HEADER MEMBRANE PROTEIN 03-MAY-17 5NV9 TITLE SUBSTRATE-BOUND OUTWARD-OPEN STATE OF A NA+-COUPLED SIALIC ACID TITLE 2 SYMPORTER REVEALS A NOVEL NA+-SITE COMPND MOL_ID: 1; COMPND 2 MOLECULE: PUTATIVE SODIUM:SOLUTE SYMPORTER; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PROTEUS MIRABILIS (STRAIN HI4320); SOURCE 3 ORGANISM_TAXID: 529507; SOURCE 4 STRAIN: HI4320; SOURCE 5 GENE: PMI2976; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS MEMBRANE PROTEIN, MEMBRANE SYMPORTER, SIALIC ACID, OUTWARD-OPEN, KEYWDS 2 SODIUM-COUPLED EXPDTA X-RAY DIFFRACTION AUTHOR W.Y.WAHLGREN,R.A.NORTH,E.DUNEVALL,A.PAZ,P.GOYAL,P.BISIGNANO,M.GRABE, AUTHOR 2 R.DOBSON,J.ABRAMSON,S.RAMASWAMY,R.FRIEMANN REVDAT 5 06-NOV-24 5NV9 1 HETSYN REVDAT 4 29-JUL-20 5NV9 1 COMPND REMARK HETNAM LINK REVDAT 4 2 1 SITE REVDAT 3 16-OCT-19 5NV9 1 REMARK REVDAT 2 16-MAY-18 5NV9 1 COMPND JRNL REMARK SEQRES REVDAT 2 2 1 HET HETNAM HETSYN FORMUL REVDAT 1 04-APR-18 5NV9 0 JRNL AUTH W.Y.WAHLGREN,E.DUNEVALL,R.A.NORTH,A.PAZ,M.SCALISE, JRNL AUTH 2 P.BISIGNANO,J.BENGTSSON-PALME,P.GOYAL,E.CLAESSON, JRNL AUTH 3 R.CAING-CARLSSON,R.ANDERSSON,K.BEIS,U.J.NILSSON,A.FAREWELL, JRNL AUTH 4 L.POCHINI,C.INDIVERI,M.GRABE,R.C.J.DOBSON,J.ABRAMSON, JRNL AUTH 5 S.RAMASWAMY,R.FRIEMANN JRNL TITL SUBSTRATE-BOUND OUTWARD-OPEN STRUCTURE OF A NA+-COUPLED JRNL TITL 2 SIALIC ACID SYMPORTER REVEALS A NEW NA+SITE. JRNL REF NAT COMMUN V. 9 1753 2018 JRNL REFN ESSN 2041-1723 JRNL PMID 29717135 JRNL DOI 10.1038/S41467-018-04045-7 REMARK 2 REMARK 2 RESOLUTION. 1.95 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0071 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) : 1.95 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 78.40 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 3 NUMBER OF REFLECTIONS : 47316 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) : 0.201 REMARK 3 R VALUE (WORKING SET) : 0.199 REMARK 3 FREE R VALUE : 0.243 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2536 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) : 1.95 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.00 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3447 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.48 REMARK 3 BIN R VALUE (WORKING SET) : 0.4040 REMARK 3 BIN FREE R VALUE SET COUNT : 196 REMARK 3 BIN FREE R VALUE : 0.3980 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3707 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 63 REMARK 3 SOLVENT ATOMS : 220 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 29.97 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 2.91000 REMARK 3 B22 (A**2) : -1.27000 REMARK 3 B33 (A**2) : -1.65000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.17000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.141 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.141 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.136 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 5.029 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.945 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.926 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3872 ; 0.016 ; 0.020 REMARK 3 BOND LENGTHS OTHERS (A): 3800 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5273 ; 1.735 ; 1.983 REMARK 3 BOND ANGLES OTHERS (DEGREES): 8710 ; 0.925 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 482 ; 5.626 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 132 ;35.932 ;22.500 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 572 ;14.169 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 15 ;15.148 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 632 ; 0.108 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4231 ; 0.008 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 907 ; 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): 1922 ; 2.111 ; 2.754 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1921 ; 2.107 ; 2.752 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2400 ; 2.934 ; 4.112 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 2401 ; 2.935 ; 4.114 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1950 ; 2.995 ; 3.149 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1947 ; 2.954 ; 3.145 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 2866 ; 4.268 ; 4.599 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 4788 ; 6.322 ;24.686 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 4707 ; 6.131 ;24.368 REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL 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. A NA IS MODELLED AT THE NA3 BINDING SITE DUE TO TWO REMARK 3 REASONS: THE BOND DISTANCES ARE BETWEEN 2.1-2.5A WHICH IS REMARK 3 CONSISTENT WITH NA, AS WELL AS THE COORDINATION NUMBER 5. REMARK 4 REMARK 4 5NV9 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 03-MAY-17. REMARK 100 THE DEPOSITION ID IS D_1200004760. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 30-JUL-15 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 : DIAMOND REMARK 200 BEAMLINE : I24 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97858 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 S 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 49833 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.950 REMARK 200 RESOLUTION RANGE LOW (A) : 78.400 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 200 DATA REDUNDANCY : 3.240 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 6.4300 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL 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: NULL REMARK 200 SOFTWARE USED: SHELXS REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 61.48 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.19 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M SODIUM CITRATE PH 5, 0.2-0.5M REMARK 280 POTASSIUM CHLORIDE, 30-40% PENTAERYTHRITOL PROPOXYLATE (5/4/PO/ REMARK 280 OH), VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z 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 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 65.29500 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 49.03500 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 65.29500 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 49.03500 REMARK 290 SMTRY3 4 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1100 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 19080 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -5.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 MSE A 1 REMARK 465 GLN A 2 REMARK 465 LEU A 3 REMARK 465 HIS A 4 REMARK 465 GLU A 400 REMARK 465 ALA A 401 REMARK 465 GLU A 402 REMARK 465 ILE A 403 REMARK 465 ASP A 489 REMARK 465 ASP A 490 REMARK 465 SER A 491 REMARK 465 GLU A 492 REMARK 465 THR A 493 REMARK 465 SER A 494 REMARK 465 GLU A 495 REMARK 465 ASN A 496 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 NZ LYS A 271 O HOH A 601 2.10 REMARK 500 O HOH A 634 O HOH A 772 2.19 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 SER A 60 -169.42 -119.78 REMARK 500 SER A 74 -102.53 -139.23 REMARK 500 PHE A 116 -107.77 -122.64 REMARK 500 PHE A 221 -80.96 -95.41 REMARK 500 ILE A 359 -66.62 -108.65 REMARK 500 LEU A 486 77.13 52.10 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 A 817 DISTANCE = 6.14 ANGSTROMS REMARK 525 HOH A 818 DISTANCE = 6.45 ANGSTROMS REMARK 525 HOH A 819 DISTANCE = 7.24 ANGSTROMS REMARK 525 HOH A 820 DISTANCE = 7.34 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 NA A 501 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ALA A 56 O REMARK 620 2 LEU A 59 O 89.3 REMARK 620 3 ALA A 339 O 171.2 97.2 REMARK 620 4 SER A 342 OG 83.2 131.1 88.0 REMARK 620 5 SER A 343 OG 90.8 96.4 94.5 131.8 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 502 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 182 OD1 REMARK 620 2 ASP A 182 OD2 58.9 REMARK 620 3 SER A 342 O 89.8 116.8 REMARK 620 4 SER A 345 OG 99.8 146.6 85.9 REMARK 620 5 SER A 346 OG 140.5 87.6 87.8 119.2 REMARK 620 N 1 2 3 4 DBREF 5NV9 A 1 496 UNP B4EZY7 B4EZY7_PROMH 1 496 SEQRES 1 A 496 MSE GLN LEU HIS ASP PHE GLY PHE ILE ASN TYR ALA VAL SEQRES 2 A 496 LEU PHE GLY TYR LEU ALA ALA MSE LEU LEU VAL GLY VAL SEQRES 3 A 496 TYR PHE SER LYS ARG GLN LYS THR ALA ASP ASP TYR PHE SEQRES 4 A 496 ARG GLY GLY GLY ARG VAL PRO GLY TRP ALA ALA GLY VAL SEQRES 5 A 496 SER VAL PHE ALA THR THR LEU SER SER ILE THR PHE MSE SEQRES 6 A 496 SER ILE PRO ALA LYS ALA TYR THR SER ASP TRP THR PHE SEQRES 7 A 496 ILE ILE GLY GLN TYR LEU ALA ILE ALA ILE LEU PRO LEU SEQRES 8 A 496 VAL PHE TYR PHE TYR ILE PRO PHE PHE ARG LYS LEU LYS SEQRES 9 A 496 ILE THR SER ALA TYR GLU TYR LEU GLU ALA ARG PHE ASP SEQRES 10 A 496 VAL ARG SER ARG LEU PHE ALA SER LEU SER PHE MSE LEU SEQRES 11 A 496 PHE HIS ILE GLY ARG VAL ALA ILE ILE THR TYR LEU THR SEQRES 12 A 496 VAL LEU ALA LEU ARG PRO PHE MSE GLY ILE ASP PRO VAL SEQRES 13 A 496 VAL LEU ILE VAL LEU ILE SER LEU LEU CYS ILE ILE TYR SEQRES 14 A 496 THR TRP MSE GLY GLY ILE GLU GLY VAL ILE TRP THR ASP SEQRES 15 A 496 VAL ILE GLN GLY LEU LEU LEU SER GLY GLY ALA VAL LEU SEQRES 16 A 496 ILE PHE ILE MSE ILE CYS PHE LYS VAL ASP GLY GLY ILE SEQRES 17 A 496 SER GLU ILE PHE THR THR THR ALA GLN ALA ASP LYS PHE SEQRES 18 A 496 PHE PRO THR THR GLN TRP ARG TRP SER TRP THR ASP SER SEQRES 19 A 496 THR ILE PRO VAL LEU MSE ILE GLY PHE LEU PHE ALA ASN SEQRES 20 A 496 ILE GLN GLN PHE THR ALA SER GLN ASP VAL VAL GLN ARG SEQRES 21 A 496 TYR ILE VAL THR ASP SER ILE LYS GLU THR LYS ARG THR SEQRES 22 A 496 LEU ILE THR ASN ALA LYS LEU VAL ALA ILE ILE PRO ILE SEQRES 23 A 496 PHE PHE PHE ALA ILE GLY SER ALA LEU PHE VAL TYR TYR SEQRES 24 A 496 GLN GLN ASN PRO SER LEU LEU PRO ALA GLY PHE ASN THR SEQRES 25 A 496 GLY GLY ILE LEU PRO LEU PHE ILE VAL THR GLU MSE PRO SEQRES 26 A 496 ILE GLY ILE ALA GLY LEU ILE ILE ALA ALA ILE PHE ALA SEQRES 27 A 496 ALA ALA GLN SER SER ILE SER SER SER LEU ASN SER ILE SEQRES 28 A 496 SER SER CYS PHE ASN SER ASP ILE TYR THR ARG LEU SER SEQRES 29 A 496 LYS SER SER PRO SER PRO GLU GLN LYS MSE LYS VAL ALA SEQRES 30 A 496 LYS LEU VAL ILE ILE VAL ALA GLY ILE PHE SER SER LEU SEQRES 31 A 496 ALA ALA ILE TRP LEU VAL LEU SER ASP GLU ALA GLU ILE SEQRES 32 A 496 TRP ASP ALA PHE ASN SER LEU ILE GLY LEU MSE GLY GLY SEQRES 33 A 496 PRO MSE THR GLY LEU PHE MSE LEU GLY ILE PHE VAL LYS SEQRES 34 A 496 ARG ALA ASN ALA GLY SER ALA VAL VAL GLY ILE ILE VAL SEQRES 35 A 496 SER ILE ILE ALA VAL LEU ALA ALA ARG TYR GLY SER ASP SEQRES 36 A 496 LEU ASN PHE PHE PHE TYR GLY VAL ILE GLY SER MSE SER SEQRES 37 A 496 VAL VAL ILE ALA GLY THR ILE THR ALA PRO LEU PHE ALA SEQRES 38 A 496 PRO ALA LYS GLN LEU SER LEU ASP ASP SER GLU THR SER SEQRES 39 A 496 GLU ASN MODRES 5NV9 MSE A 21 MET MODIFIED RESIDUE MODRES 5NV9 MSE A 65 MET MODIFIED RESIDUE MODRES 5NV9 MSE A 129 MET MODIFIED RESIDUE MODRES 5NV9 MSE A 151 MET MODIFIED RESIDUE MODRES 5NV9 MSE A 172 MET MODIFIED RESIDUE MODRES 5NV9 MSE A 199 MET MODIFIED RESIDUE MODRES 5NV9 MSE A 240 MET MODIFIED RESIDUE MODRES 5NV9 MSE A 324 MET MODIFIED RESIDUE MODRES 5NV9 MSE A 374 MET MODIFIED RESIDUE MODRES 5NV9 MSE A 414 MET MODIFIED RESIDUE MODRES 5NV9 MSE A 418 MET MODIFIED RESIDUE MODRES 5NV9 MSE A 423 MET MODIFIED RESIDUE MODRES 5NV9 MSE A 467 MET MODIFIED RESIDUE HET MSE A 21 8 HET MSE A 65 8 HET MSE A 129 8 HET MSE A 151 8 HET MSE A 172 8 HET MSE A 199 8 HET MSE A 240 8 HET MSE A 324 8 HET MSE A 374 8 HET MSE A 414 8 HET MSE A 418 8 HET MSE A 423 8 HET MSE A 467 8 HET NA A 501 1 HET NA A 502 1 HET SLB A 503 21 HET LMT A 504 35 HET PO4 A 505 5 HETNAM MSE SELENOMETHIONINE HETNAM NA SODIUM ION HETNAM SLB N-ACETYL-BETA-NEURAMINIC ACID HETNAM LMT DODECYL-BETA-D-MALTOSIDE HETNAM PO4 PHOSPHATE ION HETSYN SLB N-ACETYLNEURAMINIC ACID; SIALIC ACID; O-SIALIC ACID; 5- HETSYN 2 SLB N-ACETYL-BETA-D-NEURAMINIC ACID; BETA-SIALIC ACID FORMUL 1 MSE 13(C5 H11 N O2 SE) FORMUL 2 NA 2(NA 1+) FORMUL 4 SLB C11 H19 N O9 FORMUL 5 LMT C24 H46 O11 FORMUL 6 PO4 O4 P 3- FORMUL 7 HOH *220(H2 O) HELIX 1 AA1 GLY A 7 LYS A 30 1 24 HELIX 2 AA2 THR A 34 GLY A 41 1 8 HELIX 3 AA3 GLY A 42 ARG A 44 5 3 HELIX 4 AA4 PRO A 46 LEU A 59 1 14 HELIX 5 AA5 SER A 60 SER A 74 1 15 HELIX 6 AA6 TRP A 76 PHE A 78 5 3 HELIX 7 AA7 ILE A 79 ILE A 88 1 10 HELIX 8 AA8 ILE A 88 TYR A 96 1 9 HELIX 9 AA9 TYR A 96 LEU A 103 1 8 HELIX 10 AB1 TYR A 109 PHE A 116 1 8 HELIX 11 AB2 ASP A 117 GLY A 152 1 36 HELIX 12 AB3 ASP A 154 SER A 163 1 10 HELIX 13 AB4 SER A 163 VAL A 204 1 42 HELIX 14 AB5 GLY A 206 ALA A 218 1 13 HELIX 15 AB6 PRO A 223 TRP A 227 5 5 HELIX 16 AB7 THR A 235 ALA A 253 1 19 HELIX 17 AB8 SER A 254 GLN A 259 1 6 HELIX 18 AB9 ARG A 260 ILE A 262 5 3 HELIX 19 AC1 SER A 266 ASN A 302 1 37 HELIX 20 AC2 PRO A 303 LEU A 306 5 4 HELIX 21 AC3 ASN A 311 GLY A 313 5 3 HELIX 22 AC4 GLY A 314 MSE A 324 1 11 HELIX 23 AC5 GLY A 327 ILE A 359 1 33 HELIX 24 AC6 SER A 369 ASP A 399 1 31 HELIX 25 AC7 ASP A 405 LEU A 413 1 9 HELIX 26 AC8 MSE A 414 VAL A 428 1 15 HELIX 27 AC9 ASN A 432 GLY A 453 1 22 HELIX 28 AD1 PHE A 459 THR A 476 1 18 HELIX 29 AD2 ALA A 477 PHE A 480 5 4 LINK C ALA A 20 N MSE A 21 1555 1555 1.32 LINK C MSE A 21 N LEU A 22 1555 1555 1.33 LINK C PHE A 64 N MSE A 65 1555 1555 1.33 LINK C MSE A 65 N SER A 66 1555 1555 1.34 LINK C PHE A 128 N MSE A 129 1555 1555 1.33 LINK C MSE A 129 N LEU A 130 1555 1555 1.33 LINK C PHE A 150 N MSE A 151 1555 1555 1.32 LINK C MSE A 151 N GLY A 152 1555 1555 1.32 LINK C TRP A 171 N MSE A 172 1555 1555 1.34 LINK C MSE A 172 N GLY A 173 1555 1555 1.33 LINK C ILE A 198 N MSE A 199 1555 1555 1.33 LINK C MSE A 199 N ILE A 200 1555 1555 1.34 LINK C LEU A 239 N MSE A 240 1555 1555 1.33 LINK C MSE A 240 N ILE A 241 1555 1555 1.34 LINK C GLU A 323 N MSE A 324 1555 1555 1.32 LINK C MSE A 324 N PRO A 325 1555 1555 1.33 LINK C LYS A 373 N MSE A 374 1555 1555 1.33 LINK C MSE A 374 N LYS A 375 1555 1555 1.33 LINK C LEU A 413 N MSE A 414 1555 1555 1.33 LINK C MSE A 414 N GLY A 415 1555 1555 1.34 LINK C PRO A 417 N MSE A 418 1555 1555 1.35 LINK C MSE A 418 N THR A 419 1555 1555 1.32 LINK C PHE A 422 N MSE A 423 1555 1555 1.32 LINK C MSE A 423 N LEU A 424 1555 1555 1.32 LINK C SER A 466 N MSE A 467 1555 1555 1.32 LINK C MSE A 467 N SER A 468 1555 1555 1.34 LINK O ALA A 56 NA NA A 501 1555 1555 2.15 LINK O LEU A 59 NA NA A 501 1555 1555 2.34 LINK OD1 ASP A 182 NA NA A 502 1555 1555 2.15 LINK OD2 ASP A 182 NA NA A 502 1555 1555 2.33 LINK O ALA A 339 NA NA A 501 1555 1555 2.28 LINK OG SER A 342 NA NA A 501 1555 1555 2.38 LINK O SER A 342 NA NA A 502 1555 1555 2.35 LINK OG SER A 343 NA NA A 501 1555 1555 2.38 LINK OG SER A 345 NA NA A 502 1555 1555 2.50 LINK OG SER A 346 NA NA A 502 1555 1555 2.22 CRYST1 130.590 98.070 54.780 90.00 92.15 90.00 C 1 2 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 0.007658 0.000000 0.000288 0.00000 SCALE2 0.000000 0.010197 0.000000 0.00000 SCALE3 0.000000 0.000000 0.018268 0.00000