PDB Short entry for 2ORJ HEADER SUGAR BINDING PROTEIN 02-FEB-07 2ORJ TITLE CRYSTAL STRUCTURE OF THE TRIMERIC NECK AND CARBOHYDRATE RECOGNITION TITLE 2 DOMAIN OF HUMAN SURFACTANT PROTEIN D IN COMPLEX WITH N-ACETYL TITLE 3 MANNOSAMINE CAVEAT 2ORJ BM3 A 1 HAS WRONG CHIRALITY AT ATOM C1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: PULMONARY SURFACTANT-ASSOCIATED PROTEIN D; COMPND 3 CHAIN: A, B, C; COMPND 4 FRAGMENT: HEAD AND NECK DOMAIN; COMPND 5 SYNONYM: SP-D, PSP-D, 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, PSPD, SFTP4; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: ROSETTABLUE; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_VECTOR: PET30A(+) KEYWDS SURFACTANT PROTEIN CARBOHYDRATE RECOGNITION DOMAIN TRIMERIC, SUGAR KEYWDS 2 BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR J.F.HEAD REVDAT 4 30-AUG-23 2ORJ 1 HETSYN REVDAT 3 29-JUL-20 2ORJ 1 CAVEAT COMPND REMARK SEQADV REVDAT 3 2 1 HETNAM LINK SITE REVDAT 2 24-FEB-09 2ORJ 1 VERSN REVDAT 1 08-MAY-07 2ORJ 0 JRNL AUTH E.CROUCH,B.MCDONALD,K.SMITH,M.ROBERTS,T.MEALY,B.SEATON, JRNL AUTH 2 J.HEAD JRNL TITL CRITICAL ROLE OF ARG/LYS343 IN THE SPECIES-DEPENDENT JRNL TITL 2 RECOGNITION OF PHOSPHATIDYLINOSITOL BY PULMONARY SURFACTANT JRNL TITL 3 PROTEIN D. JRNL REF BIOCHEMISTRY V. 46 5160 2007 JRNL REFN ISSN 0006-2960 JRNL PMID 17417879 JRNL DOI 10.1021/BI700037X REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 26.47 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 96.5 REMARK 3 NUMBER OF REFLECTIONS : 54297 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) : 0.181 REMARK 3 R VALUE (WORKING SET) : 0.178 REMARK 3 FREE R VALUE : 0.205 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 8.200 REMARK 3 FREE R VALUE TEST SET COUNT : 4844 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) : 1.85 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3862 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 92.48 REMARK 3 BIN R VALUE (WORKING SET) : 0.2120 REMARK 3 BIN FREE R VALUE SET COUNT : 333 REMARK 3 BIN FREE R VALUE : 0.2700 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3462 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 54 REMARK 3 SOLVENT ATOMS : 524 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 23.32 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.09000 REMARK 3 B22 (A**2) : 0.97000 REMARK 3 B33 (A**2) : -1.08000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.33000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.109 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.105 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.063 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.978 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.954 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.940 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3579 ; 0.012 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4845 ; 1.246 ; 1.960 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 450 ; 5.128 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 171 ;36.150 ;25.965 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 585 ;12.899 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 12 ;18.938 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 525 ; 0.080 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2766 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1718 ; 0.204 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2500 ; 0.300 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 428 ; 0.132 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 22 ; 0.081 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 34 ; 0.207 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 29 ; 0.120 ; 0.200 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): 2305 ; 1.053 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3570 ; 1.330 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1441 ; 2.175 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1275 ; 3.514 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL 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 : 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 : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 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 REMARK 4 REMARK 4 2ORJ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 06-FEB-07. REMARK 100 THE DEPOSITION ID IS D_1000041496. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-AUG-05 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 : NSLS REMARK 200 BEAMLINE : X8C REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 REMARK 200 MONOCHROMATOR : SI 111 DOUBLE CRYSTAL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 60089 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 26.500 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.0 REMARK 200 DATA REDUNDANCY : 3.800 REMARK 200 R MERGE (I) : 0.04500 REMARK 200 R SYM (I) : 0.04500 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 25.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.86 REMARK 200 COMPLETENESS FOR SHELL (%) : 96.2 REMARK 200 DATA REDUNDANCY IN SHELL : 3.50 REMARK 200 R MERGE FOR SHELL (I) : 0.17000 REMARK 200 R SYM FOR SHELL (I) : 0.17000 REMARK 200 <I/SIGMA(I)> FOR SHELL : 9.700 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: FOURIER SYNTHESIS REMARK 200 SOFTWARE USED: CNS REMARK 200 STARTING MODEL: PDB ENTRY 2GGU REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 62.18 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.25 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 150MM NACL, 10MM CACL2, 12% PEG 8000, REMARK 280 100MM HEPES, PH 7.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE REMARK 280 290K 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 54.16500 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 300 REMARK: THE SINGLE TRIMER OF HEAD AND NECK DOMAINS PRESENT IN THE REMARK 300 ASYMMETRIC UNIT IS THE FUNCTIONAL UNIT. 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: 7890 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 20560 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -144.0 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 ALA A 196 REMARK 465 MET A 197 REMARK 465 ALA A 198 REMARK 465 ASP A 199 REMARK 465 ILE A 200 REMARK 465 GLY A 201 REMARK 465 SER A 202 REMARK 465 ASP A 203 REMARK 465 VAL A 204 REMARK 465 ALA B 196 REMARK 465 MET B 197 REMARK 465 ALA B 198 REMARK 465 ASP B 199 REMARK 465 ILE B 200 REMARK 465 GLY B 201 REMARK 465 SER B 202 REMARK 465 ASP B 203 REMARK 465 VAL B 204 REMARK 465 ALA C 196 REMARK 465 MET C 197 REMARK 465 ALA C 198 REMARK 465 ASP C 199 REMARK 465 ILE C 200 REMARK 465 GLY C 201 REMARK 465 SER C 202 REMARK 465 ASP C 203 REMARK 465 VAL C 204 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 ND1 HIS C 220 O HOH C 559 2.12 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 328 56.63 -155.67 REMARK 500 SER B 328 43.36 -150.04 REMARK 500 ASN C 316 48.09 -140.44 REMARK 500 SER C 328 45.01 -150.72 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 401 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 BM3 A 1 O3 REMARK 620 2 BM3 A 1 O4 67.3 REMARK 620 3 GLU A 321 OE1 70.7 132.9 REMARK 620 4 ASN A 323 OD1 82.7 117.6 76.1 REMARK 620 5 GLU A 329 OE1 123.1 76.2 147.7 77.2 REMARK 620 6 ASN A 341 OD1 77.3 82.0 68.7 143.6 139.1 REMARK 620 7 ASP A 342 OD1 144.4 146.6 74.0 84.6 85.8 94.2 REMARK 620 8 ASP A 342 O 131.3 72.1 126.7 141.5 69.1 71.5 75.2 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 402 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 297 OD2 REMARK 620 2 ASP A 297 OD1 50.3 REMARK 620 3 GLU A 301 OE2 73.0 121.1 REMARK 620 4 GLU A 301 OE1 80.7 98.9 52.0 REMARK 620 5 ASP A 324 OD1 151.4 157.4 78.6 84.4 REMARK 620 6 GLU A 329 O 125.2 88.0 145.6 148.2 78.2 REMARK 620 7 ASP A 330 OD1 112.8 73.1 125.7 75.0 86.3 77.5 REMARK 620 8 HOH A 427 O 81.2 102.6 80.5 132.3 91.2 74.9 152.3 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 OD1 76.1 REMARK 620 3 ASP A 330 OD2 118.5 52.2 REMARK 620 4 HOH A 448 O 79.2 105.3 84.3 REMARK 620 5 HOH A 452 O 69.7 92.7 133.8 139.0 REMARK 620 6 HOH A 573 O 92.6 168.7 136.7 72.0 83.2 REMARK 620 7 HOH A 580 O 139.3 89.1 76.8 141.5 73.5 99.7 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 BM3 B 1 O3 REMARK 620 2 BM3 B 1 O4 67.0 REMARK 620 3 GLU B 321 OE1 73.6 134.6 REMARK 620 4 ASN B 323 OD1 76.9 115.0 75.5 REMARK 620 5 GLU B 329 OE1 114.0 72.6 147.5 75.9 REMARK 620 6 ASN B 341 OD1 81.0 82.2 69.9 142.9 140.9 REMARK 620 7 ASP B 342 O 133.3 71.2 129.1 141.8 70.3 73.6 REMARK 620 8 ASP B 342 OD1 147.4 145.2 75.0 86.9 88.4 96.4 75.1 REMARK 620 N 1 2 3 4 5 6 7 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B 402 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 297 OD2 REMARK 620 2 ASP B 297 OD1 50.4 REMARK 620 3 GLU B 301 OE2 71.8 121.2 REMARK 620 4 GLU B 301 OE1 78.8 102.0 51.4 REMARK 620 5 ASP B 324 OD1 148.6 159.9 76.9 82.1 REMARK 620 6 GLU B 329 O 129.2 89.0 143.8 147.4 78.0 REMARK 620 7 ASP B 330 OD1 109.5 72.9 126.6 75.8 89.4 78.4 REMARK 620 8 HOH B 421 O 80.1 97.0 80.6 131.6 94.6 75.9 152.6 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 120.7 REMARK 620 3 ASP B 330 OD1 74.5 51.7 REMARK 620 4 HOH B 433 O 87.8 86.2 107.2 REMARK 620 5 HOH B 447 O 80.7 106.2 77.2 166.2 REMARK 620 6 HOH B 465 O 84.3 154.4 151.9 89.9 81.5 REMARK 620 7 HOH B 521 O 166.7 72.6 116.7 95.2 94.3 82.7 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 BM3 C 1 O4 REMARK 620 2 BM3 C 1 O3 66.6 REMARK 620 3 GLU C 321 OE1 133.5 72.4 REMARK 620 4 ASN C 323 OD1 115.5 74.5 71.5 REMARK 620 5 GLU C 329 OE1 73.2 113.4 146.4 78.2 REMARK 620 6 ASN C 341 OD1 82.1 80.4 70.1 138.9 142.5 REMARK 620 7 ASP C 342 O 71.9 134.4 131.4 143.5 69.9 75.9 REMARK 620 8 ASP C 342 OD1 146.9 146.4 75.8 85.7 87.9 98.6 76.2 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 50.2 REMARK 620 3 GLU C 301 OE1 81.3 99.1 REMARK 620 4 GLU C 301 OE2 73.2 120.7 50.7 REMARK 620 5 ASP C 324 OD1 151.1 157.0 82.4 78.0 REMARK 620 6 GLU C 329 O 128.9 92.1 145.7 143.4 75.2 REMARK 620 7 ASP C 330 OD1 110.6 71.4 73.7 123.6 87.2 79.5 REMARK 620 8 HOH C 422 O 81.3 104.2 130.7 80.1 91.6 76.3 155.3 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 OD1 76.6 REMARK 620 3 ASP C 330 OD2 124.7 51.3 REMARK 620 4 HOH C 441 O 75.1 75.7 104.2 REMARK 620 5 HOH C 443 O 93.0 109.2 88.6 166.0 REMARK 620 6 HOH C 504 O 160.2 114.2 72.0 91.1 98.4 REMARK 620 7 HOH C 545 O 84.2 154.4 151.0 83.2 88.3 80.0 REMARK 620 N 1 2 3 4 5 6 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2GGU RELATED DB: PDB REMARK 900 SAME PROTEIN WITH MALTOTRIOSE DBREF 2ORJ A 203 355 UNP P35247 SFTPD_HUMAN 223 375 DBREF 2ORJ B 203 355 UNP P35247 SFTPD_HUMAN 223 375 DBREF 2ORJ C 203 355 UNP P35247 SFTPD_HUMAN 223 375 SEQADV 2ORJ ALA A 196 UNP P35247 CLONING ARTIFACT SEQADV 2ORJ MET A 197 UNP P35247 CLONING ARTIFACT SEQADV 2ORJ ALA A 198 UNP P35247 CLONING ARTIFACT SEQADV 2ORJ ASP A 199 UNP P35247 CLONING ARTIFACT SEQADV 2ORJ ILE A 200 UNP P35247 CLONING ARTIFACT SEQADV 2ORJ GLY A 201 UNP P35247 CLONING ARTIFACT SEQADV 2ORJ SER A 202 UNP P35247 CLONING ARTIFACT SEQADV 2ORJ ALA B 196 UNP P35247 CLONING ARTIFACT SEQADV 2ORJ MET B 197 UNP P35247 CLONING ARTIFACT SEQADV 2ORJ ALA B 198 UNP P35247 CLONING ARTIFACT SEQADV 2ORJ ASP B 199 UNP P35247 CLONING ARTIFACT SEQADV 2ORJ ILE B 200 UNP P35247 CLONING ARTIFACT SEQADV 2ORJ GLY B 201 UNP P35247 CLONING ARTIFACT SEQADV 2ORJ SER B 202 UNP P35247 CLONING ARTIFACT SEQADV 2ORJ ALA C 196 UNP P35247 CLONING ARTIFACT SEQADV 2ORJ MET C 197 UNP P35247 CLONING ARTIFACT SEQADV 2ORJ ALA C 198 UNP P35247 CLONING ARTIFACT SEQADV 2ORJ ASP C 199 UNP P35247 CLONING ARTIFACT SEQADV 2ORJ ILE C 200 UNP P35247 CLONING ARTIFACT SEQADV 2ORJ GLY C 201 UNP P35247 CLONING ARTIFACT SEQADV 2ORJ SER C 202 UNP P35247 CLONING ARTIFACT SEQRES 1 A 160 ALA MET ALA ASP ILE GLY SER ASP VAL ALA SER LEU ARG SEQRES 2 A 160 GLN GLN VAL GLU ALA LEU GLN GLY GLN VAL GLN HIS LEU SEQRES 3 A 160 GLN ALA ALA PHE SER GLN TYR LYS LYS VAL GLU LEU PHE SEQRES 4 A 160 PRO ASN GLY GLN SER VAL GLY GLU LYS ILE PHE LYS THR SEQRES 5 A 160 ALA GLY PHE VAL LYS PRO PHE THR GLU ALA GLN LEU LEU SEQRES 6 A 160 CYS THR GLN ALA GLY GLY GLN LEU ALA SER PRO ARG SER SEQRES 7 A 160 ALA ALA GLU ASN ALA ALA LEU GLN GLN LEU VAL VAL ALA SEQRES 8 A 160 LYS ASN GLU ALA ALA PHE LEU SER MET THR ASP SER LYS SEQRES 9 A 160 THR GLU GLY LYS PHE THR TYR PRO THR GLY GLU SER LEU SEQRES 10 A 160 VAL TYR SER ASN TRP ALA PRO GLY GLU PRO ASN ASP ASP SEQRES 11 A 160 GLY GLY SER GLU ASP CYS VAL GLU ILE PHE THR ASN GLY SEQRES 12 A 160 LYS TRP ASN ASP ARG ALA CYS GLY GLU LYS ARG LEU VAL SEQRES 13 A 160 VAL CYS GLU PHE SEQRES 1 B 160 ALA MET ALA ASP ILE GLY SER ASP VAL ALA SER LEU ARG SEQRES 2 B 160 GLN GLN VAL GLU ALA LEU GLN GLY GLN VAL GLN HIS LEU SEQRES 3 B 160 GLN ALA ALA PHE SER GLN TYR LYS LYS VAL GLU LEU PHE SEQRES 4 B 160 PRO ASN GLY GLN SER VAL GLY GLU LYS ILE PHE LYS THR SEQRES 5 B 160 ALA GLY PHE VAL LYS PRO PHE THR GLU ALA GLN LEU LEU SEQRES 6 B 160 CYS THR GLN ALA GLY GLY GLN LEU ALA SER PRO ARG SER SEQRES 7 B 160 ALA ALA GLU ASN ALA ALA LEU GLN GLN LEU VAL VAL ALA SEQRES 8 B 160 LYS ASN GLU ALA ALA PHE LEU SER MET THR ASP SER LYS SEQRES 9 B 160 THR GLU GLY LYS PHE THR TYR PRO THR GLY GLU SER LEU SEQRES 10 B 160 VAL TYR SER ASN TRP ALA PRO GLY GLU PRO ASN ASP ASP SEQRES 11 B 160 GLY GLY SER GLU ASP CYS VAL GLU ILE PHE THR ASN GLY SEQRES 12 B 160 LYS TRP ASN ASP ARG ALA CYS GLY GLU LYS ARG LEU VAL SEQRES 13 B 160 VAL CYS GLU PHE SEQRES 1 C 160 ALA MET ALA ASP ILE GLY SER ASP VAL ALA SER LEU ARG SEQRES 2 C 160 GLN GLN VAL GLU ALA LEU GLN GLY GLN VAL GLN HIS LEU SEQRES 3 C 160 GLN ALA ALA PHE SER GLN TYR LYS LYS VAL GLU LEU PHE SEQRES 4 C 160 PRO ASN GLY GLN SER VAL GLY GLU LYS ILE PHE LYS THR SEQRES 5 C 160 ALA GLY PHE VAL LYS PRO PHE THR GLU ALA GLN LEU LEU SEQRES 6 C 160 CYS THR GLN ALA GLY GLY GLN LEU ALA SER PRO ARG SER SEQRES 7 C 160 ALA ALA GLU ASN ALA ALA LEU GLN GLN LEU VAL VAL ALA SEQRES 8 C 160 LYS ASN GLU ALA ALA PHE LEU SER MET THR ASP SER LYS SEQRES 9 C 160 THR GLU GLY LYS PHE THR TYR PRO THR GLY GLU SER LEU SEQRES 10 C 160 VAL TYR SER ASN TRP ALA PRO GLY GLU PRO ASN ASP ASP SEQRES 11 C 160 GLY GLY SER GLU ASP CYS VAL GLU ILE PHE THR ASN GLY SEQRES 12 C 160 LYS TRP ASN ASP ARG ALA CYS GLY GLU LYS ARG LEU VAL SEQRES 13 C 160 VAL CYS GLU PHE HET CA A 401 1 HET CA A 402 1 HET CA A 403 1 HET BM3 A 1 15 HET CA B 401 1 HET CA B 402 1 HET CA B 403 1 HET BM3 B 1 15 HET CA C 401 1 HET CA C 402 1 HET CA C 403 1 HET BM3 C 1 15 HETNAM CA CALCIUM ION HETNAM BM3 2-ACETAMIDO-2-DEOXY-ALPHA-D-MANNOPYRANOSE HETSYN BM3 N-ACETYL-ALPHA-D-MANNOSAMINE; 2-ACETAMIDO-2-DEOXY- HETSYN 2 BM3 ALPHA-D-MANNOSE; 2-ACETAMIDO-2-DEOXY-D-MANNOSE; 2- HETSYN 3 BM3 ACETAMIDO-2-DEOXY-MANNOSE; 2-(ACETYLAMINO)-2-DEOXY- HETSYN 4 BM3 ALPHA-D-MANNOPYRANOSE FORMUL 4 CA 9(CA 2+) FORMUL 7 BM3 3(C8 H15 N O6) FORMUL 16 HOH *524(H2 O) HELIX 1 1 ALA A 205 PHE A 234 1 30 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 PRO B 253 ALA B 264 1 12 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 LYS B 252 -1 O LYS B 243 N VAL B 240 SHEET 3 C 4 ARG B 349 PHE B 355 -1 O VAL B 351 N ALA B 248 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 PHE B 292 0 SHEET 2 D 3 CYS B 331 ILE B 334 -1 O ILE B 334 N ALA B 291 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 LYS C 243 N VAL C 240 SHEET 3 E 4 LYS C 348 PHE C 355 -1 O PHE C 355 N ILE C 244 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 2.06 SSBOND 3 CYS B 261 CYS B 353 1555 1555 2.02 SSBOND 4 CYS B 331 CYS B 345 1555 1555 2.05 SSBOND 5 CYS C 261 CYS C 353 1555 1555 2.04 SSBOND 6 CYS C 331 CYS C 345 1555 1555 2.04 LINK O3 BM3 A 1 CA CA A 401 1555 1555 2.56 LINK O4 BM3 A 1 CA CA A 401 1555 1555 2.58 LINK OD2 ASP A 297 CA CA A 402 1555 1555 2.44 LINK OD1 ASP A 297 CA CA A 402 1555 1555 2.63 LINK OE2 GLU A 301 CA CA A 402 1555 1555 2.51 LINK OE1 GLU A 301 CA CA A 402 1555 1555 2.54 LINK OE1 GLU A 301 CA CA A 403 1555 1555 2.41 LINK OE1 GLU A 321 CA CA A 401 1555 1555 2.47 LINK OD1 ASN A 323 CA CA A 401 1555 1555 2.47 LINK OD1 ASP A 324 CA CA A 402 1555 1555 2.49 LINK OE1 GLU A 329 CA CA A 401 1555 1555 2.45 LINK O GLU A 329 CA CA A 402 1555 1555 2.48 LINK OD1 ASP A 330 CA CA A 402 1555 1555 2.46 LINK OD1 ASP A 330 CA CA A 403 1555 1555 2.52 LINK OD2 ASP A 330 CA CA A 403 1555 1555 2.44 LINK OD1 ASN A 341 CA CA A 401 1555 1555 2.37 LINK OD1 ASP A 342 CA CA A 401 1555 1555 2.44 LINK O ASP A 342 CA CA A 401 1555 1555 2.61 LINK CA CA A 402 O HOH A 427 1555 1555 2.36 LINK CA CA A 403 O HOH A 448 1555 1555 2.31 LINK CA CA A 403 O HOH A 452 1555 1555 2.37 LINK CA CA A 403 O HOH A 573 1555 1555 2.53 LINK CA CA A 403 O HOH A 580 1555 1555 2.26 LINK O3 BM3 B 1 CA CA B 401 1555 1555 2.56 LINK O4 BM3 B 1 CA CA B 401 1555 1555 2.65 LINK OD2 ASP B 297 CA CA B 402 1555 1555 2.43 LINK OD1 ASP B 297 CA CA B 402 1555 1555 2.67 LINK OE2 GLU B 301 CA CA B 402 1555 1555 2.56 LINK OE1 GLU B 301 CA CA B 402 1555 1555 2.51 LINK OE1 GLU B 301 CA CA B 403 1555 1555 2.45 LINK OE1 GLU B 321 CA CA B 401 1555 1555 2.48 LINK OD1 ASN B 323 CA CA B 401 1555 1555 2.46 LINK OD1 ASP B 324 CA CA B 402 1555 1555 2.53 LINK OE1 GLU B 329 CA CA B 401 1555 1555 2.45 LINK O GLU B 329 CA CA B 402 1555 1555 2.40 LINK OD1 ASP B 330 CA CA B 402 1555 1555 2.39 LINK OD2 ASP B 330 CA CA B 403 1555 1555 2.52 LINK OD1 ASP B 330 CA CA B 403 1555 1555 2.52 LINK OD1 ASN B 341 CA CA B 401 1555 1555 2.42 LINK O ASP B 342 CA CA B 401 1555 1555 2.59 LINK OD1 ASP B 342 CA CA B 401 1555 1555 2.36 LINK CA CA B 402 O HOH B 421 1555 1555 2.40 LINK CA CA B 403 O HOH B 433 1555 1555 2.25 LINK CA CA B 403 O HOH B 447 1555 1555 2.39 LINK CA CA B 403 O HOH B 465 1555 1555 2.43 LINK CA CA B 403 O HOH B 521 1555 1555 2.38 LINK O4 BM3 C 1 CA CA C 401 1555 1555 2.64 LINK O3 BM3 C 1 CA CA C 401 1555 1555 2.57 LINK OD2 ASP C 297 CA CA C 402 1555 1555 2.58 LINK OD1 ASP C 297 CA CA C 402 1555 1555 2.59 LINK OE1 GLU C 301 CA CA C 402 1555 1555 2.56 LINK OE2 GLU C 301 CA CA C 402 1555 1555 2.53 LINK OE1 GLU C 301 CA CA C 403 1555 1555 2.34 LINK OE1 GLU C 321 CA CA C 401 1555 1555 2.61 LINK OD1 ASN C 323 CA CA C 401 1555 1555 2.45 LINK OD1 ASP C 324 CA CA C 402 1555 1555 2.60 LINK OE1 GLU C 329 CA CA C 401 1555 1555 2.39 LINK O GLU C 329 CA CA C 402 1555 1555 2.42 LINK OD1 ASP C 330 CA CA C 402 1555 1555 2.45 LINK OD1 ASP C 330 CA CA C 403 1555 1555 2.50 LINK OD2 ASP C 330 CA CA C 403 1555 1555 2.56 LINK OD1 ASN C 341 CA CA C 401 1555 1555 2.39 LINK O ASP C 342 CA CA C 401 1555 1555 2.55 LINK OD1 ASP C 342 CA CA C 401 1555 1555 2.30 LINK CA CA C 402 O HOH C 422 1555 1555 2.44 LINK CA CA C 403 O HOH C 441 1555 1555 2.41 LINK CA CA C 403 O HOH C 443 1555 1555 2.22 LINK CA CA C 403 O HOH C 504 1555 1555 2.40 LINK CA CA C 403 O HOH C 545 1555 1555 2.41 CISPEP 1 PHE A 234 PRO A 235 0 0.40 CISPEP 2 GLU A 321 PRO A 322 0 -2.34 CISPEP 3 PHE B 234 PRO B 235 0 -2.35 CISPEP 4 GLU B 321 PRO B 322 0 -3.46 CISPEP 5 PHE C 234 PRO C 235 0 -3.45 CISPEP 6 GLU C 321 PRO C 322 0 -2.04 CRYST1 55.630 108.330 55.970 90.00 91.51 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 0.017976 0.000000 0.000474 0.00000 SCALE2 0.000000 0.009231 0.000000 0.00000 SCALE3 0.000000 0.000000 0.017873 0.00000