 VAL A 515 -1 O LYS A 514 N VAL A 511 SHEET 1 AA6 6 VAL B 394 LYS B 397 0 SHEET 2 AA6 6 THR B 649 THR B 652 -1 O THR B 652 N VAL B 394 SHEET 3 AA6 6 PHE B 452 ALA B 459 -1 N THR B 455 O THR B 649 SHEET 4 AA6 6 MET B 641 THR B 643 -1 O ARG B 642 N ALA B 459 SHEET 5 AA6 6 THR B 422 PHE B 426 -1 N PHE B 426 O MET B 641 SHEET 6 AA6 6 ILE B 408 THR B 412 -1 N LYS B 411 O LEU B 423 SHEET 1 AA7 6 VAL B 394 LYS B 397 0 SHEET 2 AA7 6 THR B 649 THR B 652 -1 O THR B 652 N VAL B 394 SHEET 3 AA7 6 PHE B 452 ALA B 459 -1 N THR B 455 O THR B 649 SHEET 4 AA7 6 ASN B 586 ASP B 593 -1 O TYR B 592 N PHE B 452 SHEET 5 AA7 6 THR B 598 TYR B 603 -1 O THR B 600 N ASN B 591 SHEET 6 AA7 6 LYS B 606 THR B 611 -1 O ALA B 610 N ILE B 599 SHEET 1 AA8 7 PHE B 402 GLY B 406 0 SHEET 2 AA8 7 THR B 436 TYR B 442 -1 O GLU B 441 N THR B 403 SHEET 3 AA8 7 ASN B 624 HIS B 631 -1 O HIS B 631 N THR B 436 SHEET 4 AA8 7 GLY B 471 THR B 477 -1 N THR B 477 O ASN B 624 SHEET 5 AA8 7 SER B 500 ASP B 505 -1 O SER B 500 N PHE B 476 SHEET 6 AA8 7 VAL B 534 ASN B 542 -1 O TYR B 536 N ASP B 505 SHEET 7 AA8 7 THR B 548 VAL B 551 -1 O ASN B 549 N LYS B 541 SHEET 1 AA9 7 PHE B 402 GLY B 406 0 SHEET 2 AA9 7 THR B 436 TYR B 442 -1 O GLU B 441 N THR B 403 SHEET 3 AA9 7 ASN B 624 HIS B 631 -1 O HIS B 631 N THR B 436 SHEET 4 AA9 7 GLY B 471 THR B 477 -1 N THR B 477 O ASN B 624 SHEET 5 AA9 7 SER B 500 ASP B 505 -1 O SER B 500 N PHE B 476 SHEET 6 AA9 7 VAL B 534 ASN B 542 -1 O TYR B 536 N ASP B 505 SHEET 7 AA9 7 LYS B 565 ILE B 567 -1 O ILE B 566 N GLY B 535 SHEET 1 AB1 2 ASN B 510 VAL B 511 0 SHEET 2 AB1 2 LYS B 514 VAL B 515 -1 O LYS B 514 N VAL B 511 LINK OD1 ASP A 505 CA CA A 700 1555 1555 2.44 LINK OD2 ASP A 505 CA CA A 700 1555 1555 2.49 LINK O ALA A 507 CA CA A 700 1555 1555 2.38 LINK OD1 ASN A 509 CA CA A 700 1555 1555 2.33 LINK OD1 ASP A 519 CA CA A 700 1555 1555 2.47 LINK OD2 ASP A 519 CA CA A 700 1555 1555 2.49 LINK CA CA A 700 O HOH A 874 1555 1555 2.41 LINK CA CA A 700 O HOH A 947 1555 1555 2.45 LINK OD1 ASP B 505 CA CA B 700 1555 1555 2.45 LINK OD2 ASP B 505 CA CA B 700 1555 1555 2.48 LINK O ALA B 507 CA CA B 700 1555 1555 2.38 LINK OD1 ASN B 509 CA CA B 700 1555 1555 2.35 LINK OD1 ASP B 519 CA CA B 700 1555 1555 2.48 LINK OD2 ASP B 519 CA CA B 700 1555 1555 2.48 LINK CA CA B 700 O HOH B 877 1555 1555 2.41 LINK CA CA B 700 O HOH B 979 1555 1555 2.46 CISPEP 1 LYS A 561 PRO A 562 0 -5.62 CISPEP 2 LYS B 561 PRO B 562 0 -7.25 CRYST1 52.150 66.689 71.506 90.00 110.31 90.00 P 1 21 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 0.019175 0.000000 0.007097 0.00000 SCALE2 0.000000 0.014995 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014912 0.00000