HEADER CARBOHYDRATE BINDING PROTEIN 21-DEC-15 5B1X TITLE CRYSTAL STRUCTURE OF HUMAN DENDRITIC CELL INHIBITORY RECEPTOR (DCIR) TITLE 2 C-TYPE LECTIN DOMAIN IN COMPLEX WITH BIANTENNARY GLYCAN COMPND MOL_ID: 1; COMPND 2 MOLECULE: C-TYPE LECTIN DOMAIN FAMILY 4 MEMBER A; COMPND 3 CHAIN: A, B, C, D; COMPND 4 FRAGMENT: UNP RESIDUES 106-237; COMPND 5 SYNONYM: C-TYPE LECTIN DDB27,C-TYPE LECTIN SUPERFAMILY MEMBER 6, COMPND 6 DENDRITIC CELL IMMUNORECEPTOR,LECTIN-LIKE IMMUNORECEPTOR; COMPND 7 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: CLEC4A, CLECSF6, DCIR, LLIR, HDCGC13P; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: ROSETTA 2 (DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PCOLD KEYWDS C-TYPE LECTIN, INNATE IMMUNITY, CARBOHYDRATE RECOGNITION, KEYWDS 2 CARBOHYDRATE BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR M.NAGAE,Y.YAMAGUCHI REVDAT 4 08-NOV-23 5B1X 1 HETSYN REVDAT 3 29-JUL-20 5B1X 1 COMPND REMARK HETNAM LINK REVDAT 3 2 1 SITE ATOM REVDAT 2 26-FEB-20 5B1X 1 JRNL REMARK REVDAT 1 11-MAY-16 5B1X 0 JRNL AUTH M.NAGAE,A.IKEDA,S.HANASHIMA,T.KOJIMA,N.MATSUMOTO,K.YAMAMOTO, JRNL AUTH 2 Y.YAMAGUCHI JRNL TITL CRYSTAL STRUCTURE OF HUMAN DENDRITIC CELL INHIBITORY JRNL TITL 2 RECEPTOR C-TYPE LECTIN DOMAIN REVEALS THE BINDING MODE WITH JRNL TITL 3 N-GLYCAN JRNL REF FEBS LETT. V. 590 1280 2016 JRNL REFN ISSN 0014-5793 JRNL PMID 27015765 JRNL DOI 10.1002/1873-3468.12162 REMARK 2 REMARK 2 RESOLUTION. 2.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.10.1_2155: ???) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 46.69 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 16149 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.262 REMARK 3 R VALUE (WORKING SET) : 0.260 REMARK 3 FREE R VALUE : 0.290 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.030 REMARK 3 FREE R VALUE TEST SET COUNT : 813 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 46.6946 - 5.2706 0.99 2710 118 0.2509 0.2514 REMARK 3 2 5.2706 - 4.1843 1.00 2571 140 0.2239 0.2451 REMARK 3 3 4.1843 - 3.6556 1.00 2515 155 0.2419 0.2839 REMARK 3 4 3.6556 - 3.3215 1.00 2546 119 0.2656 0.3133 REMARK 3 5 3.3215 - 3.0834 1.00 2499 141 0.2964 0.3297 REMARK 3 6 3.0834 - 2.9017 0.99 2495 140 0.3133 0.3429 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.360 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 33.860 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL 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 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.013 4614 REMARK 3 ANGLE : 0.612 6194 REMARK 3 CHIRALITY : 0.042 618 REMARK 3 PLANARITY : 0.004 806 REMARK 3 DIHEDRAL : 14.618 2734 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 5B1X COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 22-DEC-15. REMARK 100 THE DEPOSITION ID IS D_1300000380. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 11-DEC-11 REMARK 200 TEMPERATURE (KELVIN) : 95 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PHOTON FACTORY REMARK 200 BEAMLINE : BL-17A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.98 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 270 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 16219 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.900 REMARK 200 RESOLUTION RANGE LOW (A) : 100.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 6.600 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.16700 REMARK 200 FOR THE DATA SET : 11.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.95 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 6.70 REMARK 200 R MERGE FOR SHELL (I) : 0.48200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.500 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: 3VYK REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 55.77 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.78 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M POTASSIUM THIOCYANATE AND REMARK 280 20%(W/V) POLYETHYLENE GLYCOL MONOMETHYL ETHER 2,000, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 2 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 51.33450 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 52.42250 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 51.33450 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 52.42250 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3, 4 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: 90 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 7460 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -12.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 350 REMARK 350 BIOMOLECULE: 2 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: 90 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 7460 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -12.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, F 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 350 REMARK 350 BIOMOLECULE: 3 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: 90 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 7480 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -11.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, G 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 350 REMARK 350 BIOMOLECULE: 4 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: 90 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 7420 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -12.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: D, H 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 104 REMARK 465 ILE A 235 REMARK 465 HIS A 236 REMARK 465 LEU A 237 REMARK 465 GLY B 104 REMARK 465 ILE B 235 REMARK 465 HIS B 236 REMARK 465 LEU B 237 REMARK 465 GLY C 104 REMARK 465 LYS C 234 REMARK 465 ILE C 235 REMARK 465 HIS C 236 REMARK 465 LEU C 237 REMARK 465 GLY D 104 REMARK 465 LYS D 234 REMARK 465 ILE D 235 REMARK 465 HIS D 236 REMARK 465 LEU D 237 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 ARG C 174 NE ARG C 174 CZ -0.089 REMARK 500 ARG C 174 CZ ARG C 174 NH1 -0.087 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 C 174 NE - CZ - NH1 ANGL. DEV. = -3.5 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 PRO A 107 -176.48 -65.81 REMARK 500 SER A 114 -119.11 49.97 REMARK 500 SER A 188 44.89 -102.62 REMARK 500 ARG A 194 -4.44 74.12 REMARK 500 SER B 114 -120.37 52.49 REMARK 500 GLN B 173 31.24 -92.84 REMARK 500 SER B 211 87.15 -154.21 REMARK 500 SER C 114 -104.55 53.59 REMARK 500 ARG C 174 32.54 72.58 REMARK 500 SER C 211 87.47 -154.17 REMARK 500 SER D 114 -104.79 54.52 REMARK 500 SER D 211 86.77 -163.90 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 303 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 VAL A 143 O REMARK 620 2 ASN A 145 OD1 63.5 REMARK 620 3 GLU A 149 OE1 73.6 74.2 REMARK 620 4 GLU A 149 OE2 111.8 122.8 52.5 REMARK 620 5 GLU A 231 OE1 90.3 138.9 130.6 95.4 REMARK 620 6 GLU A 231 OE2 142.2 150.9 119.9 67.6 53.4 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 304 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 195 OE1 REMARK 620 2 SER A 197 OG 78.2 REMARK 620 3 GLU A 201 OE2 156.4 78.9 REMARK 620 4 ASN A 218 OD1 55.7 133.7 147.3 REMARK 620 5 ASP A 219 O 124.0 132.8 69.8 82.6 REMARK 620 6 ASP A 219 OD1 78.4 87.0 94.8 87.1 62.3 REMARK 620 7 MAN E 1 O3 131.3 115.7 65.3 94.8 82.2 144.0 REMARK 620 8 MAN E 1 O4 75.9 70.8 101.7 92.8 148.5 148.9 67.1 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 303 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 VAL B 143 O REMARK 620 2 ASN B 145 OD1 71.6 REMARK 620 3 GLU B 149 OE1 88.3 86.3 REMARK 620 4 GLU B 149 OE2 111.7 139.1 53.9 REMARK 620 5 GLU B 231 OE1 77.8 134.3 126.3 83.6 REMARK 620 6 GLU B 231 OE2 129.0 133.6 128.8 77.9 52.9 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B 304 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B 195 OE2 REMARK 620 2 SER B 197 OG 75.7 REMARK 620 3 GLU B 201 OE2 160.0 87.5 REMARK 620 4 ASN B 218 OD1 63.8 137.7 134.5 REMARK 620 5 ASP B 219 O 121.7 136.6 64.5 79.0 REMARK 620 6 ASP B 219 OD1 69.0 88.1 100.2 88.6 66.8 REMARK 620 7 MAN F 1 O3 129.3 120.4 68.7 80.1 81.2 147.6 REMARK 620 8 MAN F 1 O4 77.7 69.6 106.7 89.5 147.7 143.7 67.0 REMARK 620 N 1 2 3 4 5 6 7 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA C 303 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 VAL C 143 O REMARK 620 2 ASN C 145 OD1 66.5 REMARK 620 3 GLU C 149 OE1 108.9 130.7 REMARK 620 4 GLU C 149 OE2 70.3 83.3 52.2 REMARK 620 5 GLU C 231 OE1 77.8 122.6 102.3 125.3 REMARK 620 6 GLU C 231 OE2 131.5 144.5 77.4 129.3 54.4 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA C 304 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU C 195 OE1 REMARK 620 2 SER C 197 OG 64.4 REMARK 620 3 GLU C 201 OE1 144.7 87.6 REMARK 620 4 ASN C 218 OD1 61.8 125.8 143.6 REMARK 620 5 ASP C 219 O 121.2 135.3 64.0 80.6 REMARK 620 6 ASP C 219 OD1 64.0 74.4 88.9 87.4 71.4 REMARK 620 7 MAN G 1 O3 134.2 127.5 79.6 88.3 82.8 154.1 REMARK 620 8 MAN G 1 O4 68.7 69.9 123.4 85.5 154.5 129.4 75.6 REMARK 620 N 1 2 3 4 5 6 7 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA D 303 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 VAL D 143 O REMARK 620 2 ASN D 145 OD1 64.5 REMARK 620 3 GLU D 149 OE1 113.8 128.8 REMARK 620 4 GLU D 149 OE2 73.0 80.9 53.5 REMARK 620 5 GLU D 231 OE1 82.9 125.0 104.1 131.7 REMARK 620 6 GLU D 231 OE2 135.7 149.7 69.9 123.2 55.0 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA D 304 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU D 195 OE1 REMARK 620 2 SER D 197 OG 75.3 REMARK 620 3 GLU D 201 OE2 154.0 82.7 REMARK 620 4 ASN D 218 OD1 65.6 138.8 138.3 REMARK 620 5 ASP D 219 O 130.7 133.5 58.9 84.5 REMARK 620 6 ASP D 219 OD1 72.9 89.5 93.5 91.2 69.4 REMARK 620 7 MAN H 1 O3 131.2 115.4 71.0 83.3 78.2 147.6 REMARK 620 8 MAN H 1 O4 67.2 71.6 118.7 81.3 148.1 138.9 71.9 REMARK 620 N 1 2 3 4 5 6 7 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5B1W RELATED DB: PDB DBREF 5B1X A 106 237 UNP Q9UMR7 CLC4A_HUMAN 106 237 DBREF 5B1X B 106 237 UNP Q9UMR7 CLC4A_HUMAN 106 237 DBREF 5B1X C 106 237 UNP Q9UMR7 CLC4A_HUMAN 106 237 DBREF 5B1X D 106 237 UNP Q9UMR7 CLC4A_HUMAN 106 237 SEQADV 5B1X GLY A 104 UNP Q9UMR7 EXPRESSION TAG SEQADV 5B1X SER A 105 UNP Q9UMR7 EXPRESSION TAG SEQADV 5B1X GLY B 104 UNP Q9UMR7 EXPRESSION TAG SEQADV 5B1X SER B 105 UNP Q9UMR7 EXPRESSION TAG SEQADV 5B1X GLY C 104 UNP Q9UMR7 EXPRESSION TAG SEQADV 5B1X SER C 105 UNP Q9UMR7 EXPRESSION TAG SEQADV 5B1X GLY D 104 UNP Q9UMR7 EXPRESSION TAG SEQADV 5B1X SER D 105 UNP Q9UMR7 EXPRESSION TAG SEQRES 1 A 134 GLY SER CYS PRO LYS ASN TRP LYS SER PHE SER SER ASN SEQRES 2 A 134 CYS TYR PHE ILE SER THR GLU SER ALA SER TRP GLN ASP SEQRES 3 A 134 SER GLU LYS ASP CYS ALA ARG MET GLU ALA HIS LEU LEU SEQRES 4 A 134 VAL ILE ASN THR GLN GLU GLU GLN ASP PHE ILE PHE GLN SEQRES 5 A 134 ASN LEU GLN GLU GLU SER ALA TYR PHE VAL GLY LEU SER SEQRES 6 A 134 ASP PRO GLU GLY GLN ARG HIS TRP GLN TRP VAL ASP GLN SEQRES 7 A 134 THR PRO TYR ASN GLU SER SER THR PHE TRP HIS PRO ARG SEQRES 8 A 134 GLU PRO SER ASP PRO ASN GLU ARG CYS VAL VAL LEU ASN SEQRES 9 A 134 PHE ARG LYS SER PRO LYS ARG TRP GLY TRP ASN ASP VAL SEQRES 10 A 134 ASN CYS LEU GLY PRO GLN ARG SER VAL CYS GLU MET MET SEQRES 11 A 134 LYS ILE HIS LEU SEQRES 1 B 134 GLY SER CYS PRO LYS ASN TRP LYS SER PHE SER SER ASN SEQRES 2 B 134 CYS TYR PHE ILE SER THR GLU SER ALA SER TRP GLN ASP SEQRES 3 B 134 SER GLU LYS ASP CYS ALA ARG MET GLU ALA HIS LEU LEU SEQRES 4 B 134 VAL ILE ASN THR GLN GLU GLU GLN ASP PHE ILE PHE GLN SEQRES 5 B 134 ASN LEU GLN GLU GLU SER ALA TYR PHE VAL GLY LEU SER SEQRES 6 B 134 ASP PRO GLU GLY GLN ARG HIS TRP GLN TRP VAL ASP GLN SEQRES 7 B 134 THR PRO TYR ASN GLU SER SER THR PHE TRP HIS PRO ARG SEQRES 8 B 134 GLU PRO SER ASP PRO ASN GLU ARG CYS VAL VAL LEU ASN SEQRES 9 B 134 PHE ARG LYS SER PRO LYS ARG TRP GLY TRP ASN ASP VAL SEQRES 10 B 134 ASN CYS LEU GLY PRO GLN ARG SER VAL CYS GLU MET MET SEQRES 11 B 134 LYS ILE HIS LEU SEQRES 1 C 134 GLY SER CYS PRO LYS ASN TRP LYS SER PHE SER SER ASN SEQRES 2 C 134 CYS TYR PHE ILE SER THR GLU SER ALA SER TRP GLN ASP SEQRES 3 C 134 SER GLU LYS ASP CYS ALA ARG MET GLU ALA HIS LEU LEU SEQRES 4 C 134 VAL ILE ASN THR GLN GLU GLU GLN ASP PHE ILE PHE GLN SEQRES 5 C 134 ASN LEU GLN GLU GLU SER ALA TYR PHE VAL GLY LEU SER SEQRES 6 C 134 ASP PRO GLU GLY GLN ARG HIS TRP GLN TRP VAL ASP GLN SEQRES 7 C 134 THR PRO TYR ASN GLU SER SER THR PHE TRP HIS PRO ARG SEQRES 8 C 134 GLU PRO SER ASP PRO ASN GLU ARG CYS VAL VAL LEU ASN SEQRES 9 C 134 PHE ARG LYS SER PRO LYS ARG TRP GLY TRP ASN ASP VAL SEQRES 10 C 134 ASN CYS LEU GLY PRO GLN ARG SER VAL CYS GLU MET MET SEQRES 11 C 134 LYS ILE HIS LEU SEQRES 1 D 134 GLY SER CYS PRO LYS ASN TRP LYS SER PHE SER SER ASN SEQRES 2 D 134 CYS TYR PHE ILE SER THR GLU SER ALA SER TRP GLN ASP SEQRES 3 D 134 SER GLU LYS ASP CYS ALA ARG MET GLU ALA HIS LEU LEU SEQRES 4 D 134 VAL ILE ASN THR GLN GLU GLU GLN ASP PHE ILE PHE GLN SEQRES 5 D 134 ASN LEU GLN GLU GLU SER ALA TYR PHE VAL GLY LEU SER SEQRES 6 D 134 ASP PRO GLU GLY GLN ARG HIS TRP GLN TRP VAL ASP GLN SEQRES 7 D 134 THR PRO TYR ASN GLU SER SER THR PHE TRP HIS PRO ARG SEQRES 8 D 134 GLU PRO SER ASP PRO ASN GLU ARG CYS VAL VAL LEU ASN SEQRES 9 D 134 PHE ARG LYS SER PRO LYS ARG TRP GLY TRP ASN ASP VAL SEQRES 10 D 134 ASN CYS LEU GLY PRO GLN ARG SER VAL CYS GLU MET MET SEQRES 11 D 134 LYS ILE HIS LEU HET MAN E 1 12 HET NAG E 2 14 HET MAN F 1 12 HET NAG F 2 14 HET MAN G 1 12 HET NAG G 2 14 HET MAN H 1 12 HET NAG H 2 14 HET CA A 303 1 HET CA A 304 1 HET CA B 303 1 HET CA B 304 1 HET CA C 303 1 HET CA C 304 1 HET CA D 303 1 HET CA D 304 1 HETNAM MAN ALPHA-D-MANNOPYRANOSE HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM CA CALCIUM ION HETSYN MAN ALPHA-D-MANNOSE; D-MANNOSE; MANNOSE HETSYN NAG N-ACETYL-BETA-D-GLUCOSAMINE; 2-ACETAMIDO-2-DEOXY-BETA- HETSYN 2 NAG D-GLUCOSE; 2-ACETAMIDO-2-DEOXY-D-GLUCOSE; 2-ACETAMIDO- HETSYN 3 NAG 2-DEOXY-GLUCOSE; N-ACETYL-D-GLUCOSAMINE FORMUL 5 MAN 4(C6 H12 O6) FORMUL 5 NAG 4(C8 H15 N O6) FORMUL 9 CA 8(CA 2+) FORMUL 17 HOH *20(H2 O) HELIX 1 AA1 SER A 126 MET A 137 1 12 HELIX 2 AA2 THR A 146 GLN A 155 1 10 HELIX 3 AA3 ASN A 185 THR A 189 5 5 HELIX 4 AA4 SER B 126 MET B 137 1 12 HELIX 5 AA5 THR B 146 GLN B 155 1 10 HELIX 6 AA6 ASN B 185 THR B 189 5 5 HELIX 7 AA7 SER C 126 MET C 137 1 12 HELIX 8 AA8 THR C 146 ASN C 156 1 11 HELIX 9 AA9 ASN C 185 THR C 189 5 5 HELIX 10 AB1 SER D 126 MET D 137 1 12 HELIX 11 AB2 THR D 146 ASN D 156 1 11 HELIX 12 AB3 ASN D 185 THR D 189 5 5 SHEET 1 AA1 5 LYS A 111 PHE A 113 0 SHEET 2 AA1 5 ASN A 116 ILE A 120 -1 O TYR A 118 N LYS A 111 SHEET 3 AA1 5 ARG A 227 MET A 233 -1 O MET A 232 N CYS A 117 SHEET 4 AA1 5 TYR A 163 SER A 168 1 N PHE A 164 O ARG A 227 SHEET 5 AA1 5 GLN A 177 TRP A 178 -1 O GLN A 177 N SER A 168 SHEET 1 AA2 5 HIS A 140 LEU A 141 0 SHEET 2 AA2 5 ARG A 227 MET A 233 -1 O GLU A 231 N HIS A 140 SHEET 3 AA2 5 TYR A 163 SER A 168 1 N PHE A 164 O ARG A 227 SHEET 4 AA2 5 CYS A 203 ARG A 209 -1 O LEU A 206 N TYR A 163 SHEET 5 AA2 5 ARG A 214 VAL A 220 -1 O VAL A 220 N CYS A 203 SHEET 1 AA3 5 LYS B 111 PHE B 113 0 SHEET 2 AA3 5 ASN B 116 ILE B 120 -1 O TYR B 118 N LYS B 111 SHEET 3 AA3 5 ARG B 227 MET B 233 -1 O MET B 232 N CYS B 117 SHEET 4 AA3 5 TYR B 163 SER B 168 1 N PHE B 164 O ARG B 227 SHEET 5 AA3 5 GLN B 177 TRP B 178 -1 O GLN B 177 N SER B 168 SHEET 1 AA4 5 HIS B 140 LEU B 141 0 SHEET 2 AA4 5 ARG B 227 MET B 233 -1 O GLU B 231 N HIS B 140 SHEET 3 AA4 5 TYR B 163 SER B 168 1 N PHE B 164 O ARG B 227 SHEET 4 AA4 5 CYS B 203 ARG B 209 -1 O LEU B 206 N TYR B 163 SHEET 5 AA4 5 ARG B 214 VAL B 220 -1 O VAL B 220 N CYS B 203 SHEET 1 AA5 5 LYS C 111 PHE C 113 0 SHEET 2 AA5 5 ASN C 116 ILE C 120 -1 O TYR C 118 N LYS C 111 SHEET 3 AA5 5 ARG C 227 MET C 232 -1 O MET C 232 N CYS C 117 SHEET 4 AA5 5 TYR C 163 SER C 168 1 N PHE C 164 O ARG C 227 SHEET 5 AA5 5 GLN C 177 TRP C 178 -1 O GLN C 177 N SER C 168 SHEET 1 AA6 5 HIS C 140 LEU C 141 0 SHEET 2 AA6 5 ARG C 227 MET C 232 -1 O GLU C 231 N HIS C 140 SHEET 3 AA6 5 TYR C 163 SER C 168 1 N PHE C 164 O ARG C 227 SHEET 4 AA6 5 CYS C 203 ARG C 209 -1 O LEU C 206 N TYR C 163 SHEET 5 AA6 5 ARG C 214 VAL C 220 -1 O VAL C 220 N CYS C 203 SHEET 1 AA7 5 LYS D 111 PHE D 113 0 SHEET 2 AA7 5 ASN D 116 ILE D 120 -1 O TYR D 118 N LYS D 111 SHEET 3 AA7 5 ARG D 227 MET D 232 -1 O MET D 232 N CYS D 117 SHEET 4 AA7 5 TYR D 163 SER D 168 1 N PHE D 164 O ARG D 227 SHEET 5 AA7 5 GLN D 177 TRP D 178 -1 O GLN D 177 N SER D 168 SHEET 1 AA8 5 HIS D 140 LEU D 141 0 SHEET 2 AA8 5 ARG D 227 MET D 232 -1 O GLU D 231 N HIS D 140 SHEET 3 AA8 5 TYR D 163 SER D 168 1 N PHE D 164 O ARG D 227 SHEET 4 AA8 5 CYS D 203 ARG D 209 -1 O VAL D 204 N VAL D 165 SHEET 5 AA8 5 ARG D 214 VAL D 220 -1 O VAL D 220 N CYS D 203 SSBOND 1 CYS A 106 CYS A 117 1555 1555 2.03 SSBOND 2 CYS A 134 CYS A 230 1555 1555 2.03 SSBOND 3 CYS A 203 CYS A 222 1555 1555 2.03 SSBOND 4 CYS B 106 CYS B 117 1555 1555 2.03 SSBOND 5 CYS B 134 CYS B 230 1555 1555 2.03 SSBOND 6 CYS B 203 CYS B 222 1555 1555 2.04 SSBOND 7 CYS C 106 CYS C 117 1555 1555 2.03 SSBOND 8 CYS C 134 CYS C 230 1555 1555 2.03 SSBOND 9 CYS C 203 CYS C 222 1555 1555 2.03 SSBOND 10 CYS D 106 CYS D 117 1555 1555 2.03 SSBOND 11 CYS D 134 CYS D 230 1555 1555 2.04 SSBOND 12 CYS D 203 CYS D 222 1555 1555 2.03 LINK O2 MAN E 1 C1 NAG E 2 1555 1555 1.40 LINK O2 MAN F 1 C1 NAG F 2 1555 1555 1.39 LINK O2 MAN G 1 C1 NAG G 2 1555 1555 1.40 LINK O2 MAN H 1 C1 NAG H 2 1555 1555 1.39 LINK O VAL A 143 CA CA A 303 1555 1555 2.45 LINK OD1 ASN A 145 CA CA A 303 1555 1555 2.38 LINK OE1 GLU A 149 CA CA A 303 1555 1555 2.55 LINK OE2 GLU A 149 CA CA A 303 1555 1555 2.39 LINK OE1 GLU A 195 CA CA A 304 1555 1555 2.49 LINK OG SER A 197 CA CA A 304 1555 1555 2.36 LINK OE2 GLU A 201 CA CA A 304 1555 1555 2.43 LINK OD1 ASN A 218 CA CA A 304 1555 1555 2.31 LINK O ASP A 219 CA CA A 304 1555 1555 2.43 LINK OD1 ASP A 219 CA CA A 304 1555 1555 2.32 LINK OE1 GLU A 231 CA CA A 303 1555 1555 2.48 LINK OE2 GLU A 231 CA CA A 303 1555 1555 2.38 LINK CA CA A 304 O3 MAN E 1 1555 1555 2.75 LINK CA CA A 304 O4 MAN E 1 1555 1555 2.39 LINK O VAL B 143 CA CA B 303 1555 1555 2.28 LINK OD1 ASN B 145 CA CA B 303 1555 1555 2.36 LINK OE1 GLU B 149 CA CA B 303 1555 1555 2.47 LINK OE2 GLU B 149 CA CA B 303 1555 1555 2.37 LINK OE2 GLU B 195 CA CA B 304 1555 1555 2.47 LINK OG SER B 197 CA CA B 304 1555 1555 2.41 LINK OE2 GLU B 201 CA CA B 304 1555 1555 2.45 LINK OD1 ASN B 218 CA CA B 304 1555 1555 2.38 LINK O ASP B 219 CA CA B 304 1555 1555 2.51 LINK OD1 ASP B 219 CA CA B 304 1555 1555 2.37 LINK OE1 GLU B 231 CA CA B 303 1555 1555 2.59 LINK OE2 GLU B 231 CA CA B 303 1555 1555 2.29 LINK CA CA B 304 O3 MAN F 1 1555 1555 2.63 LINK CA CA B 304 O4 MAN F 1 1555 1555 2.49 LINK O VAL C 143 CA CA C 303 1555 1555 2.39 LINK OD1 ASN C 145 CA CA C 303 1555 1555 2.35 LINK OE1 GLU C 149 CA CA C 303 1555 1555 2.48 LINK OE2 GLU C 149 CA CA C 303 1555 1555 2.50 LINK OE1 GLU C 195 CA CA C 304 1555 1555 2.47 LINK OG SER C 197 CA CA C 304 1555 1555 2.37 LINK OE1 GLU C 201 CA CA C 304 1555 1555 2.23 LINK OD1 ASN C 218 CA CA C 304 1555 1555 2.45 LINK O ASP C 219 CA CA C 304 1555 1555 2.28 LINK OD1 ASP C 219 CA CA C 304 1555 1555 2.26 LINK OE1 GLU C 231 CA CA C 303 1555 1555 2.56 LINK OE2 GLU C 231 CA CA C 303 1555 1555 2.17 LINK CA CA C 304 O3 MAN G 1 1555 1555 2.16 LINK CA CA C 304 O4 MAN G 1 1555 1555 2.44 LINK O VAL D 143 CA CA D 303 1555 1555 2.44 LINK OD1 ASN D 145 CA CA D 303 1555 1555 2.32 LINK OE1 GLU D 149 CA CA D 303 1555 1555 2.43 LINK OE2 GLU D 149 CA CA D 303 1555 1555 2.44 LINK OE1 GLU D 195 CA CA D 304 1555 1555 2.54 LINK OG SER D 197 CA CA D 304 1555 1555 2.39 LINK OE2 GLU D 201 CA CA D 304 1555 1555 2.45 LINK OD1 ASN D 218 CA CA D 304 1555 1555 2.41 LINK O ASP D 219 CA CA D 304 1555 1555 2.46 LINK OD1 ASP D 219 CA CA D 304 1555 1555 2.30 LINK OE1 GLU D 231 CA CA D 303 1555 1555 2.45 LINK OE2 GLU D 231 CA CA D 303 1555 1555 2.30 LINK CA CA D 304 O3 MAN H 1 1555 1555 2.41 LINK CA CA D 304 O4 MAN H 1 1555 1555 2.46 CISPEP 1 GLU A 195 PRO A 196 0 -0.38 CISPEP 2 SER A 211 PRO A 212 0 -1.68 CISPEP 3 GLU B 195 PRO B 196 0 -0.66 CISPEP 4 SER B 211 PRO B 212 0 0.21 CISPEP 5 GLU C 195 PRO C 196 0 0.57 CISPEP 6 SER C 211 PRO C 212 0 0.55 CISPEP 7 GLU D 195 PRO D 196 0 -2.40 CISPEP 8 SER D 211 PRO D 212 0 0.39 CRYST1 102.669 104.845 65.354 90.00 90.00 90.00 P 21 21 2 16 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 0.009740 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009538 0.000000 0.00000 SCALE3 0.000000 0.000000 0.015301 0.00000