HEADER SUGAR BINDING PROTEIN 18-NOV-98 1B08 TITLE LUNG SURFACTANT PROTEIN D (SP-D) (FRAGMENT) COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROTEIN (LUNG SURFACTANT PROTEIN D); COMPND 3 CHAIN: A, B, C; COMPND 4 FRAGMENT: TRIMERIC FRAGMENT CONSISTING OF LECTIN DOMAINS AND ALPHA- COMPND 5 HELICAL COILED-COIL; 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 ORGAN: LUNG; SOURCE 6 TISSUE: PULMONARY SURFACTANT; SOURCE 7 CELLULAR_LOCATION: EXTRA-CELLULAR; SOURCE 8 EXPRESSION_SYSTEM: PICHIA PASTORIS; SOURCE 9 EXPRESSION_SYSTEM_TAXID: 4922; SOURCE 10 EXPRESSION_SYSTEM_STRAIN: GS115; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: PPIC9K KEYWDS C-TYPE LECTIN, CRD, SP-D, COLECTIN, ALPHA-HELICAL COILED-COIL, LUNG KEYWDS 2 SURFACTANT, SUGAR BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR K.HAKANSSON,N.K.LIM,H.-J.HOPPE,K.B.M.REID REVDAT 5 09-AUG-23 1B08 1 REMARK SEQADV LINK REVDAT 4 13-JUL-11 1B08 1 VERSN REVDAT 3 24-FEB-09 1B08 1 VERSN REVDAT 2 01-APR-03 1B08 1 JRNL REVDAT 1 01-DEC-99 1B08 0 JRNL AUTH K.HAKANSSON,N.K.LIM,H.J.HOPPE,K.B.REID JRNL TITL CRYSTAL STRUCTURE OF THE TRIMERIC ALPHA-HELICAL COILED-COIL JRNL TITL 2 AND THE THREE LECTIN DOMAINS OF HUMAN LUNG SURFACTANT JRNL TITL 3 PROTEIN D. JRNL REF STRUCTURE FOLD.DES. V. 7 255 1999 JRNL REFN ISSN 0969-2126 JRNL PMID 10368295 JRNL DOI 10.1016/S0969-2126(99)80036-7 REMARK 2 REMARK 2 RESOLUTION. 2.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 95.0 REMARK 3 NUMBER OF REFLECTIONS : 28550 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) : 0.209 REMARK 3 FREE R VALUE : 0.271 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : NULL 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 : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL 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 : 3450 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 9 REMARK 3 SOLVENT ATOMS : 192 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 40.30 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 28.60 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 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) : 0.010 REMARK 3 BOND ANGLES (DEGREES) : 2.500 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 24.20 REMARK 3 IMPROPER ANGLES (DEGREES) : 1.900 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) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL 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 : PARAM19.PRO REMARK 3 PARAMETER FILE 2 : PARAM19.SOL REMARK 3 PARAMETER FILE 3 : NULL REMARK 3 TOPOLOGY FILE 1 : TOPH19X.PRO REMARK 3 TOPOLOGY FILE 2 : TOPH19.SOL REMARK 3 TOPOLOGY FILE 3 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1B08 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 01-NOV-99. REMARK 100 THE DEPOSITION ID IS D_1000000104. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-FEB-98 REMARK 200 TEMPERATURE (KELVIN) : 298.00 REMARK 200 PH : 7.00 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.54 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 28571 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 95.0 REMARK 200 DATA REDUNDANCY : 2.450 REMARK 200 R MERGE (I) : 0.06300 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 10.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.38 REMARK 200 COMPLETENESS FOR SHELL (%) : 90.6 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.29000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 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: AMORE VERSION FOR CCP4 REMARK 200 STARTING MODEL: 1HUP REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 63.41 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.40 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: AN EQUAL AMOUNT OF PROTEIN SOLUTION (8 REMARK 280 MG/ML PROTEIN IN 10 MM TRIS 140 MM NACL 1MM CACL2 0.02% (W/V) REMARK 280 NAN3 PH 7.5) AND PRECIPITANT BUFFER (10-20% (W/V) PEG 20000 IN REMARK 280 100 MM TRIS PH 6-8) WERE MIXED AND VAPOR EQUILIBRATED AGAINST REMARK 280 THE LATTER., PH 7.00 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 54.86000 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,PQS REMARK 350 TOTAL BURIED SURFACE AREA: 6840 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 20590 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -148.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, 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 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 GLU A 198 REMARK 465 ALA A 199 REMARK 465 GLU A 200 REMARK 465 ALA A 201 REMARK 465 GLY A 202 REMARK 465 SER A 203 REMARK 465 GLU B 1198 REMARK 465 ALA B 1199 REMARK 465 GLU B 1200 REMARK 465 ALA B 1201 REMARK 465 GLY B 1202 REMARK 465 SER B 1203 REMARK 465 VAL B 1204 REMARK 465 GLU C 2198 REMARK 465 ALA C 2199 REMARK 465 GLU C 2200 REMARK 465 ALA C 2201 REMARK 465 GLY C 2202 REMARK 465 SER C 2203 REMARK 465 VAL C 2204 REMARK 465 ALA C 2205 REMARK 465 SER C 2206 REMARK 465 LEU C 2207 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 HIS A 220 NE2 HIS A 220 CD2 -0.067 REMARK 500 HIS C2220 NE2 HIS C2220 CD2 -0.069 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 208 NE - CZ - NH2 ANGL. DEV. = -3.0 DEGREES REMARK 500 TRP A 317 CD1 - CG - CD2 ANGL. DEV. = 6.4 DEGREES REMARK 500 TRP A 317 CE2 - CD2 - CG ANGL. DEV. = -6.2 DEGREES REMARK 500 TRP A 340 CD1 - CG - CD2 ANGL. DEV. = 6.2 DEGREES REMARK 500 TRP A 340 CE2 - CD2 - CG ANGL. DEV. = -5.6 DEGREES REMARK 500 ARG A 349 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 VAL B1251 N - CA - CB ANGL. DEV. = -13.2 DEGREES REMARK 500 MET B1295 CG - SD - CE ANGL. DEV. = -13.2 DEGREES REMARK 500 TRP B1317 CD1 - CG - CD2 ANGL. DEV. = 6.5 DEGREES REMARK 500 TRP B1317 CE2 - CD2 - CG ANGL. DEV. = -6.2 DEGREES REMARK 500 TRP B1340 CD1 - CG - CD2 ANGL. DEV. = 6.3 DEGREES REMARK 500 TRP B1340 CE2 - CD2 - CG ANGL. DEV. = -5.3 DEGREES REMARK 500 TYR C2306 CB - CG - CD2 ANGL. DEV. = -3.6 DEGREES REMARK 500 TRP C2317 CD1 - CG - CD2 ANGL. DEV. = 6.5 DEGREES REMARK 500 TRP C2317 CB - CG - CD1 ANGL. DEV. = -8.2 DEGREES REMARK 500 TRP C2317 CE2 - CD2 - CG ANGL. DEV. = -6.7 DEGREES REMARK 500 TRP C2317 CG - CD2 - CE3 ANGL. DEV. = 6.1 DEGREES REMARK 500 TRP C2340 CD1 - CG - CD2 ANGL. DEV. = 6.4 DEGREES REMARK 500 TRP C2340 CE2 - CD2 - CG ANGL. DEV. = -5.5 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 ALA A 205 -13.56 -34.68 REMARK 500 SER A 328 40.45 -159.82 REMARK 500 GLU C2301 104.92 -55.69 REMARK 500 ASN C2316 52.68 -144.97 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 1 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 16 O REMARK 620 2 HOH A 79 O 59.6 REMARK 620 3 GLU A 321 OE1 76.7 130.9 REMARK 620 4 ASN A 323 OD1 81.2 114.0 77.1 REMARK 620 5 GLU A 329 OE1 114.2 72.3 153.0 80.3 REMARK 620 6 ASN A 341 OD1 87.1 91.3 63.6 140.6 138.1 REMARK 620 7 ASP A 342 O 134.6 82.2 120.3 140.8 70.9 68.9 REMARK 620 8 ASP A 342 OD1 145.3 154.7 70.1 81.8 92.3 87.2 73.6 REMARK 620 N 1 2 3 4 5 6 7 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 2 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 70 O REMARK 620 2 ASP A 297 OD1 107.1 REMARK 620 3 ASP A 297 OD2 77.6 47.5 REMARK 620 4 GLU A 301 OE1 129.1 95.1 85.8 REMARK 620 5 GLU A 301 OE2 81.2 114.3 73.7 48.0 REMARK 620 6 ASP A 324 OD1 98.4 153.6 149.4 73.2 75.7 REMARK 620 7 GLU A 329 O 76.6 91.0 119.3 149.5 150.4 88.4 REMARK 620 8 ASP A 330 OD1 155.9 65.1 107.3 74.9 122.9 88.8 80.7 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 3 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 66 O REMARK 620 2 HOH A 174 O 65.0 REMARK 620 3 GLU A 301 OE1 93.0 157.7 REMARK 620 4 ASP A 330 OD1 84.3 93.2 80.8 REMARK 620 5 ASP A 330 OD2 95.4 61.4 121.2 42.7 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B 4 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B1321 OE1 REMARK 620 2 ASN B1323 OD1 73.6 REMARK 620 3 GLU B1329 OE1 143.4 75.8 REMARK 620 4 ASN B1341 OD1 70.2 143.2 140.5 REMARK 620 5 ASP B1342 O 119.4 140.2 74.7 67.8 REMARK 620 6 ASP B1342 OD1 75.5 81.4 80.6 96.1 67.9 REMARK 620 7 HOH B1373 O 129.6 118.5 83.0 80.9 83.5 149.9 REMARK 620 8 HOH B1374 O 79.7 75.7 111.5 90.9 140.7 150.0 60.0 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 5 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B1297 OD1 REMARK 620 2 ASP B1297 OD2 46.0 REMARK 620 3 GLU B1301 OE1 102.9 78.7 REMARK 620 4 GLU B1301 OE2 115.5 70.6 45.5 REMARK 620 5 ASP B1324 OD1 162.1 149.0 78.5 78.5 REMARK 620 6 GLU B1329 O 89.9 128.8 147.1 150.2 80.4 REMARK 620 7 ASP B1330 OD1 72.8 105.2 78.1 123.5 90.2 77.0 REMARK 620 8 HOH B1358 O 100.1 85.3 128.1 82.6 92.6 77.6 153.6 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 6 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B1301 OE1 REMARK 620 2 ASP B1330 OD1 81.3 REMARK 620 3 ASP B1330 OD2 120.1 44.7 REMARK 620 4 HOH B1381 O 71.5 68.8 102.3 REMARK 620 5 HOH B1382 O 107.9 103.3 71.0 172.1 REMARK 620 6 HOH B1388 O 73.7 139.6 164.1 73.3 114.3 REMARK 620 7 HOH B1421 O 156.8 98.0 71.0 86.5 94.9 93.3 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA C 7 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU C2321 OE1 REMARK 620 2 ASN C2323 OD1 65.9 REMARK 620 3 GLU C2329 OE1 134.9 79.2 REMARK 620 4 ASN C2341 OD1 68.0 133.9 136.5 REMARK 620 5 ASP C2342 O 117.9 135.9 69.5 67.1 REMARK 620 6 ASP C2342 OD1 69.8 79.4 76.6 82.7 63.9 REMARK 620 7 HOH C2373 O 83.8 72.7 113.0 105.0 148.2 147.7 REMARK 620 8 HOH C2375 O 130.5 122.5 91.9 89.9 89.6 153.4 58.9 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 8 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP C2297 OD1 REMARK 620 2 ASP C2297 OD2 48.6 REMARK 620 3 GLU C2301 OE1 103.2 85.3 REMARK 620 4 GLU C2301 OE2 122.2 76.8 47.7 REMARK 620 5 ASP C2324 OD1 156.7 153.2 78.8 76.6 REMARK 620 6 GLU C2329 O 93.0 130.1 140.9 142.9 73.0 REMARK 620 7 ASP C2330 OD1 69.7 107.1 73.6 121.1 89.0 79.2 REMARK 620 8 HOH C2365 O 105.7 83.5 129.0 81.3 89.8 78.0 156.5 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 9 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU C2301 OE1 REMARK 620 2 ASP C2330 OD1 73.6 REMARK 620 3 ASP C2330 OD2 118.1 46.9 REMARK 620 4 HOH C2374 O 70.4 78.5 106.4 REMARK 620 5 HOH C2402 O 78.2 98.2 92.9 148.2 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: CR1 REMARK 800 EVIDENCE_CODE: AUTHOR REMARK 800 SITE_DESCRIPTION: CARBOHYDRATE BINDING CALCIUM ION REMARK 800 REMARK 800 SITE_IDENTIFIER: CR2 REMARK 800 EVIDENCE_CODE: AUTHOR REMARK 800 SITE_DESCRIPTION: CARBOHYDRATE BINDING CALCIUM ION REMARK 800 REMARK 800 SITE_IDENTIFIER: CR3 REMARK 800 EVIDENCE_CODE: AUTHOR REMARK 800 SITE_DESCRIPTION: CARBOHYDRATE BINDING CALCIUM ION REMARK 800 REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 1 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 2 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 3 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA B 4 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA B 5 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA B 6 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA C 7 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA C 8 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA C 9 DBREF 1B08 A 198 355 UNP P35247 SFTPD_HUMAN 218 375 DBREF 1B08 B 1298 1355 UNP P35247 SFTPD_HUMAN 218 375 DBREF 1B08 C 2298 2355 UNP P35247 SFTPD_HUMAN 218 375 SEQADV 1B08 ALA A 199 UNP P35247 SER CONFLICT SEQADV 1B08 GLU A 200 UNP P35247 GLY CONFLICT SEQADV 1B08 ALA A 201 UNP P35247 LEU CONFLICT SEQADV 1B08 GLY A 202 UNP P35247 PRO CONFLICT SEQADV 1B08 SER A 203 UNP P35247 GLU CONFLICT SEQADV 1B08 ALA B 1199 UNP P35247 SER CONFLICT SEQADV 1B08 GLU B 1200 UNP P35247 GLY CONFLICT SEQADV 1B08 ALA B 1201 UNP P35247 LEU CONFLICT SEQADV 1B08 GLY B 1202 UNP P35247 PRO CONFLICT SEQADV 1B08 SER B 1203 UNP P35247 GLU CONFLICT SEQADV 1B08 ALA C 2199 UNP P35247 SER CONFLICT SEQADV 1B08 GLU C 2200 UNP P35247 GLY CONFLICT SEQADV 1B08 ALA C 2201 UNP P35247 LEU CONFLICT SEQADV 1B08 GLY C 2202 UNP P35247 PRO CONFLICT SEQADV 1B08 SER C 2203 UNP P35247 GLU CONFLICT SEQRES 1 A 158 GLU ALA GLU ALA GLY SER VAL ALA SER LEU ARG GLN GLN SEQRES 2 A 158 VAL GLU ALA LEU GLN GLY GLN VAL GLN HIS LEU GLN ALA SEQRES 3 A 158 ALA PHE SER GLN TYR LYS LYS VAL GLU LEU PHE PRO ASN SEQRES 4 A 158 GLY GLN SER VAL GLY GLU LYS ILE PHE LYS THR ALA GLY SEQRES 5 A 158 PHE VAL LYS PRO PHE THR GLU ALA GLN LEU LEU CYS THR SEQRES 6 A 158 GLN ALA GLY GLY GLN LEU ALA SER PRO ARG SER ALA ALA SEQRES 7 A 158 GLU ASN ALA ALA LEU GLN GLN LEU VAL VAL ALA LYS ASN SEQRES 8 A 158 GLU ALA ALA PHE LEU SER MET THR ASP SER LYS THR GLU SEQRES 9 A 158 GLY LYS PHE THR TYR PRO THR GLY GLU SER LEU VAL TYR SEQRES 10 A 158 SER ASN TRP ALA PRO GLY GLU PRO ASN ASP ASP GLY GLY SEQRES 11 A 158 SER GLU ASP CYS VAL GLU ILE PHE THR ASN GLY LYS TRP SEQRES 12 A 158 ASN ASP ARG ALA CYS GLY GLU LYS ARG LEU VAL VAL CYS SEQRES 13 A 158 GLU PHE SEQRES 1 B 158 GLU ALA GLU ALA GLY SER VAL ALA SER LEU ARG GLN GLN SEQRES 2 B 158 VAL GLU ALA LEU GLN GLY GLN VAL GLN HIS LEU GLN ALA SEQRES 3 B 158 ALA PHE SER GLN TYR LYS LYS VAL GLU LEU PHE PRO ASN SEQRES 4 B 158 GLY GLN SER VAL GLY GLU LYS ILE PHE LYS THR ALA GLY SEQRES 5 B 158 PHE VAL LYS PRO PHE THR GLU ALA GLN LEU LEU CYS THR SEQRES 6 B 158 GLN ALA GLY GLY GLN LEU ALA SER PRO ARG SER ALA ALA SEQRES 7 B 158 GLU ASN ALA ALA LEU GLN GLN LEU VAL VAL ALA LYS ASN SEQRES 8 B 158 GLU ALA ALA PHE LEU SER MET THR ASP SER LYS THR GLU SEQRES 9 B 158 GLY LYS PHE THR TYR PRO THR GLY GLU SER LEU VAL TYR SEQRES 10 B 158 SER ASN TRP ALA PRO GLY GLU PRO ASN ASP ASP GLY GLY SEQRES 11 B 158 SER GLU ASP CYS VAL GLU ILE PHE THR ASN GLY LYS TRP SEQRES 12 B 158 ASN ASP ARG ALA CYS GLY GLU LYS ARG LEU VAL VAL CYS SEQRES 13 B 158 GLU PHE SEQRES 1 C 158 GLU ALA GLU ALA GLY SER VAL ALA SER LEU ARG GLN GLN SEQRES 2 C 158 VAL GLU ALA LEU GLN GLY GLN VAL GLN HIS LEU GLN ALA SEQRES 3 C 158 ALA PHE SER GLN TYR LYS LYS VAL GLU LEU PHE PRO ASN SEQRES 4 C 158 GLY GLN SER VAL GLY GLU LYS ILE PHE LYS THR ALA GLY SEQRES 5 C 158 PHE VAL LYS PRO PHE THR GLU ALA GLN LEU LEU CYS THR SEQRES 6 C 158 GLN ALA GLY GLY GLN LEU ALA SER PRO ARG SER ALA ALA SEQRES 7 C 158 GLU ASN ALA ALA LEU GLN GLN LEU VAL VAL ALA LYS ASN SEQRES 8 C 158 GLU ALA ALA PHE LEU SER MET THR ASP SER LYS THR GLU SEQRES 9 C 158 GLY LYS PHE THR TYR PRO THR GLY GLU SER LEU VAL TYR SEQRES 10 C 158 SER ASN TRP ALA PRO GLY GLU PRO ASN ASP ASP GLY GLY SEQRES 11 C 158 SER GLU ASP CYS VAL GLU ILE PHE THR ASN GLY LYS TRP SEQRES 12 C 158 ASN ASP ARG ALA CYS GLY GLU LYS ARG LEU VAL VAL CYS SEQRES 13 C 158 GLU PHE HET CA A 1 1 HET CA A 2 1 HET CA A 3 1 HET CA B 4 1 HET CA B 5 1 HET CA B 6 1 HET CA C 7 1 HET CA C 8 1 HET CA C 9 1 HETNAM CA CALCIUM ION FORMUL 4 CA 9(CA 2+) FORMUL 13 HOH *192(H2 O) HELIX 1 1 SER A 206 LEU A 233 1 28 HELIX 2 2 PHE A 254 GLN A 263 1 10 HELIX 3 3 ALA A 274 LYS A 287 1 14 HELIX 4 4 ASP A 325 GLY A 327 5 3 HELIX 5 5 LEU B 1207 LEU B 1233 1 27 HELIX 6 6 PHE B 1254 GLN B 1263 1 10 HELIX 7 7 ALA B 1274 LYS B 1287 1 14 HELIX 8 8 ASP B 1325 GLY B 1327 5 3 HELIX 9 9 GLN C 2209 LEU C 2233 5 25 HELIX 10 10 PHE C 2254 GLN C 2263 1 10 HELIX 11 11 ALA C 2274 LYS C 2287 1 14 HELIX 12 12 ASP C 2325 GLY C 2327 5 3 SHEET 1 A 3 GLY A 237 VAL A 240 0 SHEET 2 A 3 LYS A 243 THR A 247 -1 N PHE A 245 O GLN A 238 SHEET 3 A 3 VAL A 352 PHE A 355 -1 N PHE A 355 O ILE A 244 SHEET 1 B 2 VAL A 251 PRO A 253 0 SHEET 2 B 2 LYS A 348 LEU A 350 -1 N ARG A 349 O LYS A 252 SHEET 1 C 2 CYS A 331 ILE A 334 0 SHEET 2 C 2 TRP A 340 ARG A 343 -1 N ARG A 343 O CYS A 331 SHEET 1 D 3 GLY B1237 VAL B1240 0 SHEET 2 D 3 LYS B1243 THR B1247 -1 N PHE B1245 O GLN B1238 SHEET 3 D 3 VAL B1352 PHE B1355 -1 N PHE B1355 O ILE B1244 SHEET 1 E 2 CYS B1331 ILE B1334 0 SHEET 2 E 2 TRP B1340 ARG B1343 -1 N ARG B1343 O CYS B1331 SHEET 1 F 3 GLY C2237 VAL C2240 0 SHEET 2 F 3 LYS C2243 THR C2247 -1 N PHE C2245 O GLN C2238 SHEET 3 F 3 VAL C2352 PHE C2355 -1 N PHE C2355 O ILE C2244 SHEET 1 G 2 CYS C2331 ILE C2334 0 SHEET 2 G 2 TRP C2340 ARG C2343 -1 N ARG C2343 O CYS C2331 SSBOND 1 CYS A 261 CYS A 353 1555 1555 2.01 SSBOND 2 CYS A 331 CYS A 345 1555 1555 1.99 SSBOND 3 CYS B 1261 CYS B 1353 1555 1555 2.00 SSBOND 4 CYS B 1331 CYS B 1345 1555 1555 2.02 SSBOND 5 CYS C 2261 CYS C 2353 1555 1555 2.02 SSBOND 6 CYS C 2331 CYS C 2345 1555 1555 2.02 LINK CA CA A 1 O HOH A 16 1555 1555 2.73 LINK CA CA A 1 O HOH A 79 1555 1555 2.73 LINK CA CA A 1 OE1 GLU A 321 1555 1555 2.53 LINK CA CA A 1 OD1 ASN A 323 1555 1555 2.61 LINK CA CA A 1 OE1 GLU A 329 1555 1555 2.51 LINK CA CA A 1 OD1 ASN A 341 1555 1555 2.58 LINK CA CA A 1 O ASP A 342 1555 1555 2.86 LINK CA CA A 1 OD1 ASP A 342 1555 1555 2.68 LINK CA CA A 2 O HOH A 70 1555 1555 2.59 LINK CA CA A 2 OD1 ASP A 297 1555 1555 2.69 LINK CA CA A 2 OD2 ASP A 297 1555 1555 2.62 LINK CA CA A 2 OE1 GLU A 301 1555 1555 2.64 LINK CA CA A 2 OE2 GLU A 301 1555 1555 2.62 LINK CA CA A 2 OD1 ASP A 324 1555 1555 2.68 LINK CA CA A 2 O GLU A 329 1555 1555 2.65 LINK CA CA A 2 OD1 ASP A 330 1555 1555 2.86 LINK CA CA A 3 O HOH A 66 1555 1555 2.57 LINK CA CA A 3 O HOH A 174 1555 1555 2.63 LINK CA CA A 3 OE1 GLU A 301 1555 1555 2.49 LINK CA CA A 3 OD1 ASP A 330 1555 1555 2.67 LINK CA CA A 3 OD2 ASP A 330 1555 1555 3.17 LINK CA CA B 4 OE1 GLU B1321 1555 1555 2.62 LINK CA CA B 4 OD1 ASN B1323 1555 1555 2.61 LINK CA CA B 4 OE1 GLU B1329 1555 1555 2.47 LINK CA CA B 4 OD1 ASN B1341 1555 1555 2.55 LINK CA CA B 4 O ASP B1342 1555 1555 2.79 LINK CA CA B 4 OD1 ASP B1342 1555 1555 2.43 LINK CA CA B 4 O HOH B1373 1555 1555 2.63 LINK CA CA B 4 O HOH B1374 1555 1555 2.67 LINK CA CA B 5 OD1 ASP B1297 1555 1555 2.80 LINK CA CA B 5 OD2 ASP B1297 1555 1555 2.70 LINK CA CA B 5 OE1 GLU B1301 1555 1555 2.71 LINK CA CA B 5 OE2 GLU B1301 1555 1555 2.83 LINK CA CA B 5 OD1 ASP B1324 1555 1555 2.78 LINK CA CA B 5 O GLU B1329 1555 1555 2.51 LINK CA CA B 5 OD1 ASP B1330 1555 1555 2.77 LINK CA CA B 5 O HOH B1358 1555 1555 2.55 LINK CA CA B 6 OE1 GLU B1301 1555 1555 2.57 LINK CA CA B 6 OD1 ASP B1330 1555 1555 2.73 LINK CA CA B 6 OD2 ASP B1330 1555 1555 2.93 LINK CA CA B 6 O HOH B1381 1555 1555 2.54 LINK CA CA B 6 O HOH B1382 1555 1555 2.52 LINK CA CA B 6 O HOH B1388 1555 1555 2.80 LINK CA CA B 6 O HOH B1421 1555 1555 2.71 LINK CA CA C 7 OE1 GLU C2321 1555 1555 2.63 LINK CA CA C 7 OD1 ASN C2323 1555 1555 2.48 LINK CA CA C 7 OE1 GLU C2329 1555 1555 2.58 LINK CA CA C 7 OD1 ASN C2341 1555 1555 2.52 LINK CA CA C 7 O ASP C2342 1555 1555 2.78 LINK CA CA C 7 OD1 ASP C2342 1555 1555 2.58 LINK CA CA C 7 O HOH C2373 1555 1555 2.87 LINK CA CA C 7 O HOH C2375 1555 1555 2.84 LINK CA CA C 8 OD1 ASP C2297 1555 1555 2.62 LINK CA CA C 8 OD2 ASP C2297 1555 1555 2.59 LINK CA CA C 8 OE1 GLU C2301 1555 1555 2.63 LINK CA CA C 8 OE2 GLU C2301 1555 1555 2.64 LINK CA CA C 8 OD1 ASP C2324 1555 1555 2.66 LINK CA CA C 8 O GLU C2329 1555 1555 2.50 LINK CA CA C 8 OD1 ASP C2330 1555 1555 2.66 LINK CA CA C 8 O HOH C2365 1555 1555 2.63 LINK CA CA C 9 OE1 GLU C2301 1555 1555 2.64 LINK CA CA C 9 OD1 ASP C2330 1555 1555 2.66 LINK CA CA C 9 OD2 ASP C2330 1555 1555 2.72 LINK CA CA C 9 O HOH C2374 1555 1555 2.55 LINK CA CA C 9 O HOH C2402 1555 1555 2.61 CISPEP 1 PHE A 234 PRO A 235 0 -0.39 CISPEP 2 GLU A 321 PRO A 322 0 -1.71 CISPEP 3 PHE B 1234 PRO B 1235 0 -10.28 CISPEP 4 GLU B 1321 PRO B 1322 0 -0.75 CISPEP 5 PHE C 2234 PRO C 2235 0 -4.34 CISPEP 6 GLU C 2321 PRO C 2322 0 -2.25 SITE 1 CR1 5 GLU A 321 ASN A 323 GLU A 329 ASN A 341 SITE 2 CR1 5 ASP A 342 SITE 1 CR2 5 GLU B1321 ASN B1323 GLU B1329 ASN B1341 SITE 2 CR2 5 ASP B1342 SITE 1 CR3 5 GLU C2321 ASN C2323 GLU C2329 ASN C2341 SITE 2 CR3 5 ASP C2342 SITE 1 AC1 7 HOH A 16 HOH A 79 GLU A 321 ASN A 323 SITE 2 AC1 7 GLU A 329 ASN A 341 ASP A 342 SITE 1 AC2 6 HOH A 70 ASP A 297 GLU A 301 ASP A 324 SITE 2 AC2 6 GLU A 329 ASP A 330 SITE 1 AC3 4 HOH A 66 HOH A 174 GLU A 301 ASP A 330 SITE 1 AC4 7 GLU B1321 ASN B1323 GLU B1329 ASN B1341 SITE 2 AC4 7 ASP B1342 HOH B1373 HOH B1374 SITE 1 AC5 6 ASP B1297 GLU B1301 ASP B1324 GLU B1329 SITE 2 AC5 6 ASP B1330 HOH B1358 SITE 1 AC6 6 GLU B1301 ASP B1330 HOH B1381 HOH B1382 SITE 2 AC6 6 HOH B1388 HOH B1421 SITE 1 AC7 7 GLU C2321 ASN C2323 GLU C2329 ASN C2341 SITE 2 AC7 7 ASP C2342 HOH C2373 HOH C2375 SITE 1 AC8 6 ASP C2297 GLU C2301 ASP C2324 GLU C2329 SITE 2 AC8 6 ASP C2330 HOH C2365 SITE 1 AC9 4 GLU C2301 ASP C2330 HOH C2374 HOH C2402 CRYST1 55.960 109.720 56.090 90.00 92.20 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 0.017870 0.000000 0.000686 0.00000 SCALE2 0.000000 0.009114 0.000000 0.00000 SCALE3 0.000000 0.000000 0.017842 0.00000