HEADER TRANSFERASE, SUGAR BINDING PROTEIN 16-JUN-16 5GGG TITLE CRYSTAL STRUCTURE OF HUMAN PROTEIN O-MANNOSE BETA-1,2-N- TITLE 2 ACETYLGLUCOSAMINYLTRANSFERASE FORM I COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROTEIN O-LINKED-MANNOSE BETA-1,2-N- COMPND 3 ACETYLGLUCOSAMINYLTRANSFERASE 1; COMPND 4 CHAIN: A; COMPND 5 FRAGMENT: UNP RESIDUES 92-660; COMPND 6 SYNONYM: POMGNT1,UDP-GLCNAC:ALPHA-D-MANNOSIDE BETA-1,2-N- COMPND 7 ACETYLGLUCOSAMINYLTRANSFERASE I.2,GNT I.2; COMPND 8 EC: 2.4.1.-; COMPND 9 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: POMGNT1, MGAT1.2, UNQ746/PRO1475; SOURCE 6 EXPRESSION_SYSTEM: HOMO SAPIENS; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 9606; SOURCE 8 EXPRESSION_SYSTEM_CELL_LINE: HEK-293T; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID KEYWDS GLYCOSYLTRANSFERASE, O-MANNOSYLATION, ALPHA-DYSTROGLYCAN, KEYWDS 2 TRANSFERASE, SUGAR BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR N.KUWABARA,T.SENDA,R.KATO REVDAT 3 26-FEB-20 5GGG 1 JRNL REMARK REVDAT 2 31-AUG-16 5GGG 1 JRNL REVDAT 1 10-AUG-16 5GGG 0 JRNL AUTH N.KUWABARA,H.MANYA,T.YAMADA,H.TATENO,M.KANAGAWA,K.KOBAYASHI, JRNL AUTH 2 K.AKASAKA-MANYA,Y.HIROSE,M.MIZUNO,M.IKEGUCHI,T.TODA, JRNL AUTH 3 J.HIRABAYASHI,T.SENDA,T.ENDO,R.KATO JRNL TITL CARBOHYDRATE-BINDING DOMAIN OF THE POMGNT1 STEM REGION JRNL TITL 2 MODULATES O-MANNOSYLATION SITES OF ALPHA-DYSTROGLYCAN JRNL REF PROC.NATL.ACAD.SCI.USA V. 113 9280 2016 JRNL REFN ESSN 1091-6490 JRNL PMID 27493216 JRNL DOI 10.1073/PNAS.1525545113 REMARK 2 REMARK 2 RESOLUTION. 3.00 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 44.68 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 45699 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.207 REMARK 3 R VALUE (WORKING SET) : 0.205 REMARK 3 FREE R VALUE : 0.241 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 6.560 REMARK 3 FREE R VALUE TEST SET COUNT : 3000 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 44.6892 - 8.2602 0.99 2005 141 0.1974 0.1956 REMARK 3 2 8.2602 - 6.5630 1.00 2038 139 0.2162 0.2941 REMARK 3 3 6.5630 - 5.7353 1.00 2023 151 0.2201 0.2482 REMARK 3 4 5.7353 - 5.2118 1.00 2033 139 0.1911 0.2221 REMARK 3 5 5.2118 - 4.8387 1.00 2042 142 0.1867 0.2105 REMARK 3 6 4.8387 - 4.5537 1.00 2021 146 0.1692 0.1884 REMARK 3 7 4.5537 - 4.3259 1.00 2054 144 0.1630 0.2048 REMARK 3 8 4.3259 - 4.1377 1.00 2015 142 0.1752 0.2491 REMARK 3 9 4.1377 - 3.9785 1.00 2044 141 0.1869 0.2185 REMARK 3 10 3.9785 - 3.8413 1.00 2020 146 0.1909 0.2095 REMARK 3 11 3.8413 - 3.7213 1.00 2042 142 0.1908 0.2660 REMARK 3 12 3.7213 - 3.6150 1.00 2038 141 0.2243 0.2481 REMARK 3 13 3.6150 - 3.5198 1.00 2041 146 0.2198 0.2756 REMARK 3 14 3.5198 - 3.4340 1.00 2013 137 0.2319 0.2941 REMARK 3 15 3.4340 - 3.3559 1.00 2046 143 0.2214 0.2749 REMARK 3 16 3.3559 - 3.2845 1.00 2021 135 0.2329 0.2842 REMARK 3 17 3.2845 - 3.2189 1.00 2042 148 0.2529 0.2954 REMARK 3 18 3.2189 - 3.1581 1.00 2044 147 0.2683 0.3618 REMARK 3 19 3.1581 - 3.1017 1.00 2026 148 0.2761 0.3464 REMARK 3 20 3.1017 - 3.0492 1.00 2060 142 0.3051 0.3082 REMARK 3 21 3.0492 - 3.0000 1.00 2031 140 0.3523 0.3934 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL 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) : 24.210 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 : 0.005 4331 REMARK 3 ANGLE : 0.947 5908 REMARK 3 CHIRALITY : 0.054 649 REMARK 3 PLANARITY : 0.008 764 REMARK 3 DIHEDRAL : 18.025 2579 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 5 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 97 THROUGH 226 ) REMARK 3 ORIGIN FOR THE GROUP (A): -4.6717 25.3394 2.1191 REMARK 3 T TENSOR REMARK 3 T11: 0.8423 T22: 1.7023 REMARK 3 T33: 0.7812 T12: -0.0635 REMARK 3 T13: 0.0797 T23: 0.1710 REMARK 3 L TENSOR REMARK 3 L11: 6.4425 L22: 3.0149 REMARK 3 L33: 8.0441 L12: 0.0390 REMARK 3 L13: 2.4483 L23: 0.1188 REMARK 3 S TENSOR REMARK 3 S11: 0.8268 S12: -0.0562 S13: 0.1874 REMARK 3 S21: 0.0999 S22: 0.0947 S23: 0.3539 REMARK 3 S31: 0.8834 S32: -2.3986 S33: -0.8521 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 227 THROUGH 269 ) REMARK 3 ORIGIN FOR THE GROUP (A): -8.9179 32.5848 -6.5815 REMARK 3 T TENSOR REMARK 3 T11: 0.7149 T22: 1.8499 REMARK 3 T33: 1.2609 T12: 0.2781 REMARK 3 T13: 0.3757 T23: 0.3287 REMARK 3 L TENSOR REMARK 3 L11: 3.0459 L22: 1.2400 REMARK 3 L33: 4.9055 L12: -1.1055 REMARK 3 L13: 2.0152 L23: 0.9920 REMARK 3 S TENSOR REMARK 3 S11: 0.7496 S12: 0.0831 S13: 0.6171 REMARK 3 S21: 0.1244 S22: 0.2885 S23: 0.4569 REMARK 3 S31: 0.1849 S32: -2.3272 S33: -0.5198 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 270 THROUGH 500 ) REMARK 3 ORIGIN FOR THE GROUP (A): 20.3238 29.4714 -25.1307 REMARK 3 T TENSOR REMARK 3 T11: 0.3290 T22: 1.1495 REMARK 3 T33: 0.6210 T12: 0.1397 REMARK 3 T13: 0.0388 T23: 0.0830 REMARK 3 L TENSOR REMARK 3 L11: 3.4640 L22: 2.0197 REMARK 3 L33: 3.5584 L12: -0.1769 REMARK 3 L13: -0.9451 L23: -0.1635 REMARK 3 S TENSOR REMARK 3 S11: 0.2931 S12: 0.3040 S13: 0.3326 REMARK 3 S21: 0.0661 S22: 0.0751 S23: 0.0228 REMARK 3 S31: -0.2552 S32: -0.2822 S33: -0.3313 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 501 THROUGH 618 ) REMARK 3 ORIGIN FOR THE GROUP (A): 43.7037 31.8171 -14.7930 REMARK 3 T TENSOR REMARK 3 T11: 0.4752 T22: 1.3851 REMARK 3 T33: 0.6840 T12: -0.1410 REMARK 3 T13: 0.0847 T23: -0.0315 REMARK 3 L TENSOR REMARK 3 L11: 4.1239 L22: 1.6421 REMARK 3 L33: 2.0426 L12: -2.1391 REMARK 3 L13: 1.0517 L23: -0.6046 REMARK 3 S TENSOR REMARK 3 S11: 0.2218 S12: -0.5607 S13: 0.4879 REMARK 3 S21: 0.2818 S22: -0.1794 S23: 0.1754 REMARK 3 S31: -0.2846 S32: 0.4260 S33: 0.0076 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 619 THROUGH 647 ) REMARK 3 ORIGIN FOR THE GROUP (A): 53.0995 25.4201 -12.9585 REMARK 3 T TENSOR REMARK 3 T11: -0.2054 T22: 1.8737 REMARK 3 T33: 0.5853 T12: -0.2016 REMARK 3 T13: -0.0275 T23: -0.0227 REMARK 3 L TENSOR REMARK 3 L11: 2.0373 L22: 0.4489 REMARK 3 L33: 0.3478 L12: 0.4411 REMARK 3 L13: -0.2448 L23: -0.0237 REMARK 3 S TENSOR REMARK 3 S11: 0.0675 S12: -0.6478 S13: 0.2898 REMARK 3 S21: 0.1387 S22: -0.0202 S23: -0.2274 REMARK 3 S31: 0.1719 S32: 0.2723 S33: 0.1162 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: THE STRUCTURE FACTOR FILE CONTAINS REMARK 3 FRIEDEL PAIRS IN I_PLUS/MINUS COLUMNS REMARK 4 REMARK 4 5GGG COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 23-JUN-16. REMARK 100 THE DEPOSITION ID IS D_1300000736. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 31-JAN-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PHOTON FACTORY REMARK 200 BEAMLINE : AR-NE3A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0000 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 : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 45699 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.000 REMARK 200 RESOLUTION RANGE LOW (A) : 44.684 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 14.20 REMARK 200 R MERGE (I) : 0.06700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 30.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.18 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 14.80 REMARK 200 R MERGE FOR SHELL (I) : 0.65700 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 4.600 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: AUTOSHARP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 72.64 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 4.49 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NA MALONATE, PH 6.5, VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+1/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+3/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+1/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+3/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 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 118.05200 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 49.95850 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 49.95850 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 59.02600 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 49.95850 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 49.95850 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 177.07800 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 49.95850 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 49.95850 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 59.02600 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 49.95850 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 49.95850 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 177.07800 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 118.05200 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 GLY A 92 REMARK 465 SER A 93 REMARK 465 GLY A 94 REMARK 465 PRO A 95 REMARK 465 ARG A 96 REMARK 465 VAL A 504 REMARK 465 GLY A 505 REMARK 465 LEU A 506 REMARK 465 ASN A 507 REMARK 465 MET A 508 REMARK 465 ASN A 509 REMARK 465 GLY A 510 REMARK 465 TYR A 511 REMARK 465 PHE A 512 REMARK 465 HIS A 513 REMARK 465 GLU A 514 REMARK 465 ALA A 515 REMARK 465 TYR A 516 REMARK 465 PHE A 517 REMARK 465 LYS A 518 REMARK 465 PRO A 648 REMARK 465 LYS A 649 REMARK 465 GLU A 650 REMARK 465 GLU A 651 REMARK 465 GLY A 652 REMARK 465 ALA A 653 REMARK 465 PRO A 654 REMARK 465 GLY A 655 REMARK 465 ALA A 656 REMARK 465 PRO A 657 REMARK 465 GLU A 658 REMARK 465 GLN A 659 REMARK 465 THR A 660 REMARK 465 LEU A 661 REMARK 465 GLU A 662 REMARK 465 LEU A 663 REMARK 465 GLU A 664 REMARK 465 VAL A 665 REMARK 465 LEU A 666 REMARK 465 PHE A 667 REMARK 465 GLN A 668 REMARK 465 GLY A 669 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 ARG A 97 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 107 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 186 CG CD CE NZ REMARK 470 ARG A 194 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 215 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 216 CG CD CE NZ REMARK 470 GLU A 250 CG CD OE1 OE2 REMARK 470 GLU A 251 CG CD OE1 OE2 REMARK 470 LYS A 282 CG CD CE NZ REMARK 470 LYS A 387 CG CD CE NZ REMARK 470 GLU A 470 CG CD OE1 OE2 REMARK 470 GLU A 563 CG CD OE1 OE2 REMARK 470 GLU A 571 CG CD OE1 OE2 REMARK 470 ARG A 580 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 582 CG CD OE1 OE2 REMARK 470 LYS A 583 CG CD CE NZ REMARK 470 LYS A 617 CG CD CE NZ REMARK 470 LYS A 618 CG CD CE NZ REMARK 470 LYS A 634 CG CD CE NZ 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 OG1 THR A 151 O GLY A 181 2.08 REMARK 500 OG SER A 105 O VAL A 177 2.10 REMARK 500 O GLY A 128 NE2 HIS A 132 2.13 REMARK 500 O LEU A 136 NH1 ARG A 171 2.17 REMARK 500 O ASP A 258 NH2 ARG A 263 2.19 REMARK 500 OG SER A 228 O SER A 233 2.19 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 LEU A 614 CA - CB - CG ANGL. DEV. = 14.1 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 ASP A 122 79.76 -168.51 REMARK 500 THR A 140 -12.01 -147.16 REMARK 500 HIS A 155 -13.88 86.05 REMARK 500 THR A 176 105.82 -161.36 REMARK 500 ASP A 179 -86.52 52.36 REMARK 500 LYS A 186 156.72 64.60 REMARK 500 LEU A 196 24.10 -77.49 REMARK 500 ARG A 207 16.06 55.26 REMARK 500 ASP A 283 73.51 49.90 REMARK 500 SER A 290 69.83 -112.48 REMARK 500 ASP A 296 25.89 45.61 REMARK 500 LYS A 364 -123.10 69.08 REMARK 500 ASP A 395 35.14 -96.46 REMARK 500 GLU A 435 -42.14 -140.79 REMARK 500 GLU A 461 -51.57 -121.62 REMARK 500 LEU A 472 70.13 -102.21 REMARK 500 ASP A 584 2.38 -67.32 REMARK 500 PRO A 630 1.05 -68.11 REMARK 500 PRO A 646 -76.75 -87.22 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5GGF RELATED DB: PDB REMARK 900 RELATED ID: 5GGI RELATED DB: PDB REMARK 900 RELATED ID: 5GGJ RELATED DB: PDB REMARK 900 RELATED ID: 5GGK RELATED DB: PDB REMARK 900 RELATED ID: 5GGL RELATED DB: PDB REMARK 900 RELATED ID: 5GGN RELATED DB: PDB REMARK 900 RELATED ID: 5GGO RELATED DB: PDB REMARK 900 RELATED ID: 5GGP RELATED DB: PDB DBREF 5GGG A 92 660 UNP Q8WZA1 PMGT1_HUMAN 92 660 SEQADV 5GGG VAL A 623 UNP Q8WZA1 MET 623 VARIANT SEQADV 5GGG LEU A 661 UNP Q8WZA1 EXPRESSION TAG SEQADV 5GGG GLU A 662 UNP Q8WZA1 EXPRESSION TAG SEQADV 5GGG LEU A 663 UNP Q8WZA1 EXPRESSION TAG SEQADV 5GGG GLU A 664 UNP Q8WZA1 EXPRESSION TAG SEQADV 5GGG VAL A 665 UNP Q8WZA1 EXPRESSION TAG SEQADV 5GGG LEU A 666 UNP Q8WZA1 EXPRESSION TAG SEQADV 5GGG PHE A 667 UNP Q8WZA1 EXPRESSION TAG SEQADV 5GGG GLN A 668 UNP Q8WZA1 EXPRESSION TAG SEQADV 5GGG GLY A 669 UNP Q8WZA1 EXPRESSION TAG SEQRES 1 A 578 GLY SER GLY PRO ARG ARG VAL LEU ASP VAL GLU VAL TYR SEQRES 2 A 578 SER SER ARG SER LYS VAL TYR VAL ALA VAL ASP GLY THR SEQRES 3 A 578 THR VAL LEU GLU ASP GLU ALA ARG GLU GLN GLY ARG GLY SEQRES 4 A 578 ILE HIS VAL ILE VAL LEU ASN GLN ALA THR GLY HIS VAL SEQRES 5 A 578 MET ALA LYS ARG VAL PHE ASP THR TYR SER PRO HIS GLU SEQRES 6 A 578 ASP GLU ALA MET VAL LEU PHE LEU ASN MET VAL ALA PRO SEQRES 7 A 578 GLY ARG VAL LEU ILE CYS THR VAL LYS ASP GLU GLY SER SEQRES 8 A 578 PHE HIS LEU LYS ASP THR ALA LYS ALA LEU LEU ARG SER SEQRES 9 A 578 LEU GLY SER GLN ALA GLY PRO ALA LEU GLY TRP ARG ASP SEQRES 10 A 578 THR TRP ALA PHE VAL GLY ARG LYS GLY GLY PRO VAL PHE SEQRES 11 A 578 GLY GLU LYS HIS SER LYS SER PRO ALA LEU SER SER TRP SEQRES 12 A 578 GLY ASP PRO VAL LEU LEU LYS THR ASP VAL PRO LEU SER SEQRES 13 A 578 SER ALA GLU GLU ALA GLU CYS HIS TRP ALA ASP THR GLU SEQRES 14 A 578 LEU ASN ARG ARG ARG ARG ARG PHE CYS SER LYS VAL GLU SEQRES 15 A 578 GLY TYR GLY SER VAL CYS SER CYS LYS ASP PRO THR PRO SEQRES 16 A 578 ILE GLU PHE SER PRO ASP PRO LEU PRO ASP ASN LYS VAL SEQRES 17 A 578 LEU ASN VAL PRO VAL ALA VAL ILE ALA GLY ASN ARG PRO SEQRES 18 A 578 ASN TYR LEU TYR ARG MET LEU ARG SER LEU LEU SER ALA SEQRES 19 A 578 GLN GLY VAL SER PRO GLN MET ILE THR VAL PHE ILE ASP SEQRES 20 A 578 GLY TYR TYR GLU GLU PRO MET ASP VAL VAL ALA LEU PHE SEQRES 21 A 578 GLY LEU ARG GLY ILE GLN HIS THR PRO ILE SER ILE LYS SEQRES 22 A 578 ASN ALA ARG VAL SER GLN HIS TYR LYS ALA SER LEU THR SEQRES 23 A 578 ALA THR PHE ASN LEU PHE PRO GLU ALA LYS PHE ALA VAL SEQRES 24 A 578 VAL LEU GLU GLU ASP LEU ASP ILE ALA VAL ASP PHE PHE SEQRES 25 A 578 SER PHE LEU SER GLN SER ILE HIS LEU LEU GLU GLU ASP SEQRES 26 A 578 ASP SER LEU TYR CYS ILE SER ALA TRP ASN ASP GLN GLY SEQRES 27 A 578 TYR GLU HIS THR ALA GLU ASP PRO ALA LEU LEU TYR ARG SEQRES 28 A 578 VAL GLU THR MET PRO GLY LEU GLY TRP VAL LEU ARG ARG SEQRES 29 A 578 SER LEU TYR LYS GLU GLU LEU GLU PRO LYS TRP PRO THR SEQRES 30 A 578 PRO GLU LYS LEU TRP ASP TRP ASP MET TRP MET ARG MET SEQRES 31 A 578 PRO GLU GLN ARG ARG GLY ARG GLU CYS ILE ILE PRO ASP SEQRES 32 A 578 VAL SER ARG SER TYR HIS PHE GLY ILE VAL GLY LEU ASN SEQRES 33 A 578 MET ASN GLY TYR PHE HIS GLU ALA TYR PHE LYS LYS HIS SEQRES 34 A 578 LYS PHE ASN THR VAL PRO GLY VAL GLN LEU ARG ASN VAL SEQRES 35 A 578 ASP SER LEU LYS LYS GLU ALA TYR GLU VAL GLU VAL HIS SEQRES 36 A 578 ARG LEU LEU SER GLU ALA GLU VAL LEU ASP HIS SER LYS SEQRES 37 A 578 ASN PRO CYS GLU ASP SER PHE LEU PRO ASP THR GLU GLY SEQRES 38 A 578 HIS THR TYR VAL ALA PHE ILE ARG MET GLU LYS ASP ASP SEQRES 39 A 578 ASP PHE THR THR TRP THR GLN LEU ALA LYS CYS LEU HIS SEQRES 40 A 578 ILE TRP ASP LEU ASP VAL ARG GLY ASN HIS ARG GLY LEU SEQRES 41 A 578 TRP ARG LEU PHE ARG LYS LYS ASN HIS PHE LEU VAL VAL SEQRES 42 A 578 GLY VAL PRO ALA SER PRO TYR SER VAL LYS LYS PRO PRO SEQRES 43 A 578 SER VAL THR PRO ILE PHE LEU GLU PRO PRO PRO LYS GLU SEQRES 44 A 578 GLU GLY ALA PRO GLY ALA PRO GLU GLN THR LEU GLU LEU SEQRES 45 A 578 GLU VAL LEU PHE GLN GLY FORMUL 2 HOH *3(H2 O) HELIX 1 AA1 HIS A 155 VAL A 167 1 13 HELIX 2 AA2 LEU A 185 LEU A 196 1 12 HELIX 3 AA3 THR A 259 SER A 270 1 12 HELIX 4 AA4 TYR A 275 SER A 280 5 6 HELIX 5 AA5 ARG A 311 SER A 324 1 14 HELIX 6 AA6 SER A 329 GLN A 331 5 3 HELIX 7 AA7 TYR A 341 PHE A 351 1 11 HELIX 8 AA8 ILE A 363 PHE A 383 1 21 HELIX 9 AA9 ASP A 401 ILE A 410 1 10 HELIX 10 AB1 ILE A 410 ASP A 416 1 7 HELIX 11 AB2 ARG A 455 GLU A 461 1 7 HELIX 12 AB3 LEU A 462 TRP A 466 5 5 HELIX 13 AB4 ASP A 474 ARG A 480 1 7 HELIX 14 AB5 MET A 481 ARG A 486 1 6 HELIX 15 AB6 ASN A 532 LEU A 536 5 5 HELIX 16 AB7 LYS A 537 ALA A 552 1 16 HELIX 17 AB8 GLU A 563 LEU A 567 5 5 HELIX 18 AB9 PHE A 587 LEU A 597 1 11 HELIX 19 AC1 TYR A 631 LYS A 635 5 5 SHEET 1 AA1 4 THR A 117 LEU A 120 0 SHEET 2 AA1 4 VAL A 110 VAL A 114 -1 N VAL A 114 O THR A 117 SHEET 3 AA1 4 VAL A 98 SER A 105 -1 N GLU A 102 O ALA A 113 SHEET 4 AA1 4 VAL A 238 PRO A 245 -1 O LEU A 240 N VAL A 103 SHEET 1 AA2 5 VAL A 143 PHE A 149 0 SHEET 2 AA2 5 GLY A 130 LEU A 136 -1 N VAL A 135 O MET A 144 SHEET 3 AA2 5 VAL A 172 LYS A 178 -1 O ILE A 174 N ILE A 134 SHEET 4 AA2 5 THR A 209 ARG A 215 -1 O PHE A 212 N CYS A 175 SHEET 5 AA2 5 VAL A 220 SER A 226 -1 O LYS A 224 N ALA A 211 SHEET 1 AA3 8 ARG A 354 HIS A 358 0 SHEET 2 AA3 8 ILE A 333 ASP A 338 1 N ILE A 337 O ILE A 356 SHEET 3 AA3 8 VAL A 304 ALA A 308 1 N VAL A 306 O PHE A 336 SHEET 4 AA3 8 PHE A 388 GLU A 393 1 O VAL A 390 N ALA A 305 SHEET 5 AA3 8 TRP A 451 ARG A 454 -1 O LEU A 453 N ALA A 389 SHEET 6 AA3 8 LEU A 419 SER A 423 -1 N ILE A 422 O VAL A 452 SHEET 7 AA3 8 GLU A 489 PRO A 493 1 O GLU A 489 N TYR A 420 SHEET 8 AA3 8 LEU A 440 VAL A 443 -1 N TYR A 441 O ILE A 492 SHEET 1 AA4 2 LEU A 396 ILE A 398 0 SHEET 2 AA4 2 SER A 498 HIS A 500 -1 O TYR A 499 N ASP A 397 SHEET 1 AA5 5 GLU A 553 VAL A 554 0 SHEET 2 AA5 5 THR A 574 MET A 581 1 O THR A 574 N GLU A 553 SHEET 3 AA5 5 ASN A 619 PRO A 627 1 O VAL A 626 N ILE A 579 SHEET 4 AA5 5 LEU A 611 ARG A 616 -1 N TRP A 612 O VAL A 623 SHEET 5 AA5 5 ASN A 607 HIS A 608 -1 N HIS A 608 O LEU A 611 SSBOND 1 CYS A 254 CYS A 281 1555 1555 2.01 SSBOND 2 CYS A 269 CYS A 279 1555 1555 2.02 SSBOND 3 CYS A 421 CYS A 490 1555 1555 2.04 SSBOND 4 CYS A 562 CYS A 596 1555 1555 2.03 CISPEP 1 GLY A 218 PRO A 219 0 -9.31 CISPEP 2 SER A 362 ILE A 363 0 13.74 CISPEP 3 VAL A 626 PRO A 627 0 3.29 CRYST1 99.917 99.917 236.104 90.00 90.00 90.00 P 41 21 2 8 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 0.010008 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010008 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004235 0.00000