HEADER SUGAR BINDING PROTEIN 09-JUL-25 9RWC TITLE CRYSTAL STRUCTURE OF A SIALIC ACID BINDING PROTEIN, R404A MUTANT, FROM TITLE 2 STREPTOCOCCUS PNEUMONIAE BOUND TO NEU5AC COMPND MOL_ID: 1; COMPND 2 MOLECULE: SUGAR ABC TRANSPORTER, SUGAR-BINDING PROTEIN; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES; COMPND 5 OTHER_DETAILS: R404A MUTANT SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STREPTOCOCCUS PNEUMONIAE TIGR4; SOURCE 3 ORGANISM_TAXID: 170187; SOURCE 4 GENE: SP_1683; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VARIANT: ROSETTA; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: POPINF KEYWDS SIALIC ACID, NEU5AC, PERIPLASMIC BINDING PROTEIN, STREPTOCOCCUS KEYWDS 2 PNEUMONIAE, SUGAR BINDING PROTEIN, MUTANT EXPDTA X-RAY DIFFRACTION AUTHOR M.ATKINSON,P.LUKACIK,C.M.STRAIN-DAMERELL,T.M.GLOSTER,M.A.WALSH REVDAT 1 29-JUL-26 9RWC 0 JRNL AUTH C.M.STRAIN-DAMERELL,M.ATKINSON,C.MELLER,G.HARRIS, JRNL AUTH 2 T.M.GLOSTER,P.LUKACIK,M.A.WALSH JRNL TITL STRUCTURE OF S. PNEUMONIAE SIALIC ACID BINDING PROTEIN; SATA JRNL REF TO BE PUBLISHED 2026 JRNL REFN JRNL DOI 10.1038/S42003-026-10712-Z REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0430 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 85.38 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 73.8 REMARK 3 NUMBER OF REFLECTIONS : 55625 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 : NULL REMARK 3 R VALUE (WORKING + TEST SET) : NULL REMARK 3 R VALUE (WORKING SET) : 0.195 REMARK 3 FREE R VALUE : 0.253 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.881 REMARK 3 FREE R VALUE TEST SET COUNT : 2715 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) : 1.80 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.84 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2097 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 39.71 REMARK 3 BIN R VALUE (WORKING SET) : 0.2190 REMARK 3 BIN FREE R VALUE SET COUNT : 108 REMARK 3 BIN FREE R VALUE : 0.2320 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6248 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 52 REMARK 3 SOLVENT ATOMS : 1013 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 9.14 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.53400 REMARK 3 B22 (A**2) : -0.22300 REMARK 3 B33 (A**2) : -0.26200 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.01100 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.223 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.191 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.110 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.449 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.919 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.862 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 6590 ; 0.008 ; 0.012 REMARK 3 BOND LENGTHS OTHERS (A): 6117 ; 0.001 ; 0.016 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 8957 ; 1.548 ; 1.812 REMARK 3 BOND ANGLES OTHERS (DEGREES): 14224 ; 0.556 ; 1.775 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 840 ; 6.436 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 10 ; 7.707 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1132 ;12.274 ;10.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 966 ; 0.080 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 7727 ; 0.008 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1445 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1569 ; 0.217 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 101 ; 0.190 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 3380 ; 0.189 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 869 ; 0.205 ; 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): 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): 3270 ; 0.833 ; 0.892 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 3270 ; 0.831 ; 0.892 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4107 ; 1.363 ; 1.594 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 4108 ; 1.363 ; 1.596 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 3320 ; 1.416 ; 1.029 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 3311 ; 1.412 ; 1.023 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 4839 ; 2.318 ; 1.808 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 4828 ; 2.316 ; 1.796 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 : 1 REMARK 3 REMARK 3 NCS GROUP NUMBER : 1 REMARK 3 CHAIN NAMES : A B REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 40 A 437 NULL REMARK 3 1 B 40 B 437 NULL REMARK 3 GROUP CHAIN COUNT RMS WEIGHT 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 BULK SOLVENT 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 THEIR REMARK 3 RIDING POSITIONS REMARK 4 REMARK 4 9RWC COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 09-JUL-25. REMARK 100 THE DEPOSITION ID IS D_1292149247. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 09-APR-25 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.4 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I03 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9762 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER2 XE 16M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : AUTOPROC REMARK 200 DATA SCALING SOFTWARE : AUTOPROC REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 55625 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.797 REMARK 200 RESOLUTION RANGE LOW (A) : 85.376 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 92.0 REMARK 200 DATA REDUNDANCY : 7.110 REMARK 200 R MERGE (I) : 0.17220 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 7.7800 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 5.47 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 85.38 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.8 REMARK 200 DATA REDUNDANCY IN SHELL : 6.81 REMARK 200 R MERGE FOR SHELL (I) : 0.07730 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 14.93 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: REFMAC REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 41.92 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.12 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M NACIT, 3.8M AMMONIUM SULFATE, PH REMARK 280 5.4, 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 30.57300 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 MET A 4 REMARK 465 ALA A 5 REMARK 465 HIS A 6 REMARK 465 HIS A 7 REMARK 465 HIS A 8 REMARK 465 HIS A 9 REMARK 465 HIS A 10 REMARK 465 HIS A 11 REMARK 465 SER A 12 REMARK 465 SER A 13 REMARK 465 GLY A 14 REMARK 465 LEU A 15 REMARK 465 GLU A 16 REMARK 465 VAL A 17 REMARK 465 LEU A 18 REMARK 465 PHE A 19 REMARK 465 GLN A 20 REMARK 465 GLY A 21 REMARK 465 PRO A 22 REMARK 465 GLY A 23 REMARK 465 ASN A 24 REMARK 465 SER A 25 REMARK 465 GLY A 26 REMARK 465 GLY A 27 REMARK 465 SER A 28 REMARK 465 LYS A 29 REMARK 465 ASP A 30 REMARK 465 ALA A 31 REMARK 465 ALA A 32 REMARK 465 LYS A 33 REMARK 465 SER A 34 REMARK 465 GLY A 35 REMARK 465 GLY A 36 REMARK 465 ASP A 37 REMARK 465 GLY A 38 REMARK 465 ALA A 39 REMARK 465 ALA A 439 REMARK 465 MET A 440 REMARK 465 LYS A 441 REMARK 465 GLN A 442 REMARK 465 MET B 4 REMARK 465 ALA B 5 REMARK 465 HIS B 6 REMARK 465 HIS B 7 REMARK 465 HIS B 8 REMARK 465 HIS B 9 REMARK 465 HIS B 10 REMARK 465 HIS B 11 REMARK 465 SER B 12 REMARK 465 SER B 13 REMARK 465 GLY B 14 REMARK 465 LEU B 15 REMARK 465 GLU B 16 REMARK 465 VAL B 17 REMARK 465 LEU B 18 REMARK 465 PHE B 19 REMARK 465 GLN B 20 REMARK 465 GLY B 21 REMARK 465 PRO B 22 REMARK 465 GLY B 23 REMARK 465 ASN B 24 REMARK 465 SER B 25 REMARK 465 GLY B 26 REMARK 465 GLY B 27 REMARK 465 SER B 28 REMARK 465 LYS B 29 REMARK 465 ASP B 30 REMARK 465 ALA B 31 REMARK 465 ALA B 32 REMARK 465 LYS B 33 REMARK 465 SER B 34 REMARK 465 GLY B 35 REMARK 465 GLY B 36 REMARK 465 ASP B 37 REMARK 465 GLY B 38 REMARK 465 MET B 440 REMARK 465 LYS B 441 REMARK 465 GLN B 442 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 B 983 O HOH B 1034 1.90 REMARK 500 O HOH A 615 O HOH A 897 2.02 REMARK 500 NE2 GLN A 274 O HOH A 601 2.06 REMARK 500 O HOH A 622 O HOH A 986 2.07 REMARK 500 O HOH A 625 O HOH A 1057 2.09 REMARK 500 OE1 GLU A 315 O HOH A 602 2.11 REMARK 500 O HOH B 1042 O HOH B 1094 2.11 REMARK 500 O HOH B 809 O HOH B 853 2.13 REMARK 500 O HOH A 836 O HOH A 1077 2.14 REMARK 500 O HOH A 715 O HOH A 1039 2.14 REMARK 500 O HOH B 840 O HOH B 1007 2.17 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 1042 O HOH B 806 2545 2.18 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 379 NE - CZ - NH2 ANGL. DEV. = -3.6 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 ASP A 109 -125.23 -152.42 REMARK 500 TYR A 164 -156.97 -161.46 REMARK 500 SER A 209 16.99 -148.96 REMARK 500 ASP B 109 -124.79 -152.88 REMARK 500 ASN B 140 94.72 -161.94 REMARK 500 TYR B 164 -158.94 -159.92 REMARK 500 SER B 209 18.62 -150.92 REMARK 500 ASN B 332 40.18 -100.49 REMARK 500 ASP B 334 107.56 -163.70 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 ARG B 361 0.07 SIDE CHAIN 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 A1089 DISTANCE = 6.21 ANGSTROMS DBREF1 9RWC A 23 442 UNP A0A0H2URD1_STRPN DBREF2 9RWC A A0A0H2URD1 23 442 DBREF1 9RWC B 23 442 UNP A0A0H2URD1_STRPN DBREF2 9RWC B A0A0H2URD1 23 442 SEQADV 9RWC MET A 4 UNP A0A0H2URD INITIATING METHIONINE SEQADV 9RWC ALA A 5 UNP A0A0H2URD EXPRESSION TAG SEQADV 9RWC HIS A 6 UNP A0A0H2URD EXPRESSION TAG SEQADV 9RWC HIS A 7 UNP A0A0H2URD EXPRESSION TAG SEQADV 9RWC HIS A 8 UNP A0A0H2URD EXPRESSION TAG SEQADV 9RWC HIS A 9 UNP A0A0H2URD EXPRESSION TAG SEQADV 9RWC HIS A 10 UNP A0A0H2URD EXPRESSION TAG SEQADV 9RWC HIS A 11 UNP A0A0H2URD EXPRESSION TAG SEQADV 9RWC SER A 12 UNP A0A0H2URD EXPRESSION TAG SEQADV 9RWC SER A 13 UNP A0A0H2URD EXPRESSION TAG SEQADV 9RWC GLY A 14 UNP A0A0H2URD EXPRESSION TAG SEQADV 9RWC LEU A 15 UNP A0A0H2URD EXPRESSION TAG SEQADV 9RWC GLU A 16 UNP A0A0H2URD EXPRESSION TAG SEQADV 9RWC VAL A 17 UNP A0A0H2URD EXPRESSION TAG SEQADV 9RWC LEU A 18 UNP A0A0H2URD EXPRESSION TAG SEQADV 9RWC PHE A 19 UNP A0A0H2URD EXPRESSION TAG SEQADV 9RWC GLN A 20 UNP A0A0H2URD EXPRESSION TAG SEQADV 9RWC GLY A 21 UNP A0A0H2URD EXPRESSION TAG SEQADV 9RWC PRO A 22 UNP A0A0H2URD EXPRESSION TAG SEQADV 9RWC ALA A 404 UNP A0A0H2URD ARG 404 ENGINEERED MUTATION SEQADV 9RWC MET B 4 UNP A0A0H2URD INITIATING METHIONINE SEQADV 9RWC ALA B 5 UNP A0A0H2URD EXPRESSION TAG SEQADV 9RWC HIS B 6 UNP A0A0H2URD EXPRESSION TAG SEQADV 9RWC HIS B 7 UNP A0A0H2URD EXPRESSION TAG SEQADV 9RWC HIS B 8 UNP A0A0H2URD EXPRESSION TAG SEQADV 9RWC HIS B 9 UNP A0A0H2URD EXPRESSION TAG SEQADV 9RWC HIS B 10 UNP A0A0H2URD EXPRESSION TAG SEQADV 9RWC HIS B 11 UNP A0A0H2URD EXPRESSION TAG SEQADV 9RWC SER B 12 UNP A0A0H2URD EXPRESSION TAG SEQADV 9RWC SER B 13 UNP A0A0H2URD EXPRESSION TAG SEQADV 9RWC GLY B 14 UNP A0A0H2URD EXPRESSION TAG SEQADV 9RWC LEU B 15 UNP A0A0H2URD EXPRESSION TAG SEQADV 9RWC GLU B 16 UNP A0A0H2URD EXPRESSION TAG SEQADV 9RWC VAL B 17 UNP A0A0H2URD EXPRESSION TAG SEQADV 9RWC LEU B 18 UNP A0A0H2URD EXPRESSION TAG SEQADV 9RWC PHE B 19 UNP A0A0H2URD EXPRESSION TAG SEQADV 9RWC GLN B 20 UNP A0A0H2URD EXPRESSION TAG SEQADV 9RWC GLY B 21 UNP A0A0H2URD EXPRESSION TAG SEQADV 9RWC PRO B 22 UNP A0A0H2URD EXPRESSION TAG SEQADV 9RWC ALA B 404 UNP A0A0H2URD ARG 404 ENGINEERED MUTATION SEQRES 1 A 439 MET ALA HIS HIS HIS HIS HIS HIS SER SER GLY LEU GLU SEQRES 2 A 439 VAL LEU PHE GLN GLY PRO GLY ASN SER GLY GLY SER LYS SEQRES 3 A 439 ASP ALA ALA LYS SER GLY GLY ASP GLY ALA LYS THR GLU SEQRES 4 A 439 ILE THR TRP TRP ALA PHE PRO VAL PHE THR GLN GLU LYS SEQRES 5 A 439 THR GLY ASP GLY VAL GLY THR TYR GLU LYS SER ILE ILE SEQRES 6 A 439 GLU ALA PHE GLU LYS ALA ASN PRO ASP ILE LYS VAL LYS SEQRES 7 A 439 LEU GLU THR ILE ASP PHE LYS SER GLY PRO GLU LYS ILE SEQRES 8 A 439 THR THR ALA ILE GLU ALA GLY THR ALA PRO ASP VAL LEU SEQRES 9 A 439 PHE ASP ALA PRO GLY ARG ILE ILE GLN TYR GLY LYS ASN SEQRES 10 A 439 GLY LYS LEU ALA GLU LEU ASN ASP LEU PHE THR ASP GLU SEQRES 11 A 439 PHE VAL LYS ASP VAL ASN ASN GLU ASN ILE VAL GLN ALA SEQRES 12 A 439 SER LYS ALA GLY ASP LYS ALA TYR MET TYR PRO ILE SER SEQRES 13 A 439 SER ALA PRO PHE TYR MET ALA MET ASN LYS LYS MET LEU SEQRES 14 A 439 GLU ASP ALA GLY VAL ALA ASN LEU VAL LYS GLU GLY TRP SEQRES 15 A 439 THR THR ASP ASP PHE GLU LYS VAL LEU LYS ALA LEU LYS SEQRES 16 A 439 ASP LYS GLY TYR THR PRO GLY SER LEU PHE SER SER GLY SEQRES 17 A 439 GLN GLY GLY ASP GLN GLY THR ARG ALA PHE ILE SER ASN SEQRES 18 A 439 LEU TYR SER GLY SER VAL THR ASP GLU LYS VAL SER LYS SEQRES 19 A 439 TYR THR THR ASP ASP PRO LYS PHE VAL LYS GLY LEU GLU SEQRES 20 A 439 LYS ALA THR SER TRP ILE LYS ASP ASN LEU ILE ASN ASN SEQRES 21 A 439 GLY SER GLN PHE ASP GLY GLY ALA ASP ILE GLN ASN PHE SEQRES 22 A 439 ALA ASN GLY GLN THR SER TYR THR ILE LEU TRP ALA PRO SEQRES 23 A 439 ALA GLN ASN GLY ILE GLN ALA LYS LEU LEU GLU ALA SER SEQRES 24 A 439 LYS VAL GLU VAL VAL GLU VAL PRO PHE PRO SER ASP GLU SEQRES 25 A 439 GLY LYS PRO ALA LEU GLU TYR LEU VAL ASN GLY PHE ALA SEQRES 26 A 439 VAL PHE ASN ASN LYS ASP ASP LYS LYS VAL ALA ALA SER SEQRES 27 A 439 LYS LYS PHE ILE GLN PHE ILE ALA ASP ASP LYS GLU TRP SEQRES 28 A 439 GLY PRO LYS ASP VAL VAL ARG THR GLY ALA PHE PRO VAL SEQRES 29 A 439 ARG THR SER PHE GLY LYS LEU TYR GLU ASP LYS ARG MET SEQRES 30 A 439 GLU THR ILE SER GLY TRP THR GLN TYR TYR SER PRO TYR SEQRES 31 A 439 TYR ASN THR ILE ASP GLY PHE ALA GLU MET ALA THR LEU SEQRES 32 A 439 TRP PHE PRO MET LEU GLN SER VAL SER ASN GLY ASP GLU SEQRES 33 A 439 LYS PRO ALA ASP ALA LEU LYS ALA PHE THR GLU LYS ALA SEQRES 34 A 439 ASN GLU THR ILE LYS LYS ALA MET LYS GLN SEQRES 1 B 439 MET ALA HIS HIS HIS HIS HIS HIS SER SER GLY LEU GLU SEQRES 2 B 439 VAL LEU PHE GLN GLY PRO GLY ASN SER GLY GLY SER LYS SEQRES 3 B 439 ASP ALA ALA LYS SER GLY GLY ASP GLY ALA LYS THR GLU SEQRES 4 B 439 ILE THR TRP TRP ALA PHE PRO VAL PHE THR GLN GLU LYS SEQRES 5 B 439 THR GLY ASP GLY VAL GLY THR TYR GLU LYS SER ILE ILE SEQRES 6 B 439 GLU ALA PHE GLU LYS ALA ASN PRO ASP ILE LYS VAL LYS SEQRES 7 B 439 LEU GLU THR ILE ASP PHE LYS SER GLY PRO GLU LYS ILE SEQRES 8 B 439 THR THR ALA ILE GLU ALA GLY THR ALA PRO ASP VAL LEU SEQRES 9 B 439 PHE ASP ALA PRO GLY ARG ILE ILE GLN TYR GLY LYS ASN SEQRES 10 B 439 GLY LYS LEU ALA GLU LEU ASN ASP LEU PHE THR ASP GLU SEQRES 11 B 439 PHE VAL LYS ASP VAL ASN ASN GLU ASN ILE VAL GLN ALA SEQRES 12 B 439 SER LYS ALA GLY ASP LYS ALA TYR MET TYR PRO ILE SER SEQRES 13 B 439 SER ALA PRO PHE TYR MET ALA MET ASN LYS LYS MET LEU SEQRES 14 B 439 GLU ASP ALA GLY VAL ALA ASN LEU VAL LYS GLU GLY TRP SEQRES 15 B 439 THR THR ASP ASP PHE GLU LYS VAL LEU LYS ALA LEU LYS SEQRES 16 B 439 ASP LYS GLY TYR THR PRO GLY SER LEU PHE SER SER GLY SEQRES 17 B 439 GLN GLY GLY ASP GLN GLY THR ARG ALA PHE ILE SER ASN SEQRES 18 B 439 LEU TYR SER GLY SER VAL THR ASP GLU LYS VAL SER LYS SEQRES 19 B 439 TYR THR THR ASP ASP PRO LYS PHE VAL LYS GLY LEU GLU SEQRES 20 B 439 LYS ALA THR SER TRP ILE LYS ASP ASN LEU ILE ASN ASN SEQRES 21 B 439 GLY SER GLN PHE ASP GLY GLY ALA ASP ILE GLN ASN PHE SEQRES 22 B 439 ALA ASN GLY GLN THR SER TYR THR ILE LEU TRP ALA PRO SEQRES 23 B 439 ALA GLN ASN GLY ILE GLN ALA LYS LEU LEU GLU ALA SER SEQRES 24 B 439 LYS VAL GLU VAL VAL GLU VAL PRO PHE PRO SER ASP GLU SEQRES 25 B 439 GLY LYS PRO ALA LEU GLU TYR LEU VAL ASN GLY PHE ALA SEQRES 26 B 439 VAL PHE ASN ASN LYS ASP ASP LYS LYS VAL ALA ALA SER SEQRES 27 B 439 LYS LYS PHE ILE GLN PHE ILE ALA ASP ASP LYS GLU TRP SEQRES 28 B 439 GLY PRO LYS ASP VAL VAL ARG THR GLY ALA PHE PRO VAL SEQRES 29 B 439 ARG THR SER PHE GLY LYS LEU TYR GLU ASP LYS ARG MET SEQRES 30 B 439 GLU THR ILE SER GLY TRP THR GLN TYR TYR SER PRO TYR SEQRES 31 B 439 TYR ASN THR ILE ASP GLY PHE ALA GLU MET ALA THR LEU SEQRES 32 B 439 TRP PHE PRO MET LEU GLN SER VAL SER ASN GLY ASP GLU SEQRES 33 B 439 LYS PRO ALA ASP ALA LEU LYS ALA PHE THR GLU LYS ALA SEQRES 34 B 439 ASN GLU THR ILE LYS LYS ALA MET LYS GLN HET SIA A 501 21 HET SO4 A 502 5 HET SIA B 501 21 HET SO4 B 502 5 HETNAM SIA N-ACETYL-ALPHA-NEURAMINIC ACID HETNAM SO4 SULFATE ION HETSYN SIA N-ACETYLNEURAMINIC ACID; SIALIC ACID; ALPHA-SIALIC HETSYN 2 SIA ACID; O-SIALIC ACID FORMUL 3 SIA 2(C11 H19 N O9) FORMUL 4 SO4 2(O4 S 2-) FORMUL 7 HOH *1013(H2 O) HELIX 1 AA1 GLY A 61 ASN A 75 1 15 HELIX 2 AA2 SER A 89 GLY A 101 1 13 HELIX 3 AA3 ALA A 110 ASN A 120 1 11 HELIX 4 AA4 LEU A 126 PHE A 130 5 5 HELIX 5 AA5 THR A 131 ASN A 139 1 9 HELIX 6 AA6 ASN A 140 SER A 147 1 8 HELIX 7 AA7 LYS A 169 ALA A 175 1 7 HELIX 8 AA8 VAL A 177 VAL A 181 5 5 HELIX 9 AA9 THR A 186 LYS A 200 1 15 HELIX 10 AB1 ASP A 215 TYR A 226 1 12 HELIX 11 AB2 ASP A 242 ASP A 258 1 17 HELIX 12 AB3 ASP A 268 ASN A 278 1 11 HELIX 13 AB4 ALA A 290 GLN A 295 1 6 HELIX 14 AB5 GLN A 295 LYS A 303 1 9 HELIX 15 AB6 ASP A 334 ASP A 351 1 18 HELIX 16 AB7 GLU A 353 THR A 362 1 10 HELIX 17 AB8 ARG A 368 GLY A 372 5 5 HELIX 18 AB9 ASP A 377 TRP A 386 1 10 HELIX 19 AC1 THR A 387 TYR A 390 5 4 HELIX 20 AC2 GLY A 399 ASN A 416 1 18 HELIX 21 AC3 LYS A 420 LYS A 438 1 19 HELIX 22 AC4 GLY B 61 ASN B 75 1 15 HELIX 23 AC5 SER B 89 GLY B 101 1 13 HELIX 24 AC6 ALA B 110 ASN B 120 1 11 HELIX 25 AC7 LEU B 126 PHE B 130 5 5 HELIX 26 AC8 THR B 131 ASN B 139 1 9 HELIX 27 AC9 ASN B 140 SER B 147 1 8 HELIX 28 AD1 LYS B 169 ALA B 175 1 7 HELIX 29 AD2 VAL B 177 VAL B 181 5 5 HELIX 30 AD3 THR B 186 LYS B 200 1 15 HELIX 31 AD4 ASP B 215 TYR B 226 1 12 HELIX 32 AD5 ASP B 242 ASP B 258 1 17 HELIX 33 AD6 ASP B 268 ASN B 278 1 11 HELIX 34 AD7 ALA B 290 GLN B 295 1 6 HELIX 35 AD8 GLN B 295 LYS B 303 1 9 HELIX 36 AD9 ASP B 334 ASP B 351 1 18 HELIX 37 AE1 GLU B 353 THR B 362 1 10 HELIX 38 AE2 ARG B 368 GLY B 372 5 5 HELIX 39 AE3 ASP B 377 GLY B 385 1 9 HELIX 40 AE4 TRP B 386 TYR B 390 5 5 HELIX 41 AE5 GLY B 399 ASN B 416 1 18 HELIX 42 AE6 LYS B 420 ALA B 439 1 20 SHEET 1 AA1 6 ILE A 78 THR A 84 0 SHEET 2 AA1 6 THR A 41 ALA A 47 1 N TRP A 45 O LYS A 81 SHEET 3 AA1 6 VAL A 106 ASP A 109 1 O VAL A 106 N TRP A 46 SHEET 4 AA1 6 TYR A 322 VAL A 329 -1 O GLY A 326 N ASP A 109 SHEET 5 AA1 6 TYR A 156 PRO A 162 -1 N ALA A 161 O LEU A 323 SHEET 6 AA1 6 PHE A 365 PRO A 366 -1 O PHE A 365 N SER A 160 SHEET 1 AA2 2 LYS A 148 ALA A 149 0 SHEET 2 AA2 2 LYS A 152 ALA A 153 -1 O LYS A 152 N ALA A 149 SHEET 1 AA3 3 TYR A 283 TRP A 287 0 SHEET 2 AA3 3 TYR A 164 ASN A 168 -1 N ALA A 166 O THR A 284 SHEET 3 AA3 3 VAL A 306 VAL A 309 -1 O VAL A 307 N MET A 167 SHEET 1 AA4 2 SER A 206 PHE A 208 0 SHEET 2 AA4 2 ASN A 262 GLY A 264 1 O ASN A 262 N LEU A 207 SHEET 1 AA5 6 ILE B 78 THR B 84 0 SHEET 2 AA5 6 THR B 41 ALA B 47 1 N TRP B 45 O LYS B 81 SHEET 3 AA5 6 VAL B 106 ASP B 109 1 O VAL B 106 N TRP B 46 SHEET 4 AA5 6 TYR B 322 VAL B 329 -1 O GLY B 326 N ASP B 109 SHEET 5 AA5 6 TYR B 156 PRO B 162 -1 N ALA B 161 O LEU B 323 SHEET 6 AA5 6 PHE B 365 PRO B 366 -1 O PHE B 365 N SER B 160 SHEET 1 AA6 2 LYS B 148 ALA B 149 0 SHEET 2 AA6 2 LYS B 152 ALA B 153 -1 O LYS B 152 N ALA B 149 SHEET 1 AA7 3 TYR B 283 TRP B 287 0 SHEET 2 AA7 3 TYR B 164 ASN B 168 -1 N ALA B 166 O THR B 284 SHEET 3 AA7 3 VAL B 306 VAL B 309 -1 O VAL B 307 N MET B 167 SHEET 1 AA8 2 SER B 206 PHE B 208 0 SHEET 2 AA8 2 ASN B 262 GLY B 264 1 O ASN B 262 N LEU B 207 CRYST1 78.255 61.146 88.873 90.00 106.13 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 0.012779 0.000000 0.003695 0.00000 SCALE2 0.000000 0.016354 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011713 0.00000 CONECT 6378 6379 6390 6391 CONECT 6379 6378 6380 6392 6394 CONECT 6380 6379 6381 CONECT 6381 6380 6382 6393 CONECT 6382 6381 6383 6389 CONECT 6383 6382 6384 6394 CONECT 6384 6383 6385 6395 CONECT 6385 6384 6386 6396 CONECT 6386 6385 6397 CONECT 6387 6388 6389 6398 CONECT 6388 6387 CONECT 6389 6382 6387 CONECT 6390 6378 CONECT 6391 6378 CONECT 6392 6379 CONECT 6393 6381 CONECT 6394 6379 6383 CONECT 6395 6384 CONECT 6396 6385 CONECT 6397 6386 CONECT 6398 6387 CONECT 6399 6400 6401 6402 6403 CONECT 6400 6399 CONECT 6401 6399 CONECT 6402 6399 CONECT 6403 6399 CONECT 6404 6405 6416 6417 CONECT 6405 6404 6406 6418 6420 CONECT 6406 6405 6407 CONECT 6407 6406 6408 6419 CONECT 6408 6407 6409 6415 CONECT 6409 6408 6410 6420 CONECT 6410 6409 6411 6421 CONECT 6411 6410 6412 6422 CONECT 6412 6411 6423 CONECT 6413 6414 6415 6424 CONECT 6414 6413 CONECT 6415 6408 6413 CONECT 6416 6404 CONECT 6417 6404 CONECT 6418 6405 CONECT 6419 6407 CONECT 6420 6405 6409 CONECT 6421 6410 CONECT 6422 6411 CONECT 6423 6412 CONECT 6424 6413 CONECT 6425 6426 6427 6428 6429 CONECT 6426 6425 CONECT 6427 6425 CONECT 6428 6425 CONECT 6429 6425 MASTER 432 0 4 42 26 0 0 6 7313 2 52 68 END