HEADER HYDROLASE 15-AUG-19 6U11 TITLE XENOPUS LAEVIS N-ACETYLGLUCOSAMINE-1-PHOSPHODIESTER ALPHA-N- TITLE 2 ACETYLGLUCOSAMINIDASE (NAGPA) (C46S C219S C453S C480S C486S) WITH CTD TITLE 3 MOSTLY FLEXIBLE COMPND MOL_ID: 1; COMPND 2 MOLECULE: EGF-LIKE DOMAIN-CONTAINING PROTEIN; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: XENOPUS LAEVIS; SOURCE 3 ORGANISM_COMMON: AFRICAN CLAWED FROG; SOURCE 4 ORGANISM_TAXID: 8355; SOURCE 5 GENE: XELAEV_18011890MG; SOURCE 6 EXPRESSION_SYSTEM: SPODOPTERA FRUGIPERDA; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 7108 KEYWDS UNCOVERING ENZYME, MANNOSE 6-PHOSPHATE, GLYCOSIDASE, N- KEYWDS 2 ACETYLGLUCOSAMINE, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR A.GORELIK,K.ILLES,B.NAGAR REVDAT 5 11-OCT-23 6U11 1 HETSYN LINK REVDAT 4 29-JUL-20 6U11 1 COMPND REMARK HETNAM LINK REVDAT 4 2 1 SITE ATOM REVDAT 3 15-APR-20 6U11 1 JRNL REVDAT 2 11-MAR-20 6U11 1 JRNL REVDAT 1 19-FEB-20 6U11 0 JRNL AUTH A.GORELIK,K.ILLES,B.NAGAR JRNL TITL CRYSTAL STRUCTURE OF THE MANNOSE-6-PHOSPHATE UNCOVERING JRNL TITL 2 ENZYME. JRNL REF STRUCTURE V. 28 426 2020 JRNL REFN ISSN 0969-2126 JRNL PMID 32109365 JRNL DOI 10.1016/J.STR.2020.02.001 REMARK 2 REMARK 2 RESOLUTION. 2.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.15_3459 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) : 2.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 42.45 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 55.7 REMARK 3 NUMBER OF REFLECTIONS : 36760 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.199 REMARK 3 R VALUE (WORKING SET) : 0.196 REMARK 3 FREE R VALUE : 0.225 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 7.340 REMARK 3 FREE R VALUE TEST SET COUNT : 2698 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 42.4500 - 7.2000 0.94 3019 244 0.2484 0.2506 REMARK 3 2 7.2000 - 5.7200 0.94 3021 249 0.2190 0.2590 REMARK 3 3 5.7200 - 5.0000 0.97 3143 251 0.1706 0.1968 REMARK 3 4 5.0000 - 4.5400 0.92 2957 232 0.1355 0.1641 REMARK 3 5 4.5400 - 4.2200 0.89 2884 227 0.1338 0.1502 REMARK 3 6 4.2200 - 3.9700 0.89 2876 210 0.1455 0.2102 REMARK 3 7 3.9700 - 3.7700 0.34 1096 93 0.2107 0.2459 REMARK 3 8 3.7700 - 3.6100 0.33 1068 92 0.2385 0.3276 REMARK 3 9 3.6100 - 3.4700 0.63 2011 167 0.2198 0.2314 REMARK 3 10 3.4700 - 3.3500 0.37 1197 95 0.2771 0.2812 REMARK 3 11 3.3500 - 3.2400 0.59 1903 144 0.2095 0.2284 REMARK 3 12 3.2400 - 3.1500 0.52 1673 136 0.2367 0.2321 REMARK 3 13 3.1500 - 3.0700 0.44 1422 108 0.2398 0.2792 REMARK 3 14 3.0700 - 2.9900 0.42 1353 103 0.2257 0.2771 REMARK 3 15 2.9900 - 2.9200 0.35 1120 82 0.2392 0.2941 REMARK 3 16 2.9200 - 2.8600 0.31 1014 80 0.2467 0.2693 REMARK 3 17 2.8600 - 2.8100 0.27 861 74 0.2431 0.2763 REMARK 3 18 2.8100 - 2.7500 0.24 784 63 0.2493 0.2463 REMARK 3 19 2.7500 - 2.7000 0.20 660 48 0.2640 0.3233 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) : 0.286 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 24.660 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 41.41 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 54.20 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 : 0.003 2595 REMARK 3 ANGLE : 0.569 3529 REMARK 3 CHIRALITY : 0.042 395 REMARK 3 PLANARITY : 0.005 462 REMARK 3 DIHEDRAL : 10.635 1519 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 6U11 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 16-AUG-19. REMARK 100 THE DEPOSITION ID IS D_1000243714. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 26-MAY-19 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALS REMARK 200 BEAMLINE : 5.0.2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 36872 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.700 REMARK 200 RESOLUTION RANGE LOW (A) : 42.450 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 71.5 REMARK 200 DATA REDUNDANCY : 2.900 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 5.9200 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.80 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.000 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: 6PKG REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 78.56 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 5.74 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: POTASSIUM FORMATE, TRIS PH 8, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 295K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 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 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 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 48.38350 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 48.38350 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 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 33.50950 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 191.98450 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 33.50950 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 191.98450 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 48.38350 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 33.50950 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 191.98450 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 48.38350 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 33.50950 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 191.98450 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 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: 10620 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 26300 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 16.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 -48.38350 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 737 LIES ON A SPECIAL POSITION. 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 7 REMARK 465 ARG A 8 REMARK 465 HIS A 9 REMARK 465 HIS A 10 REMARK 465 HIS A 11 REMARK 465 HIS A 12 REMARK 465 HIS A 13 REMARK 465 HIS A 14 REMARK 465 GLY A 15 REMARK 465 ASP A 332 REMARK 465 CYS A 333 REMARK 465 SER A 334 REMARK 465 GLY A 335 REMARK 465 HIS A 336 REMARK 465 GLY A 337 REMARK 465 GLN A 338 REMARK 465 CYS A 339 REMARK 465 ILE A 340 REMARK 465 LEU A 341 REMARK 465 GLY A 342 REMARK 465 GLU A 343 REMARK 465 CYS A 344 REMARK 465 GLN A 345 REMARK 465 CYS A 346 REMARK 465 THR A 347 REMARK 465 ASP A 348 REMARK 465 PHE A 349 REMARK 465 TRP A 350 REMARK 465 THR A 351 REMARK 465 GLY A 352 REMARK 465 PRO A 353 REMARK 465 ALA A 354 REMARK 465 CYS A 355 REMARK 465 SER A 356 REMARK 465 VAL A 357 REMARK 465 LEU A 358 REMARK 465 SER A 359 REMARK 465 CYS A 360 REMARK 465 GLY A 361 REMARK 465 PRO A 362 REMARK 465 LEU A 363 REMARK 465 ASN A 364 REMARK 465 CYS A 365 REMARK 465 SER A 366 REMARK 465 ALA A 367 REMARK 465 HIS A 368 REMARK 465 GLY A 369 REMARK 465 ASN A 370 REMARK 465 CYS A 371 REMARK 465 THR A 372 REMARK 465 GLU A 373 REMARK 465 GLY A 374 REMARK 465 GLY A 375 REMARK 465 CYS A 376 REMARK 465 VAL A 377 REMARK 465 CYS A 378 REMARK 465 ASP A 379 REMARK 465 GLN A 380 REMARK 465 GLY A 381 REMARK 465 TRP A 382 REMARK 465 ILE A 383 REMARK 465 GLY A 384 REMARK 465 ALA A 385 REMARK 465 ASP A 386 REMARK 465 CYS A 387 REMARK 465 ASN A 388 REMARK 465 ILE A 389 REMARK 465 SER A 390 REMARK 465 CYS A 391 REMARK 465 VAL A 392 REMARK 465 HIS A 393 REMARK 465 GLY A 394 REMARK 465 TYR A 395 REMARK 465 TYR A 396 REMARK 465 GLY A 397 REMARK 465 GLU A 398 REMARK 465 GLY A 399 REMARK 465 CYS A 400 REMARK 465 ARG A 401 REMARK 465 ARG A 402 REMARK 465 LYS A 403 REMARK 465 CYS A 404 REMARK 465 PRO A 405 REMARK 465 CYS A 406 REMARK 465 GLN A 407 REMARK 465 ASN A 408 REMARK 465 ASN A 409 REMARK 465 SER A 410 REMARK 465 THR A 411 REMARK 465 CYS A 412 REMARK 465 ASN A 413 REMARK 465 HIS A 414 REMARK 465 VAL A 415 REMARK 465 ASP A 416 REMARK 465 GLY A 417 REMARK 465 SER A 418 REMARK 465 CYS A 419 REMARK 465 GLN A 420 REMARK 465 CYS A 421 REMARK 465 SER A 422 REMARK 465 ASP A 423 REMARK 465 GLY A 424 REMARK 465 TYR A 425 REMARK 465 THR A 426 REMARK 465 GLY A 427 REMARK 465 LEU A 428 REMARK 465 TYR A 429 REMARK 465 CYS A 430 REMARK 465 GLU A 431 REMARK 465 GLU A 432 REMARK 465 GLU A 433 REMARK 465 CYS A 434 REMARK 465 PRO A 435 REMARK 465 LEU A 436 REMARK 465 GLY A 437 REMARK 465 PHE A 438 REMARK 465 TYR A 439 REMARK 465 GLY A 440 REMARK 465 ALA A 441 REMARK 465 GLY A 442 REMARK 465 CYS A 443 REMARK 465 GLN A 444 REMARK 465 HIS A 445 REMARK 465 ALA A 446 REMARK 465 CYS A 447 REMARK 465 HIS A 448 REMARK 465 CYS A 449 REMARK 465 LYS A 450 REMARK 465 ASN A 451 REMARK 465 GLN A 452 REMARK 465 SER A 453 REMARK 465 TYR A 454 REMARK 465 CYS A 455 REMARK 465 ASP A 456 REMARK 465 HIS A 457 REMARK 465 LEU A 458 REMARK 465 THR A 459 REMARK 465 GLY A 460 REMARK 465 SER A 461 REMARK 465 CYS A 462 REMARK 465 ASN A 463 REMARK 465 ILE A 464 REMARK 465 THR A 465 REMARK 465 LYS A 466 REMARK 465 LYS A 467 REMARK 465 PRO A 468 REMARK 465 SER A 469 REMARK 465 LEU A 470 REMARK 465 ASN A 471 REMARK 465 GLU A 472 REMARK 465 LEU A 473 REMARK 465 SER A 474 REMARK 465 SER A 475 REMARK 465 LYS A 476 REMARK 465 VAL A 477 REMARK 465 GLY A 478 REMARK 465 GLN A 479 REMARK 465 SER A 480 REMARK 465 MET A 481 REMARK 465 GLU A 482 REMARK 465 THR A 483 REMARK 465 LEU A 484 REMARK 465 LEU A 485 REMARK 465 SER A 486 REMARK 465 THR A 487 REMARK 465 SER A 488 REMARK 465 LEU A 489 REMARK 465 LYS A 490 REMARK 465 ASN A 491 REMARK 465 THR A 492 REMARK 465 ARG A 493 REMARK 465 HIS A 494 REMARK 465 SER A 495 REMARK 465 GLU A 496 REMARK 465 THR A 497 REMARK 465 ALA A 498 REMARK 465 VAL A 499 REMARK 465 ASN A 500 REMARK 465 ILE A 501 REMARK 465 PHE A 502 REMARK 465 ALA A 503 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 O4 NAG B 1 H1 NAG B 2 1.48 REMARK 500 O4 NAG C 1 H1 NAG C 2 1.50 REMARK 500 O SER A 26 O HOH A 701 2.14 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 OG1 THR A 296 OG1 THR A 296 3554 2.19 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 23 73.72 -103.33 REMARK 500 SER A 83 58.74 -103.45 REMARK 500 VAL A 201 121.25 97.04 REMARK 500 ASP A 259 32.22 74.80 REMARK 500 ASP A 260 -51.73 -153.17 REMARK 500 SER A 318 -114.57 -96.44 REMARK 500 ASP A 329 -67.14 -132.49 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 K A 609 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ARG A 44 O REMARK 620 2 ASP A 45 O 69.2 REMARK 620 3 GLN A 47 O 93.8 83.5 REMARK 620 4 HOH A 827 O 112.3 136.4 137.4 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 K A 615 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ALA A 70 O REMARK 620 2 NAG C 1 O3 99.4 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 K A 611 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 THR A 118 O REMARK 620 2 THR A 118 OG1 57.9 REMARK 620 3 HOH A 839 O 102.5 129.0 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 K A 607 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 284 OD1 REMARK 620 2 HOH A 806 O 107.6 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 K A 608 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 801 O REMARK 620 2 HOH A 836 O 60.4 REMARK 620 3 HOH A 841 O 105.0 82.8 REMARK 620 N 1 2 DBREF1 6U11 A 17 503 UNP A0A1L8HDP6_XENLA DBREF2 6U11 A A0A1L8HDP6 67 553 SEQADV 6U11 ASP A 7 UNP A0A1L8HDP EXPRESSION TAG SEQADV 6U11 ARG A 8 UNP A0A1L8HDP EXPRESSION TAG SEQADV 6U11 HIS A 9 UNP A0A1L8HDP EXPRESSION TAG SEQADV 6U11 HIS A 10 UNP A0A1L8HDP EXPRESSION TAG SEQADV 6U11 HIS A 11 UNP A0A1L8HDP EXPRESSION TAG SEQADV 6U11 HIS A 12 UNP A0A1L8HDP EXPRESSION TAG SEQADV 6U11 HIS A 13 UNP A0A1L8HDP EXPRESSION TAG SEQADV 6U11 HIS A 14 UNP A0A1L8HDP EXPRESSION TAG SEQADV 6U11 GLY A 15 UNP A0A1L8HDP EXPRESSION TAG SEQADV 6U11 SER A 16 UNP A0A1L8HDP EXPRESSION TAG SEQADV 6U11 SER A 46 UNP A0A1L8HDP CYS 96 ENGINEERED MUTATION SEQADV 6U11 MET A 141 UNP A0A1L8HDP ILE 191 ENGINEERED MUTATION SEQADV 6U11 SER A 219 UNP A0A1L8HDP CYS 269 ENGINEERED MUTATION SEQADV 6U11 ILE A 251 UNP A0A1L8HDP LEU 301 ENGINEERED MUTATION SEQADV 6U11 SER A 453 UNP A0A1L8HDP CYS 503 ENGINEERED MUTATION SEQADV 6U11 SER A 480 UNP A0A1L8HDP CYS 530 ENGINEERED MUTATION SEQADV 6U11 SER A 486 UNP A0A1L8HDP CYS 536 ENGINEERED MUTATION SEQRES 1 A 497 ASP ARG HIS HIS HIS HIS HIS HIS GLY SER ARG SER SER SEQRES 2 A 497 LEU ASN ASP ASP LEU LEU SER PRO TYR GLN PRO HIS ALA SEQRES 3 A 497 LYS HIS GLY PRO SER HIS SER TYR ARG HIS VAL ARG ASP SEQRES 4 A 497 SER GLN PRO VAL ILE HIS GLY ASN ARG THR HIS GLU GLU SEQRES 5 A 497 TRP PRO SER SER ASN SER THR TRP MET PRO VAL ALA THR SEQRES 6 A 497 THR ARG ILE PHE GLU SER LYS PHE PRO THR THR SER GLY SEQRES 7 A 497 MET LYS THR ALA TYR GLY HIS PHE THR TYR VAL ASN ASN SEQRES 8 A 497 PRO LEU ARG THR PHE SER VAL LEU GLU PRO GLY GLY PRO SEQRES 9 A 497 GLY GLY CYS SER LYS LYS LEU THR ALA THR VAL GLU GLU SEQRES 10 A 497 THR ILE LYS HIS GLY ASN CYS PHE VAL ALA GLN ASN GLY SEQRES 11 A 497 GLY TYR PHE ASP MET ASP THR GLY ASN CYS PHE GLY ASN SEQRES 12 A 497 ILE VAL SER ASP GLY LYS LEU VAL GLN SER ALA LYS GLY SEQRES 13 A 497 ILE GLN ASN ALA GLN PHE GLY ILE LYS SER ASP GLY THR SEQRES 14 A 497 LEU ILE PHE GLY TYR LEU SER GLU GLU GLN VAL LEU GLU SEQRES 15 A 497 ALA GLU ASN PRO PHE VAL GLN LEU LEU SER GLY VAL VAL SEQRES 16 A 497 TRP LEU LEU ARG ASN GLY GLU VAL TYR ILE ASN GLN SER SEQRES 17 A 497 LYS ALA ALA GLU SER ASP LYS THR GLN THR THR GLY ASP SEQRES 18 A 497 PHE ASP HIS PHE ILE ASN VAL ILE SER ALA ARG THR ALA SEQRES 19 A 497 ILE GLY HIS ASP ARG GLU GLY ARG LEU ILE ILE PHE HIS SEQRES 20 A 497 VAL ASP GLY GLN THR ASP ASP ARG GLY LEU ASN LEU TRP SEQRES 21 A 497 GLU LEU ALA ASN PHE LEU LYS ASP GLN GLY VAL ILE ASN SEQRES 22 A 497 ALA ILE ASN LEU ASP GLY GLY GLY SER ALA THR LEU VAL SEQRES 23 A 497 ILE ASN GLY THR LEU ALA ASN TYR PRO SER ASP HIS CYS SEQRES 24 A 497 HIS TYR ASN PRO MET TRP ARG CYS PRO ARG SER ILE SER SEQRES 25 A 497 THR VAL VAL CYS VAL HIS GLU PRO PHE CYS ASP PRO PRO SEQRES 26 A 497 ASP CYS SER GLY HIS GLY GLN CYS ILE LEU GLY GLU CYS SEQRES 27 A 497 GLN CYS THR ASP PHE TRP THR GLY PRO ALA CYS SER VAL SEQRES 28 A 497 LEU SER CYS GLY PRO LEU ASN CYS SER ALA HIS GLY ASN SEQRES 29 A 497 CYS THR GLU GLY GLY CYS VAL CYS ASP GLN GLY TRP ILE SEQRES 30 A 497 GLY ALA ASP CYS ASN ILE SER CYS VAL HIS GLY TYR TYR SEQRES 31 A 497 GLY GLU GLY CYS ARG ARG LYS CYS PRO CYS GLN ASN ASN SEQRES 32 A 497 SER THR CYS ASN HIS VAL ASP GLY SER CYS GLN CYS SER SEQRES 33 A 497 ASP GLY TYR THR GLY LEU TYR CYS GLU GLU GLU CYS PRO SEQRES 34 A 497 LEU GLY PHE TYR GLY ALA GLY CYS GLN HIS ALA CYS HIS SEQRES 35 A 497 CYS LYS ASN GLN SER TYR CYS ASP HIS LEU THR GLY SER SEQRES 36 A 497 CYS ASN ILE THR LYS LYS PRO SER LEU ASN GLU LEU SER SEQRES 37 A 497 SER LYS VAL GLY GLN SER MET GLU THR LEU LEU SER THR SEQRES 38 A 497 SER LEU LYS ASN THR ARG HIS SER GLU THR ALA VAL ASN SEQRES 39 A 497 ILE PHE ALA HET NAG B 1 26 HET NAG B 2 28 HET FUC B 3 20 HET NAG C 1 27 HET NAG C 2 28 HET NAG A 604 28 HET K A 607 1 HET K A 608 1 HET K A 609 1 HET K A 610 1 HET K A 611 1 HET K A 612 1 HET K A 613 1 HET K A 614 1 HET K A 615 1 HET K A 616 1 HET K A 617 1 HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM FUC ALPHA-L-FUCOPYRANOSE HETNAM K POTASSIUM ION 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 HETSYN FUC ALPHA-L-FUCOSE; 6-DEOXY-ALPHA-L-GALACTOPYRANOSE; L- HETSYN 2 FUC FUCOSE; FUCOSE FORMUL 2 NAG 5(C8 H15 N O6) FORMUL 2 FUC C6 H12 O5 FORMUL 5 K 11(K 1+) FORMUL 16 HOH *141(H2 O) HELIX 1 AA1 SER A 39 GLN A 47 1 9 HELIX 2 AA2 PRO A 48 GLY A 52 5 5 HELIX 3 AA3 ASN A 97 THR A 101 1 5 HELIX 4 AA4 GLY A 111 LYS A 116 1 6 HELIX 5 AA5 THR A 120 ILE A 125 1 6 HELIX 6 AA6 SER A 182 GLU A 188 1 7 HELIX 7 AA7 TYR A 210 SER A 219 1 10 HELIX 8 AA8 GLY A 226 VAL A 234 1 9 HELIX 9 AA9 ASN A 264 GLN A 275 1 12 HELIX 10 AB1 GLY A 285 ALA A 289 5 5 SHEET 1 AA1 4 HIS A 56 PRO A 60 0 SHEET 2 AA1 4 THR A 175 GLY A 179 -1 O LEU A 176 N TRP A 59 SHEET 3 AA1 4 GLN A 167 LYS A 171 -1 N GLY A 169 O ILE A 177 SHEET 4 AA1 4 PHE A 193 SER A 198 -1 O VAL A 194 N ILE A 170 SHEET 1 AA2 7 ALA A 70 THR A 81 0 SHEET 2 AA2 7 GLY A 84 VAL A 95 -1 O GLY A 84 N THR A 81 SHEET 3 AA2 7 LEU A 249 VAL A 254 -1 O ILE A 251 N THR A 93 SHEET 4 AA2 7 ARG A 238 HIS A 243 -1 N ALA A 240 O PHE A 252 SHEET 5 AA2 7 ASN A 279 LEU A 283 -1 O LEU A 283 N THR A 239 SHEET 6 AA2 7 TRP A 202 ARG A 205 -1 N LEU A 204 O ALA A 280 SHEET 7 AA2 7 GLU A 208 VAL A 209 -1 O GLU A 208 N ARG A 205 SHEET 1 AA3 5 PHE A 102 LEU A 105 0 SHEET 2 AA3 5 VAL A 320 VAL A 323 -1 O CYS A 322 N SER A 103 SHEET 3 AA3 5 VAL A 132 ASN A 135 -1 N VAL A 132 O VAL A 323 SHEET 4 AA3 5 LEU A 291 ILE A 293 -1 O VAL A 292 N ALA A 133 SHEET 5 AA3 5 THR A 296 LEU A 297 -1 O THR A 296 N ILE A 293 SHEET 1 AA4 2 ILE A 150 SER A 152 0 SHEET 2 AA4 2 LYS A 155 GLN A 158 -1 O VAL A 157 N ILE A 150 SSBOND 1 CYS A 113 CYS A 146 1555 1555 2.04 SSBOND 2 CYS A 130 CYS A 322 1555 1555 2.04 SSBOND 3 CYS A 305 CYS A 313 1555 1555 2.03 LINK ND2 ASN A 53 C1 NAG B 1 1555 1555 1.45 LINK ND2 ASN A 212 C1 NAG A 604 1555 1555 1.45 LINK ND2 ASN A 294 C1 NAG C 1 1555 1555 1.44 LINK O4 NAG B 1 C1 NAG B 2 1555 1555 1.37 LINK O6 NAG B 1 C1 FUC B 3 1555 1555 1.37 LINK O4 NAG C 1 C1 NAG C 2 1555 1555 1.37 LINK O ARG A 44 K K A 609 1555 1555 3.06 LINK O ASP A 45 K K A 609 1555 1555 3.11 LINK O GLN A 47 K K A 609 1555 1555 2.97 LINK O ALA A 70 K K A 615 1555 1555 3.19 LINK O THR A 118 K K A 611 1555 1555 2.75 LINK OG1 THR A 118 K K A 611 1555 1555 3.25 LINK OE1 GLN A 223 K K A 610 1555 1555 3.34 LINK OD1 ASP A 284 K K A 607 1555 1555 3.35 LINK O SER A 302 K K A 616 1555 1555 3.33 LINK K K A 607 O HOH A 806 1555 1555 2.69 LINK K K A 608 O HOH A 801 1555 1555 3.45 LINK K K A 608 O HOH A 836 1555 1555 3.47 LINK K K A 608 O HOH A 841 1555 1555 3.23 LINK K K A 609 O HOH A 827 1555 1555 3.29 LINK K K A 611 O HOH A 839 1555 1555 3.41 LINK K K A 612 O HOH A 840 1555 1555 3.00 LINK K K A 615 O3 NAG C 1 1555 1555 3.40 CISPEP 1 GLN A 29 PRO A 30 0 -3.57 CISPEP 2 MET A 67 PRO A 68 0 -5.85 CRYST1 67.019 383.969 96.767 90.00 90.00 90.00 C 2 2 21 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 0.014921 0.000000 0.000000 0.00000 SCALE2 0.000000 0.002604 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010334 0.00000