PDB Short entry for 5CFA HEADER PROTEIN BINDING/PEPTIDE 08-JUL-15 5CFA TITLE CRYSTAL STRUCTURES OF BBP FROM STAPHYLOCOCCUS AUREUS WITH PEPTIDE TITLE 2 LIGAND COMPND MOL_ID: 1; COMPND 2 MOLECULE: BONE SIALOPROTEIN-BINDING PROTEIN; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: UNP RESIDUES 272-598; COMPND 5 SYNONYM: BSP-BINDING PROTEIN; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: PEPTIDE FROM FIBRINOGEN ALPHA CHAIN; COMPND 9 CHAIN: D, C; COMPND 10 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STAPHYLOCOCCUS AUREUS; SOURCE 3 ORGANISM_TAXID: 1280; SOURCE 4 GENE: BBP; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 MOL_ID: 2; SOURCE 9 SYNTHETIC: YES; SOURCE 10 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 11 ORGANISM_COMMON: HUMAN; SOURCE 12 ORGANISM_TAXID: 9606 KEYWDS BBP, FIBRINOGEN, SDR, MSCRAMM, STAPHYLOCOCCUS AUREUS, PROTEIN KEYWDS 2 BINDING-PEPTIDE COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR Y.YU,X.Y.ZHANG,J.K.GU REVDAT 3 08-NOV-23 5CFA 1 REMARK REVDAT 2 21-OCT-15 5CFA 1 JRNL REVDAT 1 23-SEP-15 5CFA 0 JRNL AUTH X.Y.ZHANG,M.WU,W.ZHUO,J.K.GU,S.S.ZHANG,J.P.GE,M.J.YANG JRNL TITL CRYSTAL STRUCTURES OF BBP FROM STAPHYLOCOCCUS AUREUS REVEAL JRNL TITL 2 THE LIGAND BINDING MECHANISM WITH FIBRINOGEN ALPHA JRNL REF PROTEIN CELL V. 6 757 2015 JRNL REFN ESSN 1674-8018 JRNL PMID 26349459 JRNL DOI 10.1007/S13238-015-0205-X REMARK 2 REMARK 2 RESOLUTION. 1.45 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.45 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 36.56 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.1 REMARK 3 NUMBER OF REFLECTIONS : 116130 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.180 REMARK 3 R VALUE (WORKING SET) : 0.178 REMARK 3 FREE R VALUE : 0.212 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 5811 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 36.5713 - 4.5024 0.99 3813 177 0.1488 0.1713 REMARK 3 2 4.5024 - 3.5747 1.00 3691 221 0.1300 0.1521 REMARK 3 3 3.5747 - 3.1231 1.00 3765 191 0.1547 0.1825 REMARK 3 4 3.1231 - 2.8377 1.00 3742 183 0.1727 0.2439 REMARK 3 5 2.8377 - 2.6344 1.00 3741 205 0.1821 0.2336 REMARK 3 6 2.6344 - 2.4791 1.00 3716 175 0.1772 0.1945 REMARK 3 7 2.4791 - 2.3549 1.00 3691 212 0.1814 0.2095 REMARK 3 8 2.3549 - 2.2524 1.00 3697 221 0.1821 0.2402 REMARK 3 9 2.2524 - 2.1657 1.00 3720 196 0.1828 0.2244 REMARK 3 10 2.1657 - 2.0910 1.00 3709 171 0.1816 0.2005 REMARK 3 11 2.0910 - 2.0256 1.00 3726 197 0.1819 0.2456 REMARK 3 12 2.0256 - 1.9677 1.00 3671 212 0.1790 0.2085 REMARK 3 13 1.9677 - 1.9159 1.00 3723 186 0.1785 0.1688 REMARK 3 14 1.9159 - 1.8692 1.00 3697 176 0.1817 0.2368 REMARK 3 15 1.8692 - 1.8267 1.00 3684 210 0.1902 0.2287 REMARK 3 16 1.8267 - 1.7878 1.00 3682 183 0.1990 0.2162 REMARK 3 17 1.7878 - 1.7521 0.99 3657 222 0.2008 0.2490 REMARK 3 18 1.7521 - 1.7190 1.00 3681 206 0.2120 0.2615 REMARK 3 19 1.7190 - 1.6883 0.99 3687 173 0.2073 0.2431 REMARK 3 20 1.6883 - 1.6597 0.99 3706 199 0.2110 0.2538 REMARK 3 21 1.6597 - 1.6329 0.99 3671 173 0.2162 0.2534 REMARK 3 22 1.6329 - 1.6078 0.99 3670 191 0.2158 0.2419 REMARK 3 23 1.6078 - 1.5842 0.99 3635 225 0.2343 0.2858 REMARK 3 24 1.5842 - 1.5618 0.99 3652 167 0.2483 0.2727 REMARK 3 25 1.5618 - 1.5407 0.99 3710 195 0.2562 0.2986 REMARK 3 26 1.5407 - 1.5207 0.99 3655 180 0.2614 0.3176 REMARK 3 27 1.5207 - 1.5017 0.99 3642 208 0.2731 0.2809 REMARK 3 28 1.5017 - 1.4836 0.98 3562 206 0.2872 0.2915 REMARK 3 29 1.4836 - 1.4664 0.96 3585 190 0.3052 0.3254 REMARK 3 30 1.4664 - 1.4499 0.90 3338 160 0.3169 0.3742 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.150 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 24.780 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 16.76 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 22.46 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.007 5373 REMARK 3 ANGLE : 1.140 7315 REMARK 3 CHIRALITY : 0.044 860 REMARK 3 PLANARITY : 0.005 950 REMARK 3 DIHEDRAL : 12.721 1955 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 5CFA COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 21-JUL-15. REMARK 100 THE DEPOSITION ID IS D_1000211523. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 28-JUN-14 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 : SSRF REMARK 200 BEAMLINE : BL17U REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.979 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 116230 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.450 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 200 DATA REDUNDANCY : 5.100 REMARK 200 R MERGE (I) : 0.08400 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 6.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.45 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.50 REMARK 200 COMPLETENESS FOR SHELL (%) : 95.8 REMARK 200 DATA REDUNDANCY IN SHELL : 4.50 REMARK 200 R MERGE FOR SHELL (I) : 0.86500 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : NULL 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: 5CF3 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.60 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.22 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEPTIDE WAS ADDED INTO THE REMARK 280 CONCENTRATED PROTEIN SAMPLES AT 10:1 RATIO AND THE PROTEIN- REMARK 280 PEPTIDE COMPLEX CRYSTALS ARE GROWN IN 0.2 M LITHIUM SULFATE, REMARK 280 0.1M TRIS-HCL PH8.2, 30% PEG4000 PROTEIN CONCENTRATION WAS 30MG/ REMARK 280 ML, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 291.15K 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 37.48050 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1810 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 14760 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -12.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, C 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1550 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 14740 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -4.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, D 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 -2 REMARK 465 PRO A -1 REMARK 465 LEU A 0 REMARK 465 GLY A 1 REMARK 465 SER A 2 REMARK 465 GLY B -2 REMARK 465 PRO B -1 REMARK 465 LEU B 0 REMARK 465 SER D 26 REMARK 465 TYR D 35 REMARK 465 ASN D 36 REMARK 465 ARG D 37 REMARK 465 GLY D 38 REMARK 465 ASP D 39 REMARK 465 SER D 40 REMARK 465 ASN C 36 REMARK 465 ARG C 37 REMARK 465 GLY C 38 REMARK 465 ASP C 39 REMARK 465 SER C 40 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 SER B 2 OG REMARK 470 PRO B 328 CG CD REMARK 470 SER C 26 OG REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O HOH A 536 O HOH A 855 2.07 REMARK 500 O HOH B 404 O HOH B 842 2.11 REMARK 500 O HOH A 973 O HOH B 866 2.15 REMARK 500 O PRO B 328 O HOH B 401 2.16 REMARK 500 O HOH A 855 O HOH A 914 2.17 REMARK 500 O HOH B 790 O HOH B 822 2.19 REMARK 500 O HOH B 403 O HOH B 430 2.19 REMARK 500 OE1 GLN A 149 OH TYR A 309 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 524 O HOH B 471 2656 2.17 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 TYR A 309 CZ TYR A 309 CE2 -0.090 REMARK 500 TYR A 309 CE2 TYR A 309 CD2 -0.124 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 TYR A 309 CB - CG - CD2 ANGL. DEV. = -4.1 DEGREES REMARK 500 TYR A 309 OH - CZ - CE2 ANGL. DEV. = -19.5 DEGREES REMARK 500 TYR A 309 CE1 - CZ - OH ANGL. DEV. = 16.9 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 ILE A 20 -52.32 -121.00 REMARK 500 ASP A 155 -122.26 52.63 REMARK 500 ALA A 288 40.92 -106.78 REMARK 500 ASP B 155 -122.34 52.40 REMARK 500 ALA B 288 40.62 -108.21 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A1004 DISTANCE = 5.85 ANGSTROMS REMARK 525 HOH A1005 DISTANCE = 6.46 ANGSTROMS REMARK 525 HOH A1006 DISTANCE = 6.81 ANGSTROMS REMARK 525 HOH B 906 DISTANCE = 5.84 ANGSTROMS REMARK 525 HOH B 907 DISTANCE = 6.60 ANGSTROMS REMARK 525 HOH B 908 DISTANCE = 6.81 ANGSTROMS REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 401 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 18 OE1 REMARK 620 2 LYS A 21 O 77.8 REMARK 620 3 ASP A 23 OD2 84.0 77.9 REMARK 620 4 VAL A 25 O 83.4 151.3 78.8 REMARK 620 5 GLU A 32 OE1 99.9 80.1 156.3 124.8 REMARK 620 6 GLU A 32 OE2 110.0 132.1 148.1 74.8 52.1 REMARK 620 7 HOH A 645 O 162.4 95.9 78.6 95.6 95.1 86.5 REMARK 620 N 1 2 3 4 5 6 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 401 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5CF3 RELATED DB: PDB REMARK 900 5CF3 CONTAINS THE SAME PROTEIN WITHOUT PEPTIDE LIGAND DBREF 5CFA A 2 328 UNP Q14U76 BBP_STAAU 272 598 DBREF 5CFA B 2 328 UNP Q14U76 BBP_STAAU 272 598 DBREF 5CFA D 26 40 UNP P02671 FIBA_HUMAN 580 594 DBREF 5CFA C 26 40 UNP P02671 FIBA_HUMAN 580 594 SEQADV 5CFA GLY A -2 UNP Q14U76 EXPRESSION TAG SEQADV 5CFA PRO A -1 UNP Q14U76 EXPRESSION TAG SEQADV 5CFA LEU A 0 UNP Q14U76 EXPRESSION TAG SEQADV 5CFA GLY A 1 UNP Q14U76 EXPRESSION TAG SEQADV 5CFA GLY B -2 UNP Q14U76 EXPRESSION TAG SEQADV 5CFA PRO B -1 UNP Q14U76 EXPRESSION TAG SEQADV 5CFA LEU B 0 UNP Q14U76 EXPRESSION TAG SEQADV 5CFA GLY B 1 UNP Q14U76 EXPRESSION TAG SEQRES 1 A 331 GLY PRO LEU GLY SER ASN ASN VAL ASN ASP LEU ILE THR SEQRES 2 A 331 VAL THR LYS GLN MET ILE THR GLU GLY ILE LYS ASP ASP SEQRES 3 A 331 GLY VAL ILE GLN ALA HIS ASP GLY GLU HIS ILE ILE TYR SEQRES 4 A 331 THR SER ASP PHE LYS ILE ASP ASN ALA VAL LYS ALA GLY SEQRES 5 A 331 ASP THR MET THR VAL LYS TYR ASP LYS HIS THR ILE PRO SEQRES 6 A 331 SER ASP ILE THR ASP ASP PHE THR PRO VAL ASP ILE THR SEQRES 7 A 331 ASP PRO SER GLY GLU VAL ILE ALA LYS GLY THR PHE ASP SEQRES 8 A 331 LEU ASN THR LYS THR ILE THR TYR LYS PHE THR ASP TYR SEQRES 9 A 331 VAL ASP ARG TYR GLU ASN VAL ASN ALA LYS LEU GLU LEU SEQRES 10 A 331 ASN SER TYR ILE ASP LYS LYS GLU VAL PRO ASN GLU THR SEQRES 11 A 331 ASN LEU ASN LEU THR PHE ALA THR ALA ASP LYS GLU THR SEQRES 12 A 331 SER LYS ASN VAL LYS VAL GLU TYR GLN LYS PRO ILE VAL SEQRES 13 A 331 LYS ASP GLU SER ASN ILE GLN SER ILE PHE SER HIS LEU SEQRES 14 A 331 ASP THR THR LYS HIS GLU VAL GLU GLN THR ILE TYR VAL SEQRES 15 A 331 ASN PRO LEU LYS LEU ASN ALA LYS ASN THR ASN VAL THR SEQRES 16 A 331 ILE LYS SER GLY GLY VAL ALA ASP ASN GLY ASP TYR TYR SEQRES 17 A 331 THR GLY ASP GLY SER THR ILE ILE ASP SER ASN THR GLU SEQRES 18 A 331 ILE LYS VAL TYR LYS VAL ALA SER GLY GLN GLN LEU PRO SEQRES 19 A 331 GLN SER ASN LYS ILE TYR ASP TYR SER GLN TYR GLU ASP SEQRES 20 A 331 VAL THR ASN SER VAL THR ILE ASN LYS ASN TYR GLY THR SEQRES 21 A 331 ASN MET ALA ASN ILE ASN PHE GLY ASP ILE ASP SER ALA SEQRES 22 A 331 TYR ILE VAL LYS VAL VAL SER LYS TYR THR PRO GLY ALA SEQRES 23 A 331 GLU ASP ASP LEU ALA VAL GLN GLN GLY VAL ARG MET THR SEQRES 24 A 331 THR THR ASN LYS TYR ASN TYR SER SER TYR ALA GLY TYR SEQRES 25 A 331 THR ASN THR ILE LEU SER THR THR ASP SER GLY GLY GLY SEQRES 26 A 331 ASP GLY THR VAL LYS PRO SEQRES 1 B 331 GLY PRO LEU GLY SER ASN ASN VAL ASN ASP LEU ILE THR SEQRES 2 B 331 VAL THR LYS GLN MET ILE THR GLU GLY ILE LYS ASP ASP SEQRES 3 B 331 GLY VAL ILE GLN ALA HIS ASP GLY GLU HIS ILE ILE TYR SEQRES 4 B 331 THR SER ASP PHE LYS ILE ASP ASN ALA VAL LYS ALA GLY SEQRES 5 B 331 ASP THR MET THR VAL LYS TYR ASP LYS HIS THR ILE PRO SEQRES 6 B 331 SER ASP ILE THR ASP ASP PHE THR PRO VAL ASP ILE THR SEQRES 7 B 331 ASP PRO SER GLY GLU VAL ILE ALA LYS GLY THR PHE ASP SEQRES 8 B 331 LEU ASN THR LYS THR ILE THR TYR LYS PHE THR ASP TYR SEQRES 9 B 331 VAL ASP ARG TYR GLU ASN VAL ASN ALA LYS LEU GLU LEU SEQRES 10 B 331 ASN SER TYR ILE ASP LYS LYS GLU VAL PRO ASN GLU THR SEQRES 11 B 331 ASN LEU ASN LEU THR PHE ALA THR ALA ASP LYS GLU THR SEQRES 12 B 331 SER LYS ASN VAL LYS VAL GLU TYR GLN LYS PRO ILE VAL SEQRES 13 B 331 LYS ASP GLU SER ASN ILE GLN SER ILE PHE SER HIS LEU SEQRES 14 B 331 ASP THR THR LYS HIS GLU VAL GLU GLN THR ILE TYR VAL SEQRES 15 B 331 ASN PRO LEU LYS LEU ASN ALA LYS ASN THR ASN VAL THR SEQRES 16 B 331 ILE LYS SER GLY GLY VAL ALA ASP ASN GLY ASP TYR TYR SEQRES 17 B 331 THR GLY ASP GLY SER THR ILE ILE ASP SER ASN THR GLU SEQRES 18 B 331 ILE LYS VAL TYR LYS VAL ALA SER GLY GLN GLN LEU PRO SEQRES 19 B 331 GLN SER ASN LYS ILE TYR ASP TYR SER GLN TYR GLU ASP SEQRES 20 B 331 VAL THR ASN SER VAL THR ILE ASN LYS ASN TYR GLY THR SEQRES 21 B 331 ASN MET ALA ASN ILE ASN PHE GLY ASP ILE ASP SER ALA SEQRES 22 B 331 TYR ILE VAL LYS VAL VAL SER LYS TYR THR PRO GLY ALA SEQRES 23 B 331 GLU ASP ASP LEU ALA VAL GLN GLN GLY VAL ARG MET THR SEQRES 24 B 331 THR THR ASN LYS TYR ASN TYR SER SER TYR ALA GLY TYR SEQRES 25 B 331 THR ASN THR ILE LEU SER THR THR ASP SER GLY GLY GLY SEQRES 26 B 331 ASP GLY THR VAL LYS PRO SEQRES 1 D 15 SER LYS GLN PHE THR SER SER THR SER TYR ASN ARG GLY SEQRES 2 D 15 ASP SER SEQRES 1 C 15 SER LYS GLN PHE THR SER SER THR SER TYR ASN ARG GLY SEQRES 2 C 15 ASP SER HET MG A 401 1 HETNAM MG MAGNESIUM ION FORMUL 5 MG MG 2+ FORMUL 6 HOH *1026(H2 O) HELIX 1 AA1 VAL A 5 ASP A 7 5 3 HELIX 2 AA2 HIS A 29 GLY A 31 5 3 HELIX 3 AA3 ASP A 100 ARG A 104 1 5 HELIX 4 AA4 THR A 246 VAL A 249 5 4 HELIX 5 AA5 GLY A 282 LEU A 287 5 6 HELIX 6 AA6 VAL B 5 ASP B 7 5 3 HELIX 7 AA7 HIS B 29 GLY B 31 5 3 HELIX 8 AA8 ASP B 100 ARG B 104 1 5 HELIX 9 AA9 THR B 246 VAL B 249 5 4 HELIX 10 AB1 GLY B 282 LEU B 287 5 6 SHEET 1 AA1 4 ILE A 9 GLU A 18 0 SHEET 2 AA1 4 ILE A 34 ILE A 42 -1 O ILE A 35 N THR A 17 SHEET 3 AA1 4 TYR A 105 ILE A 118 -1 O SER A 116 N ILE A 34 SHEET 4 AA1 4 THR A 60 ILE A 61 -1 N ILE A 61 O TYR A 117 SHEET 1 AA2 4 ILE A 9 GLU A 18 0 SHEET 2 AA2 4 ILE A 34 ILE A 42 -1 O ILE A 35 N THR A 17 SHEET 3 AA2 4 TYR A 105 ILE A 118 -1 O SER A 116 N ILE A 34 SHEET 4 AA2 4 SER A 319 VAL A 326 -1 O GLY A 321 N LYS A 111 SHEET 1 AA3 7 VAL A 25 GLN A 27 0 SHEET 2 AA3 7 LYS A 138 GLU A 147 1 O LYS A 145 N ILE A 26 SHEET 3 AA3 7 THR A 127 THR A 135 -1 N LEU A 129 O VAL A 144 SHEET 4 AA3 7 THR A 51 LYS A 55 -1 N LYS A 55 O ALA A 134 SHEET 5 AA3 7 THR A 93 PHE A 98 -1 O ILE A 94 N VAL A 54 SHEET 6 AA3 7 VAL A 81 ASP A 88 -1 N LYS A 84 O LYS A 97 SHEET 7 AA3 7 ILE A 74 THR A 75 -1 N ILE A 74 O ILE A 82 SHEET 1 AA4 6 ILE A 152 LYS A 154 0 SHEET 2 AA4 6 SER A 157 ASP A 167 -1 O SER A 157 N LYS A 154 SHEET 3 AA4 6 GLU A 172 VAL A 179 -1 O GLU A 172 N ASP A 167 SHEET 4 AA4 6 TYR A 271 LYS A 278 -1 O TYR A 271 N VAL A 179 SHEET 5 AA4 6 GLU A 218 LYS A 223 -1 N TYR A 222 O ILE A 272 SHEET 6 AA4 6 GLU A 243 ASP A 244 -1 O GLU A 243 N LYS A 223 SHEET 1 AA5 6 THR A 250 GLY A 256 0 SHEET 2 AA5 6 MET A 259 ILE A 267 -1 O ASN A 263 N THR A 250 SHEET 3 AA5 6 ALA A 186 SER A 195 -1 N THR A 189 O PHE A 264 SHEET 4 AA5 6 GLN A 291 THR A 298 -1 O GLY A 292 N LYS A 194 SHEET 5 AA5 6 SER A 304 THR A 316 -1 O TYR A 309 N VAL A 293 SHEET 6 AA5 6 GLN C 28 THR C 33 -1 O SER C 32 N THR A 312 SHEET 1 AA6 2 GLY A 197 VAL A 198 0 SHEET 2 AA6 2 TYR A 204 TYR A 205 -1 O TYR A 205 N GLY A 197 SHEET 1 AA7 4 ILE B 9 GLU B 18 0 SHEET 2 AA7 4 ILE B 34 ILE B 42 -1 O ILE B 35 N THR B 17 SHEET 3 AA7 4 TYR B 105 ILE B 118 -1 O SER B 116 N ILE B 34 SHEET 4 AA7 4 THR B 60 ILE B 61 -1 N ILE B 61 O TYR B 117 SHEET 1 AA8 4 ILE B 9 GLU B 18 0 SHEET 2 AA8 4 ILE B 34 ILE B 42 -1 O ILE B 35 N THR B 17 SHEET 3 AA8 4 TYR B 105 ILE B 118 -1 O SER B 116 N ILE B 34 SHEET 4 AA8 4 SER B 319 VAL B 326 -1 O GLY B 321 N LYS B 111 SHEET 1 AA9 7 VAL B 25 GLN B 27 0 SHEET 2 AA9 7 LYS B 138 GLU B 147 1 O LYS B 145 N ILE B 26 SHEET 3 AA9 7 THR B 127 THR B 135 -1 N LEU B 129 O VAL B 144 SHEET 4 AA9 7 THR B 51 LYS B 55 -1 N LYS B 55 O ALA B 134 SHEET 5 AA9 7 THR B 93 PHE B 98 -1 O ILE B 94 N VAL B 54 SHEET 6 AA9 7 VAL B 81 ASP B 88 -1 N LYS B 84 O LYS B 97 SHEET 7 AA9 7 ILE B 74 THR B 75 -1 N ILE B 74 O ILE B 82 SHEET 1 AB1 6 ILE B 152 LYS B 154 0 SHEET 2 AB1 6 SER B 157 ASP B 167 -1 O SER B 157 N LYS B 154 SHEET 3 AB1 6 GLU B 172 VAL B 179 -1 O GLU B 172 N ASP B 167 SHEET 4 AB1 6 TYR B 271 LYS B 278 -1 O VAL B 273 N ILE B 177 SHEET 5 AB1 6 GLU B 218 LYS B 223 -1 N TYR B 222 O ILE B 272 SHEET 6 AB1 6 GLU B 243 ASP B 244 -1 O GLU B 243 N LYS B 223 SHEET 1 AB2 6 THR B 250 GLY B 256 0 SHEET 2 AB2 6 MET B 259 ILE B 267 -1 O ASN B 261 N ASN B 252 SHEET 3 AB2 6 ALA B 186 SER B 195 -1 N VAL B 191 O ILE B 262 SHEET 4 AB2 6 GLN B 290 THR B 298 -1 O THR B 296 N ASN B 190 SHEET 5 AB2 6 SER B 304 THR B 316 -1 O ALA B 307 N MET B 295 SHEET 6 AB2 6 GLN D 28 THR D 33 -1 O SER D 32 N THR B 312 SHEET 1 AB3 2 GLY B 197 VAL B 198 0 SHEET 2 AB3 2 TYR B 204 TYR B 205 -1 O TYR B 205 N GLY B 197 LINK OE1 GLU A 18 MG MG A 401 1555 1555 2.18 LINK O LYS A 21 MG MG A 401 1555 1555 2.47 LINK OD2 ASP A 23 MG MG A 401 1555 1555 2.47 LINK O VAL A 25 MG MG A 401 1555 1555 2.37 LINK OE1 GLU A 32 MG MG A 401 1555 1555 2.50 LINK OE2 GLU A 32 MG MG A 401 1555 1555 2.50 LINK MG MG A 401 O HOH A 645 1555 1555 2.43 SITE 1 AC1 6 GLU A 18 LYS A 21 ASP A 23 VAL A 25 SITE 2 AC1 6 GLU A 32 HOH A 645 CRYST1 60.916 74.961 75.563 90.00 102.91 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 0.016416 0.000000 0.003764 0.00000 SCALE2 0.000000 0.013340 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013577 0.00000