HEADER PROTEIN TRANSPORT 17-JUL-09 3A4U TITLE CRYSTAL STRUCTURE OF MCFD2 IN COMPLEX WITH CARBOHYDRATE RECOGNITION TITLE 2 DOMAIN OF ERGIC-53 COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROTEIN ERGIC-53; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: CARBOHYDRATE RECOGNITION DOMAIN; COMPND 5 SYNONYM: ER-GOLGI INTERMEDIATE COMPARTMENT 53 KDA PROTEIN, LECTIN COMPND 6 MANNOSE-BINDING 1, GP58, INTRACELLULAR MANNOSE-SPECIFIC LECTIN MR60; COMPND 7 ENGINEERED: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: MULTIPLE COAGULATION FACTOR DEFICIENCY PROTEIN 2; COMPND 10 CHAIN: B; COMPND 11 SYNONYM: MCFD2, NEURAL STEM CELL-DERIVED NEURONAL SURVIVAL PROTEIN; COMPND 12 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: LMAN1, ERGIC53, F5F8D; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21 CODON PLUS; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PCOLD3; SOURCE 11 MOL_ID: 2; SOURCE 12 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 13 ORGANISM_COMMON: HUMAN; SOURCE 14 ORGANISM_TAXID: 9606; SOURCE 15 GENE: MCFD2, SDNSF; SOURCE 16 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 17 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 18 EXPRESSION_SYSTEM_STRAIN: BL21 CODON PLUS; SOURCE 19 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 20 EXPRESSION_SYSTEM_PLASMID: PET16B KEYWDS LECTIN, ERGIC, ER, GOLGI, TRANSPORT, DISULFIDE BOND, ENDOPLASMIC KEYWDS 2 RETICULUM, ER-GOLGI TRANSPORT, GOLGI APPARATUS, MEMBRANE, PROTEIN KEYWDS 3 TRANSPORT, TRANSMEMBRANE, DISEASE MUTATION EXPDTA X-RAY DIFFRACTION AUTHOR M.NISHIO,Y.KAMIYA,T.MIZUSHIMA,S.WAKATSUKI,H.SASAKAWA,K.YAMAMOTO, AUTHOR 2 S.UCHIYAMA,M.NODA,A.R.MCKAY,K.FUKUI,H.P.HAURI,K.KATO REVDAT 5 30-OCT-24 3A4U 1 REMARK REVDAT 4 01-NOV-23 3A4U 1 REMARK SEQADV LINK REVDAT 3 16-FEB-11 3A4U 1 JRNL REVDAT 2 09-FEB-10 3A4U 1 REMARK REVDAT 1 05-JAN-10 3A4U 0 JRNL AUTH M.NISHIO,Y.KAMIYA,T.MIZUSHIMA,S.WAKATSUKI,H.SASAKAWA, JRNL AUTH 2 K.YAMAMOTO,S.UCHIYAMA,M.NODA,A.R.MCKAY,K.FUKUI,H.P.HAURI, JRNL AUTH 3 K.KATO JRNL TITL STRUCTURAL BASIS FOR THE COOPERATIVE INTERPLAY BETWEEN THE JRNL TITL 2 TWO CAUSATIVE GENE PRODUCTS OF COMBINED FACTOR V AND FACTOR JRNL TITL 3 VIII DEFICIENCY. JRNL REF PROC.NATL.ACAD.SCI.USA V. 107 4034 2010 JRNL REFN ISSN 0027-8424 JRNL PMID 20142513 JRNL DOI 10.1073/PNAS.0908526107 REMARK 2 REMARK 2 RESOLUTION. 1.84 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) : 1.84 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 49.81 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 34626 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) : 0.188 REMARK 3 R VALUE (WORKING SET) : 0.188 REMARK 3 FREE R VALUE : 0.200 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1822 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) : 1.84 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.89 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2469 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.2310 REMARK 3 BIN FREE R VALUE SET COUNT : 132 REMARK 3 BIN FREE R VALUE : 0.2630 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2315 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 28 REMARK 3 SOLVENT ATOMS : 189 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 19.84 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 21.20 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00000 REMARK 3 B22 (A**2) : 0.00000 REMARK 3 B33 (A**2) : 0.00000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.113 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.101 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.062 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.975 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.951 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.944 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2393 ; 0.007 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3237 ; 1.086 ; 1.933 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 290 ; 5.920 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 127 ;33.133 ;24.882 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 372 ;12.431 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 11 ;17.826 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 335 ; 0.077 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1874 ; 0.003 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1039 ; 0.191 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1601 ; 0.306 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 194 ; 0.099 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 16 ; 0.070 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 48 ; 0.163 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 15 ; 0.147 ; 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): 1487 ; 0.644 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2318 ; 1.101 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1034 ; 1.451 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 919 ; 2.287 ; 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 3A4U COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 24-JUL-09. REMARK 100 THE DEPOSITION ID IS D_1000028812. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 13-DEC-08 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.5 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-5A 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 : NULL REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 36530 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.840 REMARK 200 RESOLUTION RANGE LOW (A) : 49.810 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 6.800 REMARK 200 R MERGE (I) : 0.05900 REMARK 200 R SYM (I) : 0.18800 REMARK 200 FOR THE DATA SET : 19.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.84 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.94 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 7.00 REMARK 200 R MERGE FOR SHELL (I) : 0.25700 REMARK 200 R SYM FOR SHELL (I) : 0.18800 REMARK 200 FOR SHELL : 6.100 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: PDB ENTRY 1R1Z REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 46.14 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.28 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20% PEG 3350, 0.2M SODIUM TARTRATE, PH REMARK 280 5.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 289K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 31 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+2/3 REMARK 290 6555 -X,-X+Y,-Z+1/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 66.28067 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 132.56133 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 132.56133 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 66.28067 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2930 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 13430 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -60.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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 ASP A 31 REMARK 465 GLY A 32 REMARK 465 VAL A 33 REMARK 465 GLY A 34 REMARK 465 GLY A 35 REMARK 465 ASP A 36 REMARK 465 PRO A 37 REMARK 465 ALA A 38 REMARK 465 VAL A 39 REMARK 465 ALA A 40 REMARK 465 GLU A 269 REMARK 465 PRO A 270 REMARK 465 GLY A 271 REMARK 465 LYS A 272 REMARK 465 GLU A 273 REMARK 465 PRO A 274 REMARK 465 PRO A 275 REMARK 465 THR A 276 REMARK 465 PRO A 277 REMARK 465 ASP A 278 REMARK 465 LYS A 279 REMARK 465 GLU A 280 REMARK 465 ILE A 281 REMARK 465 SER A 282 REMARK 465 GLU A 283 REMARK 465 LYS A 284 REMARK 465 GLU A 285 REMARK 465 MET B 4 REMARK 465 GLY B 5 REMARK 465 HIS B 6 REMARK 465 HIS B 7 REMARK 465 HIS B 8 REMARK 465 HIS B 9 REMARK 465 HIS B 10 REMARK 465 HIS B 11 REMARK 465 HIS B 12 REMARK 465 HIS B 13 REMARK 465 HIS B 14 REMARK 465 HIS B 15 REMARK 465 SER B 16 REMARK 465 SER B 17 REMARK 465 GLY B 18 REMARK 465 HIS B 19 REMARK 465 ILE B 20 REMARK 465 GLU B 21 REMARK 465 GLY B 22 REMARK 465 ARG B 23 REMARK 465 HIS B 24 REMARK 465 MET B 25 REMARK 465 LEU B 26 REMARK 465 GLU B 27 REMARK 465 GLU B 28 REMARK 465 PRO B 29 REMARK 465 ALA B 30 REMARK 465 ALA B 31 REMARK 465 SER B 32 REMARK 465 PHE B 33 REMARK 465 SER B 34 REMARK 465 GLN B 35 REMARK 465 PRO B 36 REMARK 465 GLY B 37 REMARK 465 SER B 38 REMARK 465 MET B 39 REMARK 465 GLY B 40 REMARK 465 LEU B 41 REMARK 465 ASP B 42 REMARK 465 LYS B 43 REMARK 465 ASN B 44 REMARK 465 THR B 45 REMARK 465 VAL B 46 REMARK 465 HIS B 47 REMARK 465 ASP B 48 REMARK 465 GLN B 49 REMARK 465 GLU B 50 REMARK 465 HIS B 51 REMARK 465 ILE B 52 REMARK 465 MET B 53 REMARK 465 GLU B 54 REMARK 465 HIS B 55 REMARK 465 LEU B 56 REMARK 465 GLU B 57 REMARK 465 GLY B 58 REMARK 465 VAL B 59 REMARK 465 ILE B 60 REMARK 465 ASN B 61 REMARK 465 LYS B 62 REMARK 465 PRO B 63 REMARK 465 GLU B 64 REMARK 465 ALA B 65 REMARK 465 HIS B 99 REMARK 465 VAL B 100 REMARK 465 HIS B 101 REMARK 465 LYS B 102 REMARK 465 GLU B 103 REMARK 465 GLU B 104 REMARK 465 GLY B 105 REMARK 465 SER B 106 REMARK 465 GLU B 107 REMARK 465 GLN B 108 REMARK 465 ALA B 109 REMARK 465 PRO B 110 REMARK 465 LEU B 111 REMARK 465 SER B 144 REMARK 465 LEU B 145 REMARK 465 GLN B 146 REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 HIS A 178 CB CG ND1 CD2 CE1 NE2 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 CYS A 230 -60.32 -109.41 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 286 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 4 O REMARK 620 2 HOH A 14 O 92.3 REMARK 620 3 ASP A 152 OD2 108.5 83.0 REMARK 620 4 PHE A 154 O 97.1 160.3 110.1 REMARK 620 5 ASN A 156 OD1 86.7 78.7 156.6 84.6 REMARK 620 6 ASP A 181 OD1 167.4 82.5 82.4 84.7 81.0 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 287 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 30 O REMARK 620 2 ASP A 155 OD1 145.4 REMARK 620 3 ASP A 157 OD1 142.8 71.7 REMARK 620 4 ASN A 161 OD1 82.9 86.4 108.9 REMARK 620 5 ASN A 162 OD1 70.6 75.6 143.8 83.8 REMARK 620 6 ASP A 181 OD2 85.5 99.4 84.5 166.5 85.9 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B 147 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 81 OD1 REMARK 620 2 ASP B 83 OD1 82.3 REMARK 620 3 ASN B 85 OD1 83.1 78.2 REMARK 620 4 LEU B 87 O 84.0 155.1 79.6 REMARK 620 5 GLU B 92 OE1 116.5 126.8 148.2 78.1 REMARK 620 6 HOH B 159 O 160.3 82.1 82.0 105.8 82.6 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B 148 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 129 OD1 REMARK 620 2 ASN B 131 OD1 84.5 REMARK 620 3 ASP B 133 OD1 87.9 75.8 REMARK 620 4 TYR B 135 O 78.2 153.8 84.1 REMARK 620 5 HOH B 152 O 93.2 73.1 148.6 126.8 REMARK 620 6 HOH B 154 O 163.9 82.1 80.1 111.0 91.5 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 286 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 287 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 288 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 289 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 290 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA B 147 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA B 148 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 222 DBREF 3A4U A 31 285 UNP P49257 LMAN1_HUMAN 31 285 DBREF 3A4U B 27 146 UNP Q8NI22 MCFD2_HUMAN 27 146 SEQADV 3A4U MET B 4 UNP Q8NI22 EXPRESSION TAG SEQADV 3A4U GLY B 5 UNP Q8NI22 EXPRESSION TAG SEQADV 3A4U HIS B 6 UNP Q8NI22 EXPRESSION TAG SEQADV 3A4U HIS B 7 UNP Q8NI22 EXPRESSION TAG SEQADV 3A4U HIS B 8 UNP Q8NI22 EXPRESSION TAG SEQADV 3A4U HIS B 9 UNP Q8NI22 EXPRESSION TAG SEQADV 3A4U HIS B 10 UNP Q8NI22 EXPRESSION TAG SEQADV 3A4U HIS B 11 UNP Q8NI22 EXPRESSION TAG SEQADV 3A4U HIS B 12 UNP Q8NI22 EXPRESSION TAG SEQADV 3A4U HIS B 13 UNP Q8NI22 EXPRESSION TAG SEQADV 3A4U HIS B 14 UNP Q8NI22 EXPRESSION TAG SEQADV 3A4U HIS B 15 UNP Q8NI22 EXPRESSION TAG SEQADV 3A4U SER B 16 UNP Q8NI22 EXPRESSION TAG SEQADV 3A4U SER B 17 UNP Q8NI22 EXPRESSION TAG SEQADV 3A4U GLY B 18 UNP Q8NI22 EXPRESSION TAG SEQADV 3A4U HIS B 19 UNP Q8NI22 EXPRESSION TAG SEQADV 3A4U ILE B 20 UNP Q8NI22 EXPRESSION TAG SEQADV 3A4U GLU B 21 UNP Q8NI22 EXPRESSION TAG SEQADV 3A4U GLY B 22 UNP Q8NI22 EXPRESSION TAG SEQADV 3A4U ARG B 23 UNP Q8NI22 EXPRESSION TAG SEQADV 3A4U HIS B 24 UNP Q8NI22 EXPRESSION TAG SEQADV 3A4U MET B 25 UNP Q8NI22 EXPRESSION TAG SEQADV 3A4U LEU B 26 UNP Q8NI22 EXPRESSION TAG SEQRES 1 A 255 ASP GLY VAL GLY GLY ASP PRO ALA VAL ALA LEU PRO HIS SEQRES 2 A 255 ARG ARG PHE GLU TYR LYS TYR SER PHE LYS GLY PRO HIS SEQRES 3 A 255 LEU VAL GLN SER ASP GLY THR VAL PRO PHE TRP ALA HIS SEQRES 4 A 255 ALA GLY ASN ALA ILE PRO SER SER ASP GLN ILE ARG VAL SEQRES 5 A 255 ALA PRO SER LEU LYS SER GLN ARG GLY SER VAL TRP THR SEQRES 6 A 255 LYS THR LYS ALA ALA PHE GLU ASN TRP GLU VAL GLU VAL SEQRES 7 A 255 THR PHE ARG VAL THR GLY ARG GLY ARG ILE GLY ALA ASP SEQRES 8 A 255 GLY LEU ALA ILE TRP TYR ALA GLU ASN GLN GLY LEU GLU SEQRES 9 A 255 GLY PRO VAL PHE GLY SER ALA ASP LEU TRP ASN GLY VAL SEQRES 10 A 255 GLY ILE PHE PHE ASP SER PHE ASP ASN ASP GLY LYS LYS SEQRES 11 A 255 ASN ASN PRO ALA ILE VAL ILE ILE GLY ASN ASN GLY GLN SEQRES 12 A 255 ILE HIS TYR ASP HIS GLN ASN ASP GLY ALA SER GLN ALA SEQRES 13 A 255 LEU ALA SER CYS GLN ARG ASP PHE ARG ASN LYS PRO TYR SEQRES 14 A 255 PRO VAL ARG ALA LYS ILE THR TYR TYR GLN ASN THR LEU SEQRES 15 A 255 THR VAL MET ILE ASN ASN GLY PHE THR PRO ASP LYS ASN SEQRES 16 A 255 ASP TYR GLU PHE CYS ALA LYS VAL GLU ASN MET ILE ILE SEQRES 17 A 255 PRO ALA GLN GLY HIS PHE GLY ILE SER ALA ALA THR GLY SEQRES 18 A 255 GLY LEU ALA ASP ASP HIS ASP VAL LEU SER PHE LEU THR SEQRES 19 A 255 PHE GLN LEU THR GLU PRO GLY LYS GLU PRO PRO THR PRO SEQRES 20 A 255 ASP LYS GLU ILE SER GLU LYS GLU SEQRES 1 B 143 MET GLY HIS HIS HIS HIS HIS HIS HIS HIS HIS HIS SER SEQRES 2 B 143 SER GLY HIS ILE GLU GLY ARG HIS MET LEU GLU GLU PRO SEQRES 3 B 143 ALA ALA SER PHE SER GLN PRO GLY SER MET GLY LEU ASP SEQRES 4 B 143 LYS ASN THR VAL HIS ASP GLN GLU HIS ILE MET GLU HIS SEQRES 5 B 143 LEU GLU GLY VAL ILE ASN LYS PRO GLU ALA GLU MET SER SEQRES 6 B 143 PRO GLN GLU LEU GLN LEU HIS TYR PHE LYS MET HIS ASP SEQRES 7 B 143 TYR ASP GLY ASN ASN LEU LEU ASP GLY LEU GLU LEU SER SEQRES 8 B 143 THR ALA ILE THR HIS VAL HIS LYS GLU GLU GLY SER GLU SEQRES 9 B 143 GLN ALA PRO LEU MET SER GLU ASP GLU LEU ILE ASN ILE SEQRES 10 B 143 ILE ASP GLY VAL LEU ARG ASP ASP ASP LYS ASN ASN ASP SEQRES 11 B 143 GLY TYR ILE ASP TYR ALA GLU PHE ALA LYS SER LEU GLN HET CA A 286 1 HET CA A 287 1 HET GOL A 288 6 HET GOL A 289 6 HET GOL A 290 6 HET CA B 147 1 HET CA B 148 1 HET GOL B 222 6 HETNAM CA CALCIUM ION HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 CA 4(CA 2+) FORMUL 5 GOL 4(C3 H8 O3) FORMUL 11 HOH *189(H2 O) HELIX 1 1 TYR A 48 SER A 51 5 4 HELIX 2 2 ASP A 177 ASP A 181 5 5 HELIX 3 3 GLY A 182 ALA A 186 5 5 HELIX 4 4 SER B 68 HIS B 80 1 13 HELIX 5 5 GLY B 90 ALA B 96 1 7 HELIX 6 6 SER B 113 ASP B 129 1 17 HELIX 7 7 ASP B 137 LYS B 143 1 7 SHEET 1 A 4 HIS A 43 PHE A 46 0 SHEET 2 A 4 ASP A 256 THR A 268 -1 O GLN A 266 N ARG A 45 SHEET 3 A 4 ILE A 80 ALA A 83 -1 N ALA A 83 O HIS A 257 SHEET 4 A 4 ILE A 74 PRO A 75 -1 N ILE A 74 O ARG A 81 SHEET 1 B 6 PHE A 52 LYS A 53 0 SHEET 2 B 6 ASP A 256 THR A 268 -1 O PHE A 262 N PHE A 52 SHEET 3 B 6 ASN A 103 THR A 113 -1 N THR A 113 O ASP A 256 SHEET 4 B 6 VAL A 201 TYR A 208 -1 O TYR A 207 N TRP A 104 SHEET 5 B 6 THR A 211 ASN A 217 -1 O ASN A 217 N ARG A 202 SHEET 6 B 6 GLU A 228 VAL A 233 -1 O VAL A 233 N LEU A 212 SHEET 1 C 7 TRP A 67 GLY A 71 0 SHEET 2 C 7 ARG A 90 THR A 95 -1 O TRP A 94 N ALA A 68 SHEET 3 C 7 HIS A 243 ALA A 249 -1 O ILE A 246 N VAL A 93 SHEET 4 C 7 GLY A 122 ALA A 128 -1 N TRP A 126 O GLY A 245 SHEET 5 C 7 ASN A 145 ASP A 152 -1 O PHE A 151 N LEU A 123 SHEET 6 C 7 ALA A 164 ASN A 171 -1 O VAL A 166 N PHE A 150 SHEET 7 C 7 ALA A 188 GLN A 191 -1 O CYS A 190 N ILE A 165 SHEET 1 D 2 LEU B 88 ASP B 89 0 SHEET 2 D 2 TYR B 135 ILE B 136 -1 O ILE B 136 N LEU B 88 SSBOND 1 CYS A 190 CYS A 230 1555 1555 2.04 LINK O HOH A 4 CA CA A 286 1555 1555 2.39 LINK O HOH A 14 CA CA A 286 1555 1555 2.46 LINK O HOH A 30 CA CA A 287 1555 1555 2.48 LINK OD2 ASP A 152 CA CA A 286 1555 1555 2.51 LINK O PHE A 154 CA CA A 286 1555 1555 2.33 LINK OD1 ASP A 155 CA CA A 287 1555 1555 2.44 LINK OD1 ASN A 156 CA CA A 286 1555 1555 2.34 LINK OD1 ASP A 157 CA CA A 287 1555 1555 2.51 LINK OD1 ASN A 161 CA CA A 287 1555 1555 2.36 LINK OD1 ASN A 162 CA CA A 287 1555 1555 2.41 LINK OD1 ASP A 181 CA CA A 286 1555 1555 2.31 LINK OD2 ASP A 181 CA CA A 287 1555 1555 2.36 LINK OD1 ASP B 81 CA CA B 147 1555 1555 2.33 LINK OD1 ASP B 83 CA CA B 147 1555 1555 2.36 LINK OD1 ASN B 85 CA CA B 147 1555 1555 2.43 LINK O LEU B 87 CA CA B 147 1555 1555 2.29 LINK OE1 GLU B 92 CA CA B 147 1555 1555 2.47 LINK OD1 ASP B 129 CA CA B 148 1555 1555 2.35 LINK OD1 ASN B 131 CA CA B 148 1555 1555 2.41 LINK OD1 ASP B 133 CA CA B 148 1555 1555 2.39 LINK O TYR B 135 CA CA B 148 1555 1555 2.44 LINK CA CA B 147 O HOH B 159 1555 1555 2.36 LINK CA CA B 148 O HOH B 152 1555 1555 2.37 LINK CA CA B 148 O HOH B 154 1555 1555 2.53 CISPEP 1 LEU A 41 PRO A 42 0 -8.47 CISPEP 2 GLY A 54 PRO A 55 0 4.29 CISPEP 3 ALA A 120 ASP A 121 0 -6.03 CISPEP 4 ASN A 162 PRO A 163 0 -5.09 SITE 1 AC1 6 HOH A 4 HOH A 14 ASP A 152 PHE A 154 SITE 2 AC1 6 ASN A 156 ASP A 181 SITE 1 AC2 7 HOH A 30 ASP A 155 ASP A 157 ASN A 161 SITE 2 AC2 7 ASN A 162 ASP A 181 HOH A 308 SITE 1 AC3 9 LYS A 53 GLY A 54 PRO A 55 HIS A 56 SITE 2 AC3 9 LEU A 57 HOH A 315 TYR B 82 LEU B 91 SITE 3 AC3 9 HOH B 150 SITE 1 AC4 6 HOH A 11 ASP A 78 GLN A 79 SER A 85 SITE 2 AC4 6 LYS A 87 GLY A 252 SITE 1 AC5 8 PHE A 101 GLU A 102 TRP A 104 TYR A 207 SITE 2 AC5 8 ILE A 238 PRO A 239 HOH A 336 HOH A 366 SITE 1 AC6 6 ASP B 81 ASP B 83 ASN B 85 LEU B 87 SITE 2 AC6 6 GLU B 92 HOH B 159 SITE 1 AC7 7 ASP B 129 ASN B 131 ASP B 133 TYR B 135 SITE 2 AC7 7 HOH B 152 HOH B 154 HOH B 163 SITE 1 AC8 7 LYS A 96 THR A 97 HOH A 297 GLU B 114 SITE 2 AC8 7 ASP B 115 HOH B 178 HOH B 189 CRYST1 59.410 59.410 198.842 90.00 90.00 120.00 P 31 2 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 0.016832 0.009718 0.000000 0.00000 SCALE2 0.000000 0.019436 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005029 0.00000