HEADER SUGAR BINDING PROTEIN 13-MAR-12 4E52 TITLE CRYSTAL STRUCTURE OF HAEMOPHILUS EAGAN 4A POLYSACCHARIDE BOUND HUMAN TITLE 2 LUNG SURFACTANT PROTEIN D COMPND MOL_ID: 1; COMPND 2 MOLECULE: PULMONARY SURFACTANT-ASSOCIATED PROTEIN D; COMPND 3 CHAIN: A, B, C; COMPND 4 FRAGMENT: CARBOHYDRATE RECOGNITION DOMAIN; COMPND 5 SYNONYM: PSP-D, SP-D, COLLECTIN-7, LUNG SURFACTANT PROTEIN D; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: SFTPD, COLEC7, PSPD, SFTP4; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID KEYWDS TRIMERIC RECOMBINANT COLLECTIN FRAGMENT, NECK+CRD, ALPHA-HELICAL KEYWDS 2 COILED COIL, CARBOHYDRATE RECOGNITION DOMAIN, LECTIN, SUGAR BINDING KEYWDS 3 PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR A.K.SHRIVE,T.J.GREENHOUGH REVDAT 5 13-SEP-23 4E52 1 REMARK HETSYN REVDAT 4 29-JUL-20 4E52 1 COMPND REMARK SEQADV HETNAM REVDAT 4 2 1 LINK SITE ATOM REVDAT 3 11-MAY-16 4E52 1 JRNL REVDAT 2 23-MAR-16 4E52 1 JRNL REVDAT 1 27-MAR-13 4E52 0 JRNL AUTH H.W.CLARK,R.M.MACKAY,M.E.DEADMAN,D.W.HOOD,J.MADSEN, JRNL AUTH 2 E.R.MOXON,J.P.TOWNSEND,K.B.REID,A.AHMED,A.J.SHAW, JRNL AUTH 3 T.J.GREENHOUGH,A.K.SHRIVE JRNL TITL CRYSTAL STRUCTURE OF A COMPLEX OF SURFACTANT PROTEIN D JRNL TITL 2 (SP-D) AND HAEMOPHILUS INFLUENZAE LIPOPOLYSACCHARIDE REVEALS JRNL TITL 3 SHIELDING OF CORE STRUCTURES IN SP-D-RESISTANT STRAINS. JRNL REF INFECT.IMMUN. V. 84 1585 2016 JRNL REFN ISSN 0019-9567 JRNL PMID 26953329 JRNL DOI 10.1128/IAI.01239-15 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH A.K.SHRIVE,C.MARTIN,I.BURNS,J.M.PATERSON,J.D.MARTIN, REMARK 1 AUTH 2 J.P.TOWNSEND,P.WATERS,H.W.CLARK,U.KISHORE,K.B.REID, REMARK 1 AUTH 3 T.J.GREENHOUGH REMARK 1 TITL STRUCTURAL CHARACTERISATION OF LIGAND-BINDING DETERMINANTS REMARK 1 TITL 2 IN HUMAN LUNG SURFACTANT PROTEIN D: INFLUENCE OF ASP325. REMARK 1 REF J.MOL.BIOL. V. 394 776 2009 REMARK 1 REFN ISSN 0022-2836 REMARK 1 PMID 19799916 REMARK 1 DOI 10.1016/J.JMB.2009.09.057 REMARK 1 REFERENCE 2 REMARK 1 AUTH A.K.SHRIVE,H.A.THARIA,P.STRONG,U.KISHORE,I.BURNS, REMARK 1 AUTH 2 P.J.RIZKALLAH,K.B.REID,T.J.GREENHOUGH REMARK 1 TITL HIGH-RESOLUTION STRUCTURAL INSIGHTS INTO LIGAND BINDING AND REMARK 1 TITL 2 IMMUNE CELL RECOGNITION BY HUMAN LUNG SURFACTANT PROTEIN D. REMARK 1 REF J.MOL.BIOL. V. 331 509 2003 REMARK 1 REFN ISSN 0022-2836 REMARK 1 PMID 12888356 REMARK 2 REMARK 2 RESOLUTION. 1.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 26.75 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 71561 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 SET) : 0.192 REMARK 3 FREE R VALUE : 0.210 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 3624 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 50 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.70 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.71 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 1349 REMARK 3 BIN R VALUE (WORKING SET) : 0.3483 REMARK 3 BIN FREE R VALUE : 0.3163 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : 72 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3483 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 53 REMARK 3 SOLVENT ATOMS : 531 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 24.37 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.28800 REMARK 3 B22 (A**2) : -2.08500 REMARK 3 B33 (A**2) : 3.37300 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -1.46900 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : NULL REMARK 3 BOND ANGLES (DEGREES) : NULL REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 1.100 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 1.645 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 2.006 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 2.995 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : NULL REMARK 3 KSOL : NULL REMARK 3 BSOL : 40.32 REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : ION.PARAM REMARK 3 PARAMETER FILE 3 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 4 : CIS_PEPTIDE.PARAM REMARK 3 PARAMETER FILE 5 : HK5NEW_PAR.TXT REMARK 3 PARAMETER FILE 6 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 TOPOLOGY FILE 2 : NULL REMARK 3 TOPOLOGY FILE 3 : NULL REMARK 3 TOPOLOGY FILE 4 : NULL REMARK 3 TOPOLOGY FILE 5 : NULL REMARK 3 TOPOLOGY FILE 6 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 4E52 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 03-MAY-12. REMARK 100 THE DEPOSITION ID IS D_1000071178. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 24-JUN-07 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SRS REMARK 200 BEAMLINE : PX14.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.488 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA 3.1.4 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 71591 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.700 REMARK 200 RESOLUTION RANGE LOW (A) : 26.748 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 3.000 REMARK 200 R MERGE (I) : 0.07500 REMARK 200 R SYM (I) : 0.07500 REMARK 200 FOR THE DATA SET : 10.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.79 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : 3.00 REMARK 200 R MERGE FOR SHELL (I) : 0.29500 REMARK 200 R SYM FOR SHELL (I) : 0.29500 REMARK 200 FOR SHELL : 2.400 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: PDB ENTRY 1PW9 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 58.18 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.94 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 4000, TRIS, PH 7.5, VAPOR REMARK 280 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 53.99500 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 7590 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 21040 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -150.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D, E 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 179 REMARK 465 SER A 180 REMARK 465 PRO A 181 REMARK 465 GLY A 182 REMARK 465 LEU A 183 REMARK 465 LYS A 184 REMARK 465 GLY A 185 REMARK 465 ASP A 186 REMARK 465 LYS A 187 REMARK 465 GLY A 188 REMARK 465 ILE A 189 REMARK 465 PRO A 190 REMARK 465 GLY A 191 REMARK 465 ASP A 192 REMARK 465 LYS A 193 REMARK 465 GLY A 194 REMARK 465 ALA A 195 REMARK 465 LYS A 196 REMARK 465 GLY A 197 REMARK 465 GLU A 198 REMARK 465 SER A 199 REMARK 465 GLY A 200 REMARK 465 LEU A 201 REMARK 465 PRO A 202 REMARK 465 ASP A 203 REMARK 465 GLY B 179 REMARK 465 SER B 180 REMARK 465 PRO B 181 REMARK 465 GLY B 182 REMARK 465 LEU B 183 REMARK 465 LYS B 184 REMARK 465 GLY B 185 REMARK 465 ASP B 186 REMARK 465 LYS B 187 REMARK 465 GLY B 188 REMARK 465 ILE B 189 REMARK 465 PRO B 190 REMARK 465 GLY B 191 REMARK 465 ASP B 192 REMARK 465 LYS B 193 REMARK 465 GLY B 194 REMARK 465 ALA B 195 REMARK 465 LYS B 196 REMARK 465 GLY B 197 REMARK 465 GLU B 198 REMARK 465 SER B 199 REMARK 465 GLY B 200 REMARK 465 LEU B 201 REMARK 465 PRO B 202 REMARK 465 ASP B 203 REMARK 465 GLY C 179 REMARK 465 SER C 180 REMARK 465 PRO C 181 REMARK 465 GLY C 182 REMARK 465 LEU C 183 REMARK 465 LYS C 184 REMARK 465 GLY C 185 REMARK 465 ASP C 186 REMARK 465 LYS C 187 REMARK 465 GLY C 188 REMARK 465 ILE C 189 REMARK 465 PRO C 190 REMARK 465 GLY C 191 REMARK 465 ASP C 192 REMARK 465 LYS C 193 REMARK 465 GLY C 194 REMARK 465 ALA C 195 REMARK 465 LYS C 196 REMARK 465 GLY C 197 REMARK 465 GLU C 198 REMARK 465 SER C 199 REMARK 465 GLY C 200 REMARK 465 LEU C 201 REMARK 465 PRO C 202 REMARK 465 ASP C 203 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 316 49.17 -143.03 REMARK 500 SER A 328 46.93 -149.38 REMARK 500 ASN B 316 50.83 -142.12 REMARK 500 SER B 328 40.84 -143.54 REMARK 500 ASN C 316 50.81 -143.50 REMARK 500 SER C 328 37.15 -149.65 REMARK 500 REMARK 500 REMARK: NULL REMARK 600 REMARK 600 HETEROGEN REMARK 600 REMARK 600 BOTH ENANTIOMERS THAT DIFFER ONLY IN THE CHIRALITY AT ATOM C4 EXIST REMARK 600 IN THE STRUCTURE. HOWEVER, THE ENANTIOMERIC SUBSTITUTE OFF C4 ATOM REMARK 600 IS NOT VISIBLE IN THE ELECTRON DENSITY MAP. REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 KD5 D 2 REMARK 610 KD5 E 2 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 402 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 297 OD2 REMARK 620 2 ASP A 297 OD1 50.7 REMARK 620 3 GLU A 301 OE2 73.4 121.9 REMARK 620 4 GLU A 301 OE1 77.6 96.3 52.5 REMARK 620 5 ASP A 324 OD1 150.4 157.8 77.1 86.8 REMARK 620 6 GLU A 329 O 126.6 88.9 144.3 149.5 77.8 REMARK 620 7 ASP A 330 OD1 111.6 72.0 125.4 74.8 87.8 78.3 REMARK 620 8 HOH A 502 O 81.3 103.6 79.1 130.9 90.5 76.0 154.1 REMARK 620 N 1 2 3 4 5 6 7 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 403 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 301 OE1 REMARK 620 2 ASP A 330 OD2 115.8 REMARK 620 3 ASP A 330 OD1 73.5 52.0 REMARK 620 4 HOH A 503 O 83.2 81.1 104.9 REMARK 620 5 HOH A 517 O 74.7 140.7 102.5 137.9 REMARK 620 6 HOH A 545 O 97.7 136.7 170.8 76.2 72.0 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 401 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 321 OE1 REMARK 620 2 ASN A 323 OD1 75.3 REMARK 620 3 GLU A 329 OE1 144.2 75.5 REMARK 620 4 ASN A 341 OD1 67.7 141.2 143.2 REMARK 620 5 ASP A 342 OD1 72.6 87.5 85.9 92.2 REMARK 620 6 ASP A 342 O 125.3 140.6 70.4 74.3 71.2 REMARK 620 7 HOH A 501 O 73.9 74.3 116.9 84.4 144.9 139.5 REMARK 620 8 HOH A 510 O 135.5 119.6 77.9 81.9 142.7 71.8 71.5 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 402 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 297 OD2 REMARK 620 2 ASP B 297 OD1 50.8 REMARK 620 3 GLU B 301 OE2 71.8 121.7 REMARK 620 4 GLU B 301 OE1 77.1 101.1 51.5 REMARK 620 5 ASP B 324 OD1 150.3 157.5 78.5 83.8 REMARK 620 6 GLU B 329 O 132.6 90.7 143.2 145.3 74.1 REMARK 620 7 ASP B 330 OD1 107.3 70.8 126.8 75.9 89.5 77.5 REMARK 620 8 HOH B 502 O 83.8 99.5 81.3 132.5 92.9 76.0 151.6 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 403 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B 301 OE1 REMARK 620 2 ASP B 330 OD2 120.9 REMARK 620 3 ASP B 330 OD1 75.2 51.5 REMARK 620 4 HOH B 501 O 80.6 105.6 75.9 REMARK 620 5 HOH B 509 O 90.1 85.4 108.9 168.2 REMARK 620 6 HOH B 554 O 165.3 73.7 117.1 94.2 93.0 REMARK 620 7 HOH B 596 O 85.3 153.4 152.3 81.7 90.4 80.3 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B 401 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B 321 OE1 REMARK 620 2 ASN B 323 OD1 74.6 REMARK 620 3 GLU B 329 OE1 145.3 75.0 REMARK 620 4 ASN B 341 OD1 67.2 138.7 146.0 REMARK 620 5 ASP B 342 OD1 73.0 85.4 88.4 97.6 REMARK 620 6 ASP B 342 O 126.7 141.7 72.4 77.1 74.1 REMARK 620 7 GMH D 1 O6 74.7 77.4 114.1 77.9 146.4 134.9 REMARK 620 8 GMH D 1 O7 132.0 121.0 78.9 77.3 145.4 71.4 66.8 REMARK 620 N 1 2 3 4 5 6 7 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA C 402 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP C 297 OD2 REMARK 620 2 ASP C 297 OD1 50.0 REMARK 620 3 GLU C 301 OE2 73.2 122.2 REMARK 620 4 GLU C 301 OE1 79.0 100.6 53.0 REMARK 620 5 ASP C 324 OD1 151.3 157.2 78.1 83.0 REMARK 620 6 GLU C 329 O 129.8 88.3 145.3 144.0 76.5 REMARK 620 7 ASP C 330 OD1 106.6 71.0 125.1 72.8 88.9 77.5 REMARK 620 8 HOH C 504 O 84.1 100.6 81.0 133.7 92.6 77.1 153.5 REMARK 620 N 1 2 3 4 5 6 7 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA C 403 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU C 301 OE1 REMARK 620 2 ASP C 330 OD2 120.1 REMARK 620 3 ASP C 330 OD1 73.4 52.2 REMARK 620 4 HOH C 501 O 83.8 101.6 74.5 REMARK 620 5 HOH C 507 O 87.9 151.5 153.6 85.2 REMARK 620 6 HOH C 508 O 161.8 77.7 124.4 96.8 74.1 REMARK 620 7 HOH C 524 O 88.0 86.5 107.5 170.6 89.9 89.6 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA C 401 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU C 321 OE1 REMARK 620 2 ASN C 323 OD1 73.5 REMARK 620 3 GLU C 329 OE1 149.0 79.3 REMARK 620 4 ASN C 341 OD1 66.3 137.1 143.3 REMARK 620 5 ASP C 342 OD1 73.7 85.8 89.8 96.7 REMARK 620 6 ASP C 342 O 127.1 141.3 69.1 78.5 72.7 REMARK 620 7 GMH E 1 O6 75.4 78.0 113.4 77.9 148.1 134.7 REMARK 620 8 GMH E 1 O7 133.8 122.5 74.1 79.2 142.6 70.1 67.9 REMARK 620 N 1 2 3 4 5 6 7 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1PW9 RELATED DB: PDB REMARK 900 NATIVE TRIMERIC LUNG SURFACTANT PROTEIN D REMARK 900 RELATED ID: 1PWB RELATED DB: PDB REMARK 900 MALTOSE BOUND TRIMERIC LUNG SURFACTANT PROTEIN D REMARK 900 RELATED ID: 3IKN RELATED DB: PDB REMARK 900 GALACTOSE BOUND TRIMERIC LUNG SURFACTANT PROTEIN D REMARK 900 RELATED ID: 3IKP RELATED DB: PDB REMARK 900 INOSITOL PHOSPHATE BOUND TRIMERIC LUNG SURFACTANT PROTEIN D REMARK 900 RELATED ID: 3IKQ RELATED DB: PDB REMARK 900 ALPHA1-2 MANNOBIOSE BOUND TRIMERIC LUNG SURFACTANT PROTEIN D REMARK 900 RELATED ID: 3IKR RELATED DB: PDB REMARK 900 ALPHA1-4 MANNOBIOSE BOUND TRIMERIC LUNG SURFACTANT PROTEIN D DBREF 4E52 A 181 355 UNP P35247 SFTPD_HUMAN 201 375 DBREF 4E52 B 181 355 UNP P35247 SFTPD_HUMAN 201 375 DBREF 4E52 C 181 355 UNP P35247 SFTPD_HUMAN 201 375 SEQADV 4E52 GLY A 179 UNP P35247 EXPRESSION TAG SEQADV 4E52 SER A 180 UNP P35247 EXPRESSION TAG SEQADV 4E52 GLY B 179 UNP P35247 EXPRESSION TAG SEQADV 4E52 SER B 180 UNP P35247 EXPRESSION TAG SEQADV 4E52 GLY C 179 UNP P35247 EXPRESSION TAG SEQADV 4E52 SER C 180 UNP P35247 EXPRESSION TAG SEQRES 1 A 177 GLY SER PRO GLY LEU LYS GLY ASP LYS GLY ILE PRO GLY SEQRES 2 A 177 ASP LYS GLY ALA LYS GLY GLU SER GLY LEU PRO ASP VAL SEQRES 3 A 177 ALA SER LEU ARG GLN GLN VAL GLU ALA LEU GLN GLY GLN SEQRES 4 A 177 VAL GLN HIS LEU GLN ALA ALA PHE SER GLN TYR LYS LYS SEQRES 5 A 177 VAL GLU LEU PHE PRO ASN GLY GLN SER VAL GLY GLU LYS SEQRES 6 A 177 ILE PHE LYS THR ALA GLY PHE VAL LYS PRO PHE THR GLU SEQRES 7 A 177 ALA GLN LEU LEU CYS THR GLN ALA GLY GLY GLN LEU ALA SEQRES 8 A 177 SER PRO ARG SER ALA ALA GLU ASN ALA ALA LEU GLN GLN SEQRES 9 A 177 LEU VAL VAL ALA LYS ASN GLU ALA ALA PHE LEU SER MET SEQRES 10 A 177 THR ASP SER LYS THR GLU GLY LYS PHE THR TYR PRO THR SEQRES 11 A 177 GLY GLU SER LEU VAL TYR SER ASN TRP ALA PRO GLY GLU SEQRES 12 A 177 PRO ASN ASP ASP GLY GLY SER GLU ASP CYS VAL GLU ILE SEQRES 13 A 177 PHE THR ASN GLY LYS TRP ASN ASP ARG ALA CYS GLY GLU SEQRES 14 A 177 LYS ARG LEU VAL VAL CYS GLU PHE SEQRES 1 B 177 GLY SER PRO GLY LEU LYS GLY ASP LYS GLY ILE PRO GLY SEQRES 2 B 177 ASP LYS GLY ALA LYS GLY GLU SER GLY LEU PRO ASP VAL SEQRES 3 B 177 ALA SER LEU ARG GLN GLN VAL GLU ALA LEU GLN GLY GLN SEQRES 4 B 177 VAL GLN HIS LEU GLN ALA ALA PHE SER GLN TYR LYS LYS SEQRES 5 B 177 VAL GLU LEU PHE PRO ASN GLY GLN SER VAL GLY GLU LYS SEQRES 6 B 177 ILE PHE LYS THR ALA GLY PHE VAL LYS PRO PHE THR GLU SEQRES 7 B 177 ALA GLN LEU LEU CYS THR GLN ALA GLY GLY GLN LEU ALA SEQRES 8 B 177 SER PRO ARG SER ALA ALA GLU ASN ALA ALA LEU GLN GLN SEQRES 9 B 177 LEU VAL VAL ALA LYS ASN GLU ALA ALA PHE LEU SER MET SEQRES 10 B 177 THR ASP SER LYS THR GLU GLY LYS PHE THR TYR PRO THR SEQRES 11 B 177 GLY GLU SER LEU VAL TYR SER ASN TRP ALA PRO GLY GLU SEQRES 12 B 177 PRO ASN ASP ASP GLY GLY SER GLU ASP CYS VAL GLU ILE SEQRES 13 B 177 PHE THR ASN GLY LYS TRP ASN ASP ARG ALA CYS GLY GLU SEQRES 14 B 177 LYS ARG LEU VAL VAL CYS GLU PHE SEQRES 1 C 177 GLY SER PRO GLY LEU LYS GLY ASP LYS GLY ILE PRO GLY SEQRES 2 C 177 ASP LYS GLY ALA LYS GLY GLU SER GLY LEU PRO ASP VAL SEQRES 3 C 177 ALA SER LEU ARG GLN GLN VAL GLU ALA LEU GLN GLY GLN SEQRES 4 C 177 VAL GLN HIS LEU GLN ALA ALA PHE SER GLN TYR LYS LYS SEQRES 5 C 177 VAL GLU LEU PHE PRO ASN GLY GLN SER VAL GLY GLU LYS SEQRES 6 C 177 ILE PHE LYS THR ALA GLY PHE VAL LYS PRO PHE THR GLU SEQRES 7 C 177 ALA GLN LEU LEU CYS THR GLN ALA GLY GLY GLN LEU ALA SEQRES 8 C 177 SER PRO ARG SER ALA ALA GLU ASN ALA ALA LEU GLN GLN SEQRES 9 C 177 LEU VAL VAL ALA LYS ASN GLU ALA ALA PHE LEU SER MET SEQRES 10 C 177 THR ASP SER LYS THR GLU GLY LYS PHE THR TYR PRO THR SEQRES 11 C 177 GLY GLU SER LEU VAL TYR SER ASN TRP ALA PRO GLY GLU SEQRES 12 C 177 PRO ASN ASP ASP GLY GLY SER GLU ASP CYS VAL GLU ILE SEQRES 13 C 177 PHE THR ASN GLY LYS TRP ASN ASP ARG ALA CYS GLY GLU SEQRES 14 C 177 LYS ARG LEU VAL VAL CYS GLU PHE HET GMH D 1 14 HET KD5 D 2 8 HET GMH E 1 14 HET KD5 E 2 8 HET CA A 401 1 HET CA A 402 1 HET CA A 403 1 HET CA B 401 1 HET CA B 402 1 HET CA B 403 1 HET CA C 401 1 HET CA C 402 1 HET CA C 403 1 HETNAM GMH L-GLYCERO-ALPHA-D-MANNO-HEPTOPYRANOSE HETNAM KD5 4,7-ANHYDRO-3-DEOXY-D-MANNO-OCT-2-ULOSONIC ACID HETNAM CA CALCIUM ION HETSYN GMH L-GLYCERO-ALPHA-D-MANNO-HEPTOSE; L-GLYCERO-D-MANNO- HETSYN 2 GMH HEPTOSE; L-GLYCERO-MANNO-HEPTOSE; L-GLYCERO-D-MANNO- HETSYN 3 GMH HEPTOPYRANOSE FORMUL 4 GMH 2(C7 H14 O7) FORMUL 4 KD5 2(C8 H12 O7) FORMUL 6 CA 9(CA 2+) FORMUL 15 HOH *531(H2 O) HELIX 1 1 VAL A 204 PHE A 234 1 31 HELIX 2 2 PHE A 254 ALA A 264 1 11 HELIX 3 3 SER A 273 ASN A 288 1 16 HELIX 4 4 ASP A 324 SER A 328 5 5 HELIX 5 5 ALA B 205 PHE B 234 1 30 HELIX 6 6 PHE B 254 ALA B 264 1 11 HELIX 7 7 SER B 273 ASN B 288 1 16 HELIX 8 8 ASP B 324 SER B 328 5 5 HELIX 9 9 ALA C 205 PHE C 234 1 30 HELIX 10 10 PHE C 254 ALA C 264 1 11 HELIX 11 11 SER C 273 ASN C 288 1 16 HELIX 12 12 ASP C 324 SER C 328 5 5 SHEET 1 A 4 GLY A 237 VAL A 240 0 SHEET 2 A 4 LYS A 243 PRO A 253 -1 O PHE A 245 N GLN A 238 SHEET 3 A 4 LYS A 348 PHE A 355 -1 O CYS A 353 N LYS A 246 SHEET 4 A 4 GLN A 267 LEU A 268 -1 N GLN A 267 O GLU A 354 SHEET 1 B 3 ALA A 291 PHE A 292 0 SHEET 2 B 3 CYS A 331 ILE A 334 -1 O ILE A 334 N ALA A 291 SHEET 3 B 3 TRP A 340 ARG A 343 -1 O ASN A 341 N GLU A 333 SHEET 1 C 4 GLY B 237 VAL B 240 0 SHEET 2 C 4 LYS B 243 PRO B 253 -1 O PHE B 245 N GLN B 238 SHEET 3 C 4 LYS B 348 PHE B 355 -1 O PHE B 355 N ILE B 244 SHEET 4 C 4 GLN B 267 LEU B 268 -1 N GLN B 267 O GLU B 354 SHEET 1 D 3 ALA B 291 THR B 296 0 SHEET 2 D 3 CYS B 331 ILE B 334 -1 O VAL B 332 N LEU B 293 SHEET 3 D 3 TRP B 340 ARG B 343 -1 O ASN B 341 N GLU B 333 SHEET 1 E 4 GLY C 237 VAL C 240 0 SHEET 2 E 4 LYS C 243 PRO C 253 -1 O PHE C 245 N GLN C 238 SHEET 3 E 4 LYS C 348 PHE C 355 -1 O CYS C 353 N LYS C 246 SHEET 4 E 4 GLN C 267 LEU C 268 -1 N GLN C 267 O GLU C 354 SHEET 1 F 3 ALA C 291 PHE C 292 0 SHEET 2 F 3 CYS C 331 ILE C 334 -1 O ILE C 334 N ALA C 291 SHEET 3 F 3 TRP C 340 ARG C 343 -1 O ASN C 341 N GLU C 333 SHEET 1 G 2 THR C 296 THR C 300 0 SHEET 2 G 2 LYS C 303 THR C 305 -1 O THR C 305 N THR C 296 SSBOND 1 CYS A 261 CYS A 353 1555 1555 2.03 SSBOND 2 CYS A 331 CYS A 345 1555 1555 2.03 SSBOND 3 CYS B 261 CYS B 353 1555 1555 2.03 SSBOND 4 CYS B 331 CYS B 345 1555 1555 2.03 SSBOND 5 CYS C 261 CYS C 353 1555 1555 2.03 SSBOND 6 CYS C 331 CYS C 345 1555 1555 2.03 LINK O1 GMH D 1 C5 KD5 D 2 1555 1555 1.38 LINK O1 GMH E 1 C5 KD5 E 2 1555 1555 1.38 LINK OD2 ASP A 297 CA CA A 402 1555 1555 2.41 LINK OD1 ASP A 297 CA CA A 402 1555 1555 2.67 LINK OE2 GLU A 301 CA CA A 402 1555 1555 2.48 LINK OE1 GLU A 301 CA CA A 402 1555 1555 2.51 LINK OE1 GLU A 301 CA CA A 403 1555 1555 2.36 LINK OE1 GLU A 321 CA CA A 401 1555 1555 2.51 LINK OD1 ASN A 323 CA CA A 401 1555 1555 2.40 LINK OD1 ASP A 324 CA CA A 402 1555 1555 2.45 LINK OE1 GLU A 329 CA CA A 401 1555 1555 2.47 LINK O GLU A 329 CA CA A 402 1555 1555 2.47 LINK OD1 ASP A 330 CA CA A 402 1555 1555 2.35 LINK OD2 ASP A 330 CA CA A 403 1555 1555 2.42 LINK OD1 ASP A 330 CA CA A 403 1555 1555 2.57 LINK OD1 ASN A 341 CA CA A 401 1555 1555 2.38 LINK OD1 ASP A 342 CA CA A 401 1555 1555 2.34 LINK O ASP A 342 CA CA A 401 1555 1555 2.66 LINK CA CA A 401 O HOH A 501 1555 1555 2.49 LINK CA CA A 401 O HOH A 510 1555 1555 2.49 LINK CA CA A 402 O HOH A 502 1555 1555 2.49 LINK CA CA A 403 O HOH A 503 1555 1555 2.41 LINK CA CA A 403 O HOH A 517 1555 1555 2.42 LINK CA CA A 403 O HOH A 545 1555 1555 2.38 LINK OD2 ASP B 297 CA CA B 402 1555 1555 2.46 LINK OD1 ASP B 297 CA CA B 402 1555 1555 2.64 LINK OE2 GLU B 301 CA CA B 402 1555 1555 2.52 LINK OE1 GLU B 301 CA CA B 402 1555 1555 2.54 LINK OE1 GLU B 301 CA CA B 403 1555 1555 2.38 LINK OE1 GLU B 321 CA CA B 401 1555 1555 2.57 LINK OD1 ASN B 323 CA CA B 401 1555 1555 2.42 LINK OD1 ASP B 324 CA CA B 402 1555 1555 2.59 LINK OE1 GLU B 329 CA CA B 401 1555 1555 2.44 LINK O GLU B 329 CA CA B 402 1555 1555 2.44 LINK OD1 ASP B 330 CA CA B 402 1555 1555 2.37 LINK OD2 ASP B 330 CA CA B 403 1555 1555 2.49 LINK OD1 ASP B 330 CA CA B 403 1555 1555 2.57 LINK OD1 ASN B 341 CA CA B 401 1555 1555 2.40 LINK OD1 ASP B 342 CA CA B 401 1555 1555 2.27 LINK O ASP B 342 CA CA B 401 1555 1555 2.56 LINK CA CA B 401 O6 GMH D 1 1555 1555 2.42 LINK CA CA B 401 O7 GMH D 1 1555 1555 2.58 LINK CA CA B 402 O HOH B 502 1555 1555 2.35 LINK CA CA B 403 O HOH B 501 1555 1555 2.35 LINK CA CA B 403 O HOH B 509 1555 1555 2.26 LINK CA CA B 403 O HOH B 554 1555 1555 2.42 LINK CA CA B 403 O HOH B 596 1555 1555 2.41 LINK OD2 ASP C 297 CA CA C 402 1555 1555 2.44 LINK OD1 ASP C 297 CA CA C 402 1555 1555 2.72 LINK OE2 GLU C 301 CA CA C 402 1555 1555 2.43 LINK OE1 GLU C 301 CA CA C 402 1555 1555 2.48 LINK OE1 GLU C 301 CA CA C 403 1555 1555 2.31 LINK OE1 GLU C 321 CA CA C 401 1555 1555 2.55 LINK OD1 ASN C 323 CA CA C 401 1555 1555 2.37 LINK OD1 ASP C 324 CA CA C 402 1555 1555 2.65 LINK OE1 GLU C 329 CA CA C 401 1555 1555 2.31 LINK O GLU C 329 CA CA C 402 1555 1555 2.46 LINK OD1 ASP C 330 CA CA C 402 1555 1555 2.40 LINK OD2 ASP C 330 CA CA C 403 1555 1555 2.46 LINK OD1 ASP C 330 CA CA C 403 1555 1555 2.52 LINK OD1 ASN C 341 CA CA C 401 1555 1555 2.42 LINK OD1 ASP C 342 CA CA C 401 1555 1555 2.25 LINK O ASP C 342 CA CA C 401 1555 1555 2.59 LINK CA CA C 401 O6 GMH E 1 1555 1555 2.44 LINK CA CA C 401 O7 GMH E 1 1555 1555 2.53 LINK CA CA C 402 O HOH C 504 1555 1555 2.30 LINK CA CA C 403 O HOH C 501 1555 1555 2.43 LINK CA CA C 403 O HOH C 507 1555 1555 2.41 LINK CA CA C 403 O HOH C 508 1555 1555 2.46 LINK CA CA C 403 O HOH C 524 1555 1555 2.39 CISPEP 1 PHE A 234 PRO A 235 0 0.73 CISPEP 2 GLU A 321 PRO A 322 0 -0.42 CISPEP 3 PHE B 234 PRO B 235 0 0.72 CISPEP 4 GLU B 321 PRO B 322 0 -0.54 CISPEP 5 PHE C 234 PRO C 235 0 0.40 CISPEP 6 GLU C 321 PRO C 322 0 -0.88 CRYST1 55.350 107.990 55.650 90.00 92.14 90.00 P 1 21 1 6 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 0.018067 0.000000 0.000675 0.00000 SCALE2 0.000000 0.009260 0.000000 0.00000 SCALE3 0.000000 0.000000 0.017982 0.00000