HEADER CELL ADHESION 03-DEC-15 5F4T TITLE CRYSTAL STRUCTURE OF THE HUMAN SPERM IZUMO1 RESIDUES 22-254 COMPND MOL_ID: 1; COMPND 2 MOLECULE: IZUMO SPERM-EGG FUSION PROTEIN 1; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 22-254; COMPND 5 SYNONYM: OOCYTE BINDING/FUSION FACTOR,OBF,SPERM-SPECIFIC PROTEIN COMPND 6 IZUMO; 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: IZUMO1; SOURCE 6 EXPRESSION_SYSTEM: DROSOPHILA MELANOGASTER; SOURCE 7 EXPRESSION_SYSTEM_COMMON: FRUIT FLY; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 7227 KEYWDS GLYCOPROTEIN, MEMBRANE-BOUND, CYSTEINE-RICH, ADHESION, FUSION, CELL KEYWDS 2 ADHESION EXPDTA X-RAY DIFFRACTION AUTHOR H.AYDIN,A.SULTANA,J.E.LEE REVDAT 5 27-SEP-23 5F4T 1 HETSYN REVDAT 4 29-JUL-20 5F4T 1 COMPND JRNL REMARK HETNAM REVDAT 4 2 1 LINK SITE REVDAT 3 06-JUL-16 5F4T 1 JRNL REVDAT 2 29-JUN-16 5F4T 1 JRNL REVDAT 1 15-JUN-16 5F4T 0 JRNL AUTH H.AYDIN,A.SULTANA,S.LI,A.THAVALINGAM,J.E.LEE JRNL TITL MOLECULAR ARCHITECTURE OF THE HUMAN SPERM IZUMO1 AND EGG JRNL TITL 2 JUNO FERTILIZATION COMPLEX. JRNL REF NATURE V. 534 562 2016 JRNL REFN ESSN 1476-4687 JRNL PMID 27309818 JRNL DOI 10.1038/NATURE18595 REMARK 2 REMARK 2 RESOLUTION. 3.08 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.9_1692 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) : 3.08 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 40.64 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 2.010 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.4 REMARK 3 NUMBER OF REFLECTIONS : 6483 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.221 REMARK 3 R VALUE (WORKING SET) : 0.219 REMARK 3 FREE R VALUE : 0.248 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.170 REMARK 3 FREE R VALUE TEST SET COUNT : 335 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 40.6458 - 3.8837 0.98 3090 173 0.1962 0.2140 REMARK 3 2 3.8837 - 3.0829 0.97 3058 162 0.2727 0.3303 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) : 0.400 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 28.810 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 37.50 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 : 0.004 1791 REMARK 3 ANGLE : 0.938 2440 REMARK 3 CHIRALITY : 0.038 287 REMARK 3 PLANARITY : 0.005 311 REMARK 3 DIHEDRAL : 14.393 604 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 9 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 22 THROUGH 50 ) REMARK 3 ORIGIN FOR THE GROUP (A): -11.7127 -11.9379 -5.3897 REMARK 3 T TENSOR REMARK 3 T11: 0.6795 T22: 0.6872 REMARK 3 T33: 0.6900 T12: -0.1124 REMARK 3 T13: -0.0208 T23: -0.0250 REMARK 3 L TENSOR REMARK 3 L11: 4.3294 L22: 5.8911 REMARK 3 L33: 3.9986 L12: -1.3886 REMARK 3 L13: 0.3015 L23: 0.2078 REMARK 3 S TENSOR REMARK 3 S11: -0.1506 S12: -0.0377 S13: 0.3028 REMARK 3 S21: 0.0723 S22: -0.1812 S23: -1.2482 REMARK 3 S31: -0.6523 S32: 0.2991 S33: 0.2213 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 51 THROUGH 63 ) REMARK 3 ORIGIN FOR THE GROUP (A): -19.7932 -8.4226 -3.4518 REMARK 3 T TENSOR REMARK 3 T11: 1.1770 T22: 0.5070 REMARK 3 T33: 0.7387 T12: -0.0035 REMARK 3 T13: 0.1789 T23: -0.0096 REMARK 3 L TENSOR REMARK 3 L11: 2.6086 L22: 2.5532 REMARK 3 L33: 4.9600 L12: 2.1806 REMARK 3 L13: -0.6990 L23: -2.4311 REMARK 3 S TENSOR REMARK 3 S11: -0.3304 S12: 0.6473 S13: 1.0251 REMARK 3 S21: 1.4401 S22: 0.9997 S23: 0.7083 REMARK 3 S31: -0.7273 S32: -0.0781 S33: 0.1687 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 64 THROUGH 79 ) REMARK 3 ORIGIN FOR THE GROUP (A): -32.8308 -22.5716 1.7284 REMARK 3 T TENSOR REMARK 3 T11: 0.7194 T22: 0.9347 REMARK 3 T33: 1.0468 T12: 0.0105 REMARK 3 T13: 0.0673 T23: 0.3552 REMARK 3 L TENSOR REMARK 3 L11: 1.8624 L22: 1.8203 REMARK 3 L33: 1.9227 L12: -1.8380 REMARK 3 L13: 1.2629 L23: -1.3423 REMARK 3 S TENSOR REMARK 3 S11: -0.2665 S12: -0.4291 S13: -0.0770 REMARK 3 S21: 0.1257 S22: 1.1079 S23: 0.9143 REMARK 3 S31: -0.0670 S32: -1.2017 S33: -0.8283 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 80 THROUGH 132 ) REMARK 3 ORIGIN FOR THE GROUP (A): -21.7143 -20.8917 -9.0330 REMARK 3 T TENSOR REMARK 3 T11: 0.7933 T22: 0.5124 REMARK 3 T33: 0.4773 T12: -0.0467 REMARK 3 T13: 0.0060 T23: 0.0536 REMARK 3 L TENSOR REMARK 3 L11: 4.4832 L22: 4.3683 REMARK 3 L33: 3.1764 L12: 0.3721 REMARK 3 L13: 0.7389 L23: -1.6366 REMARK 3 S TENSOR REMARK 3 S11: -0.4513 S12: 0.1579 S13: 0.0754 REMARK 3 S21: -1.1870 S22: 0.3786 S23: -0.0402 REMARK 3 S31: 0.3028 S32: -0.0487 S33: -0.0247 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 133 THROUGH 160 ) REMARK 3 ORIGIN FOR THE GROUP (A): -29.1204 -31.4795 11.8721 REMARK 3 T TENSOR REMARK 3 T11: 0.5240 T22: 0.5989 REMARK 3 T33: 0.7053 T12: 0.0195 REMARK 3 T13: 0.0233 T23: 0.0409 REMARK 3 L TENSOR REMARK 3 L11: 2.7521 L22: 2.4456 REMARK 3 L33: 4.1653 L12: -0.5600 REMARK 3 L13: -0.7477 L23: 1.1139 REMARK 3 S TENSOR REMARK 3 S11: 0.1365 S12: -0.2731 S13: -0.0235 REMARK 3 S21: -0.1200 S22: -0.0327 S23: 1.0035 REMARK 3 S31: -0.3031 S32: -0.2025 S33: -0.0033 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 161 THROUGH 195 ) REMARK 3 ORIGIN FOR THE GROUP (A): -28.4206 -53.8714 11.3037 REMARK 3 T TENSOR REMARK 3 T11: 0.6822 T22: 0.5950 REMARK 3 T33: 0.5963 T12: -0.0311 REMARK 3 T13: -0.1473 T23: 0.1013 REMARK 3 L TENSOR REMARK 3 L11: 2.4857 L22: 6.0884 REMARK 3 L33: 3.4251 L12: 2.4794 REMARK 3 L13: -0.9998 L23: 0.0134 REMARK 3 S TENSOR REMARK 3 S11: -0.0416 S12: 0.3394 S13: -0.0230 REMARK 3 S21: 0.2204 S22: 0.6175 S23: 0.1461 REMARK 3 S31: 0.5594 S32: -0.1215 S33: -0.4901 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 196 THROUGH 210 ) REMARK 3 ORIGIN FOR THE GROUP (A): -28.4925 -60.7477 24.2005 REMARK 3 T TENSOR REMARK 3 T11: 0.7379 T22: 0.9761 REMARK 3 T33: 0.7195 T12: -0.1376 REMARK 3 T13: -0.0278 T23: 0.3550 REMARK 3 L TENSOR REMARK 3 L11: 1.1900 L22: 2.9048 REMARK 3 L33: 2.5820 L12: 1.1630 REMARK 3 L13: -0.0300 L23: -0.3359 REMARK 3 S TENSOR REMARK 3 S11: -0.2537 S12: -0.6878 S13: -0.7464 REMARK 3 S21: 0.4062 S22: 0.1795 S23: 0.0784 REMARK 3 S31: 0.5035 S32: -0.8843 S33: 0.1530 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 211 THROUGH 243 ) REMARK 3 ORIGIN FOR THE GROUP (A): -25.4415 -58.0724 17.7859 REMARK 3 T TENSOR REMARK 3 T11: 0.7984 T22: 0.5851 REMARK 3 T33: 0.5590 T12: -0.1476 REMARK 3 T13: -0.0876 T23: 0.1735 REMARK 3 L TENSOR REMARK 3 L11: 4.1705 L22: 3.0493 REMARK 3 L33: 2.1048 L12: 1.4450 REMARK 3 L13: 0.0610 L23: -0.7518 REMARK 3 S TENSOR REMARK 3 S11: 0.1868 S12: -0.3348 S13: -0.2417 REMARK 3 S21: 0.6806 S22: -0.0501 S23: 0.1296 REMARK 3 S31: 1.0989 S32: -0.5245 S33: -0.0572 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 244 THROUGH 256 ) REMARK 3 ORIGIN FOR THE GROUP (A): -32.8013 -64.0907 12.3339 REMARK 3 T TENSOR REMARK 3 T11: 1.1244 T22: 0.9848 REMARK 3 T33: 0.7515 T12: -0.2515 REMARK 3 T13: -0.2444 T23: 0.0979 REMARK 3 L TENSOR REMARK 3 L11: 0.7548 L22: 3.2814 REMARK 3 L33: 1.4290 L12: -0.5297 REMARK 3 L13: -0.8952 L23: 1.1582 REMARK 3 S TENSOR REMARK 3 S11: 0.6287 S12: 0.8094 S13: -0.3867 REMARK 3 S21: 0.0673 S22: -0.3044 S23: 0.7681 REMARK 3 S31: 1.4648 S32: -0.7875 S33: 0.2585 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 5F4T COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 04-DEC-15. REMARK 100 THE DEPOSITION ID IS D_1000216017. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 30-APR-15 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : CLSI REMARK 200 BEAMLINE : 08ID-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97949 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RAYONIX MX-300 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.5.8 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 6484 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.080 REMARK 200 RESOLUTION RANGE LOW (A) : 63.020 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.4 REMARK 200 DATA REDUNDANCY : 2.900 REMARK 200 R MERGE (I) : 0.11500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 9.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.08 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.30 REMARK 200 COMPLETENESS FOR SHELL (%) : 91.3 REMARK 200 DATA REDUNDANCY IN SHELL : 2.70 REMARK 200 R MERGE FOR SHELL (I) : 0.47400 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.100 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 5F4E REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 64.76 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.49 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.07 M SODIUM ACETATE (PH 4.6), 5.6% REMARK 280 (W/V) PEG 4000 AND 30% (V/V) GLYCEROL, VAPOR DIFFUSION, SITTING REMARK 280 DROP, TEMPERATURE 295K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: H 3 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 X+2/3,Y+1/3,Z+1/3 REMARK 290 5555 -Y+2/3,X-Y+1/3,Z+1/3 REMARK 290 6555 -X+Y+2/3,-X+1/3,Z+1/3 REMARK 290 7555 X+1/3,Y+2/3,Z+2/3 REMARK 290 8555 -Y+1/3,X-Y+2/3,Z+2/3 REMARK 290 9555 -X+Y+1/3,-X+2/3,Z+2/3 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 0.00000 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 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 63.01950 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 36.38433 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 20.29833 REMARK 290 SMTRY1 5 -0.500000 -0.866025 0.000000 63.01950 REMARK 290 SMTRY2 5 0.866025 -0.500000 0.000000 36.38433 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 20.29833 REMARK 290 SMTRY1 6 -0.500000 0.866025 0.000000 63.01950 REMARK 290 SMTRY2 6 -0.866025 -0.500000 0.000000 36.38433 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 20.29833 REMARK 290 SMTRY1 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 72.76865 REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 40.59667 REMARK 290 SMTRY1 8 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 8 0.866025 -0.500000 0.000000 72.76865 REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 40.59667 REMARK 290 SMTRY1 9 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 -0.500000 0.000000 72.76865 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 40.59667 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: A 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 VAL A 257 REMARK 465 LEU A 258 REMARK 465 PRO A 259 REMARK 465 ARG A 260 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 LYS A 34 CG CD CE NZ REMARK 470 GLU A 37 CG CD OE1 OE2 REMARK 470 LYS A 38 CG CD CE NZ REMARK 470 LEU A 41 CG CD1 CD2 REMARK 470 ASP A 46 CG OD1 OD2 REMARK 470 LYS A 48 CG CD CE NZ REMARK 470 LYS A 51 CG CD CE NZ REMARK 470 GLU A 55 CG CD OE1 OE2 REMARK 470 ARG A 56 NE CZ NH1 NH2 REMARK 470 LYS A 62 CG CD CE NZ REMARK 470 GLU A 66 CG CD OE1 OE2 REMARK 470 SER A 68 OG REMARK 470 ASN A 70 CG OD1 ND2 REMARK 470 GLU A 71 CG CD OE1 OE2 REMARK 470 ASP A 72 CG OD1 OD2 REMARK 470 LYS A 95 CG CD CE NZ REMARK 470 ASP A 101 CG OD1 OD2 REMARK 470 LEU A 106 CG CD1 CD2 REMARK 470 LYS A 109 CG CD CE NZ REMARK 470 GLU A 110 CG CD OE1 OE2 REMARK 470 LYS A 131 CG CD CE NZ REMARK 470 LYS A 138 CG CD CE NZ REMARK 470 LYS A 150 CG CD CE NZ REMARK 470 LYS A 153 CG CD CE NZ REMARK 470 LYS A 161 CG CD CE NZ REMARK 470 TYR A 163 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 ASP A 164 CG OD1 OD2 REMARK 470 GLU A 171 CG CD OE1 OE2 REMARK 470 GLN A 174 CG CD OE1 NE2 REMARK 470 GLU A 176 CG CD OE1 OE2 REMARK 470 GLU A 183 CG CD OE1 OE2 REMARK 470 ASN A 205 CG OD1 ND2 REMARK 470 GLU A 215 CG CD OE1 OE2 REMARK 470 LYS A 220 CG CD CE NZ REMARK 470 ASN A 239 CG OD1 ND2 REMARK 470 ARG A 256 CG CD NE CZ NH1 NH2 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 ND2 ASN A 204 C2 NAG A 301 1.98 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 GLU A 132 -45.64 -130.08 REMARK 500 LYS A 161 -156.66 -144.85 REMARK 500 MET A 175 -1.49 70.14 REMARK 500 ASN A 204 -8.90 -55.97 REMARK 500 ASN A 205 -11.00 77.40 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5F4E RELATED DB: PDB REMARK 900 RELATED ID: 5F4Q RELATED DB: PDB REMARK 900 RELATED ID: 5F4V RELATED DB: PDB DBREF 5F4T A 22 254 UNP Q8IYV9 IZUM1_HUMAN 22 254 SEQADV 5F4T GLY A 255 UNP Q8IYV9 EXPRESSION TAG SEQADV 5F4T ARG A 256 UNP Q8IYV9 EXPRESSION TAG SEQADV 5F4T VAL A 257 UNP Q8IYV9 EXPRESSION TAG SEQADV 5F4T LEU A 258 UNP Q8IYV9 EXPRESSION TAG SEQADV 5F4T PRO A 259 UNP Q8IYV9 EXPRESSION TAG SEQADV 5F4T ARG A 260 UNP Q8IYV9 EXPRESSION TAG SEQRES 1 A 239 CYS VAL ILE CYS ASP PRO SER VAL VAL LEU ALA LEU LYS SEQRES 2 A 239 SER LEU GLU LYS ASP TYR LEU PRO GLY HIS LEU ASP ALA SEQRES 3 A 239 LYS HIS HIS LYS ALA MET MET GLU ARG VAL GLU ASN ALA SEQRES 4 A 239 VAL LYS ASP PHE GLN GLU LEU SER LEU ASN GLU ASP ALA SEQRES 5 A 239 TYR MET GLY VAL VAL ASP GLU ALA THR LEU GLN LYS GLY SEQRES 6 A 239 SER TRP SER LEU LEU LYS ASP LEU LYS ARG ILE THR ASP SEQRES 7 A 239 SER ASP VAL LYS GLY ASP LEU PHE VAL LYS GLU LEU PHE SEQRES 8 A 239 TRP MET LEU HIS LEU GLN LYS GLU THR PHE ALA THR TYR SEQRES 9 A 239 VAL ALA ARG PHE GLN LYS GLU ALA TYR CYS PRO ASN LYS SEQRES 10 A 239 CYS GLY VAL MET LEU GLN THR LEU ILE TRP CYS LYS ASN SEQRES 11 A 239 CYS LYS LYS GLU VAL HIS ALA CYS ARG LYS SER TYR ASP SEQRES 12 A 239 CYS GLY GLU ARG ASN VAL GLU VAL PRO GLN MET GLU ASP SEQRES 13 A 239 MET ILE LEU ASP CYS GLU LEU ASN TRP HIS GLN ALA SER SEQRES 14 A 239 GLU GLY LEU THR ASP TYR SER PHE TYR ARG VAL TRP GLY SEQRES 15 A 239 ASN ASN THR GLU THR LEU VAL SER LYS GLY LYS GLU ALA SEQRES 16 A 239 THR LEU THR LYS PRO MET VAL GLY PRO GLU ASP ALA GLY SEQRES 17 A 239 SER TYR ARG CYS GLU LEU GLY SER VAL ASN SER SER PRO SEQRES 18 A 239 ALA THR ILE ILE ASN PHE HIS VAL THR VAL LEU PRO GLY SEQRES 19 A 239 ARG VAL LEU PRO ARG HET NAG A 301 14 HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE 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 2 NAG C8 H15 N O6 FORMUL 3 HOH *4(H2 O) HELIX 1 AA1 CYS A 22 CYS A 25 5 4 HELIX 2 AA2 ASP A 26 TYR A 40 1 15 HELIX 3 AA3 TYR A 40 LEU A 45 1 6 HELIX 4 AA4 ASP A 46 HIS A 49 5 4 HELIX 5 AA5 HIS A 50 LYS A 62 1 13 HELIX 6 AA6 ASP A 79 ASP A 101 1 23 HELIX 7 AA7 LEU A 106 ALA A 133 1 28 HELIX 8 AA8 TRP A 186 SER A 190 5 5 SHEET 1 AA1 3 VAL A 77 VAL A 78 0 SHEET 2 AA1 3 VAL A 141 TRP A 148 -1 O ILE A 147 N VAL A 78 SHEET 3 AA1 3 LYS A 153 ARG A 160 -1 O GLU A 155 N LEU A 146 SHEET 1 AA2 5 GLY A 166 PRO A 173 0 SHEET 2 AA2 5 SER A 240 LEU A 253 1 O ASN A 247 N ARG A 168 SHEET 3 AA2 5 GLY A 229 SER A 237 -1 N LEU A 235 O THR A 244 SHEET 4 AA2 5 LEU A 193 VAL A 201 -1 N ASP A 195 O GLY A 236 SHEET 5 AA2 5 GLU A 207 GLY A 213 -1 O VAL A 210 N PHE A 198 SHEET 1 AA3 2 MET A 178 ASP A 181 0 SHEET 2 AA3 2 THR A 217 LYS A 220 -1 O LYS A 220 N MET A 178 SSBOND 1 CYS A 22 CYS A 149 1555 1555 2.03 SSBOND 2 CYS A 25 CYS A 152 1555 1555 2.03 SSBOND 3 CYS A 135 CYS A 159 1555 1555 2.03 SSBOND 4 CYS A 139 CYS A 165 1555 1555 2.06 SSBOND 5 CYS A 182 CYS A 233 1555 1555 2.03 LINK ND2 ASN A 204 C1 NAG A 301 1555 1555 1.54 CRYST1 126.039 126.039 60.895 90.00 90.00 120.00 H 3 9 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 0.007934 0.004581 0.000000 0.00000 SCALE2 0.000000 0.009161 0.000000 0.00000 SCALE3 0.000000 0.000000 0.016422 0.00000