HEADER MEMBRANE PROTEIN 30-MAY-20 6Z7A TITLE VARIANT SURFACE GLYCOPROTEIN VSGSUR COMPND MOL_ID: 1; COMPND 2 MOLECULE: VARIANT SURFACE GLYCOPROTEIN SUR; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: TRYPANOSOMA BRUCEI RHODESIENSE; SOURCE 3 ORGANISM_TAXID: 31286; SOURCE 4 GENE: VSGSUR; SOURCE 5 EXPRESSION_SYSTEM: TRYPANOSOMA BRUCEI BRUCEI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 5702 KEYWDS VARIANT SURFACE GLYCOPROTEIN SURAMIN TRYPANOSOMIASIS DRUG RESISTANCE KEYWDS 2 GLYCOSYLATION, MEMBRANE PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR J.P.ZEELEN,M.STRAATEN VAN,C.E.STEBBINS,H.HASHEMI REVDAT 2 24-JAN-24 6Z7A 1 REMARK REVDAT 1 26-MAY-21 6Z7A 0 JRNL AUTH J.P.ZEELEN,M.VAN STRAATEN,J.VERDI,A.HEMPELMANN,H.HASHEMI, JRNL AUTH 2 K.PEREZ,P.D.JEFFREY,S.HAELG,N.WIEDEMAR,P.MAESER, JRNL AUTH 3 F.N.PAPAVASILIOU,C.E.STEBBINS JRNL TITL A PARASITE COAT PROTEIN BINDS SURAMIN TO CONFER DRUG JRNL TITL 2 RESISTANCE JRNL REF NAT MICROBIOL V. 6 392 2021 JRNL REFN ESSN 2058-5276 JRNL DOI 10.1038/S41564-020-00844-1 REMARK 2 REMARK 2 RESOLUTION. 1.21 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.17.1_3660 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 : GEOSTD + MONOMER LIBRARY + CDL V1.2 REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.21 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 48.05 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 91.5 REMARK 3 NUMBER OF REFLECTIONS : 122545 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.167 REMARK 3 R VALUE (WORKING SET) : 0.166 REMARK 3 FREE R VALUE : 0.187 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.050 REMARK 3 FREE R VALUE TEST SET COUNT : 6192 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 48.0500 - 3.7600 0.99 4548 229 0.1877 0.2124 REMARK 3 2 3.7600 - 2.9800 0.99 4347 208 0.1672 0.1768 REMARK 3 3 2.9800 - 2.6100 1.00 4311 221 0.1504 0.1761 REMARK 3 4 2.6100 - 2.3700 1.00 4271 224 0.1331 0.1671 REMARK 3 5 2.3700 - 2.2000 0.99 4264 218 0.1235 0.1655 REMARK 3 6 2.2000 - 2.0700 1.00 4264 213 0.1186 0.1366 REMARK 3 7 2.0700 - 1.9600 1.00 4249 211 0.1216 0.1237 REMARK 3 8 1.9600 - 1.8800 1.00 4207 251 0.1176 0.1489 REMARK 3 9 1.8800 - 1.8100 0.99 4197 228 0.1209 0.1232 REMARK 3 10 1.8100 - 1.7400 1.00 4213 235 0.1203 0.1455 REMARK 3 11 1.7400 - 1.6900 0.99 4211 216 0.1225 0.1376 REMARK 3 12 1.6900 - 1.6400 1.00 4220 239 0.1321 0.1586 REMARK 3 13 1.6400 - 1.6000 0.99 4203 235 0.1475 0.1808 REMARK 3 14 1.6000 - 1.5600 0.99 4187 217 0.1535 0.1659 REMARK 3 15 1.5600 - 1.5200 0.99 4191 202 0.1680 0.1940 REMARK 3 16 1.5200 - 1.4900 0.99 4194 224 0.1805 0.1906 REMARK 3 17 1.4900 - 1.4600 0.99 4157 239 0.1867 0.1996 REMARK 3 18 1.4600 - 1.4300 1.00 4189 251 0.2138 0.2496 REMARK 3 19 1.4300 - 1.4100 0.99 4214 220 0.2280 0.2264 REMARK 3 20 1.4100 - 1.3800 1.00 4157 204 0.2424 0.2621 REMARK 3 21 1.3800 - 1.3600 0.99 4165 232 0.2747 0.2959 REMARK 3 22 1.3600 - 1.3400 0.97 4040 220 0.3043 0.3084 REMARK 3 23 1.3400 - 1.3200 0.92 3889 213 0.3051 0.2970 REMARK 3 24 1.3200 - 1.3000 0.86 3609 187 0.3286 0.3002 REMARK 3 25 1.3000 - 1.2900 0.80 3378 171 0.3285 0.3663 REMARK 3 26 1.2900 - 1.2700 0.73 3071 157 0.3479 0.3284 REMARK 3 27 1.2700 - 1.2500 0.66 2756 167 0.3595 0.3590 REMARK 3 28 1.2500 - 1.2400 0.60 2485 138 0.3750 0.3732 REMARK 3 29 1.2400 - 1.2200 0.52 2234 114 0.3740 0.4043 REMARK 3 30 1.2200 - 1.2100 0.47 1960 108 0.3891 0.3977 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) : 0.157 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 18.964 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 15.43 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 29.66 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 : 0.019 2864 REMARK 3 ANGLE : 1.541 3927 REMARK 3 CHIRALITY : 0.239 479 REMARK 3 PLANARITY : 0.012 510 REMARK 3 DIHEDRAL : 15.090 1072 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 6Z7A COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 01-JUN-20. REMARK 100 THE DEPOSITION ID IS D_1292108958. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 31-MAY-19 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : BESSY REMARK 200 BEAMLINE : 14.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9184 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 S 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : POINTLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 122573 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.210 REMARK 200 RESOLUTION RANGE LOW (A) : 48.050 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 91.4 REMARK 200 DATA REDUNDANCY : 6.100 REMARK 200 R MERGE (I) : 0.09566 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 8.5700 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.21 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.25 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 : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHENIX REMARK 200 STARTING MODEL: 6Z79 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 40.81 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.08 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 19-24 % PEG 400 100 MM TEA/HCL PH=7.5 REMARK 280 10 % (V/V) ISOPROPANOL, PH 7.5, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X+1/2,Y+1/2,-Z REMARK 290 4555 X+1/2,-Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 23.52100 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 35.53100 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 23.52100 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 35.53100 REMARK 290 SMTRY3 4 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: 10870 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 30380 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 8.0 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 350 BIOMT1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 71.06200 REMARK 350 BIOMT3 2 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 MET A 1 REMARK 465 GLN A 2 REMARK 465 ALA A 3 REMARK 465 VAL A 4 REMARK 465 THR A 5 REMARK 465 ARG A 6 REMARK 465 PHE A 7 REMARK 465 PHE A 8 REMARK 465 ARG A 9 REMARK 465 HIS A 10 REMARK 465 LEU A 11 REMARK 465 ILE A 12 REMARK 465 THR A 13 REMARK 465 LEU A 14 REMARK 465 THR A 15 REMARK 465 ALA A 16 REMARK 465 VAL A 17 REMARK 465 ALA A 18 REMARK 465 LEU A 19 REMARK 465 LEU A 20 REMARK 465 ALA A 21 REMARK 465 ALA A 22 REMARK 465 PHE A 23 REMARK 465 LEU A 24 REMARK 465 ASP A 25 REMARK 465 THR A 26 REMARK 465 VAL A 27 REMARK 465 ASN A 28 REMARK 465 ALA A 29 REMARK 465 THR A 334 REMARK 465 ASP A 335 REMARK 465 GLU A 336 REMARK 465 PRO A 337 REMARK 465 ALA A 338 REMARK 465 THR A 339 REMARK 465 GLU A 340 REMARK 465 LYS A 341 REMARK 465 GLU A 342 REMARK 465 TYR A 343 REMARK 465 SER A 344 REMARK 465 SER A 345 REMARK 465 ALA A 346 REMARK 465 GLN A 347 REMARK 465 HIS A 348 REMARK 465 THR A 349 REMARK 465 GLN A 350 REMARK 465 ILE A 383 REMARK 465 GLY A 384 REMARK 465 GLY A 385 REMARK 465 ALA A 386 REMARK 465 GLU A 387 REMARK 465 VAL A 388 REMARK 465 ASN A 412 REMARK 465 LYS A 413 REMARK 465 LEU A 414 REMARK 465 GLN A 415 REMARK 465 HIS A 416 REMARK 465 GLN A 417 REMARK 465 VAL A 418 REMARK 465 LYS A 419 REMARK 465 PRO A 420 REMARK 465 ASP A 421 REMARK 465 THR A 422 REMARK 465 PRO A 423 REMARK 465 LEU A 424 REMARK 465 VAL A 425 REMARK 465 GLU A 426 REMARK 465 SER A 427 REMARK 465 LYS A 428 REMARK 465 LYS A 429 REMARK 465 GLY A 430 REMARK 465 SER A 431 REMARK 465 GLU A 432 REMARK 465 CYS A 433 REMARK 465 GLN A 434 REMARK 465 VAL A 435 REMARK 465 ILE A 436 REMARK 465 GLU A 437 REMARK 465 ASP A 438 REMARK 465 LYS A 439 REMARK 465 GLU A 440 REMARK 465 LYS A 441 REMARK 465 CYS A 442 REMARK 465 LYS A 443 REMARK 465 THR A 444 REMARK 465 THR A 445 REMARK 465 TYR A 446 REMARK 465 GLY A 447 REMARK 465 CYS A 448 REMARK 465 GLU A 449 REMARK 465 LEU A 450 REMARK 465 LYS A 451 REMARK 465 GLY A 452 REMARK 465 ASP A 453 REMARK 465 LYS A 454 REMARK 465 CYS A 455 REMARK 465 VAL A 456 REMARK 465 VAL A 457 REMARK 465 LYS A 458 REMARK 465 MET A 459 REMARK 465 THR A 460 REMARK 465 THR A 461 REMARK 465 LYS A 462 REMARK 465 GLY A 463 REMARK 465 GLU A 464 REMARK 465 VAL A 465 REMARK 465 THR A 466 REMARK 465 GLY A 467 REMARK 465 THR A 468 REMARK 465 GLN A 469 REMARK 465 ASN A 470 REMARK 465 THR A 471 REMARK 465 THR A 472 REMARK 465 GLY A 473 REMARK 465 SER A 474 REMARK 465 ASN A 475 REMARK 465 SER A 476 REMARK 465 PHE A 477 REMARK 465 VAL A 478 REMARK 465 ILE A 479 REMARK 465 LYS A 480 REMARK 465 LYS A 481 REMARK 465 ALA A 482 REMARK 465 PRO A 483 REMARK 465 LEU A 484 REMARK 465 LEU A 485 REMARK 465 LEU A 486 REMARK 465 ALA A 487 REMARK 465 PHE A 488 REMARK 465 LEU A 489 REMARK 465 LEU A 490 REMARK 465 PHE A 491 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 GLN A 108 CG CD OE1 NE2 REMARK 470 LYS A 262 CG CD CE NZ REMARK 470 GLN A 353 CG CD OE1 NE2 REMARK 470 LEU A 354 CG CD1 CD2 REMARK 470 GLU A 364 CG CD OE1 OE2 REMARK 470 LYS A 380 CG CD CE NZ REMARK 470 LYS A 382 CG CD CE NZ REMARK 470 LYS A 411 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 O4 NAG B 2 O5 BMA B 3 2.19 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 NZ LYS A 207 O HOH A 927 4566 1.68 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 GLN A 115 CG GLN A 115 CD 0.139 REMARK 500 GLU A 186 CD GLU A 186 OE2 0.131 REMARK 500 TYR A 295 CG TYR A 295 CD2 -0.078 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 ASP A 215 CB - CG - OD1 ANGL. DEV. = 5.9 DEGREES REMARK 500 ASP A 215 CB - CG - OD2 ANGL. DEV. = -6.2 DEGREES REMARK 500 ARG A 292 NE - CZ - NH1 ANGL. DEV. = 6.2 DEGREES REMARK 500 ARG A 292 NE - CZ - NH2 ANGL. DEV. = 6.7 DEGREES REMARK 500 ARG A 292 NE - CZ - NH2 ANGL. DEV. = -5.8 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 933 DISTANCE = 5.89 ANGSTROMS DBREF1 6Z7A A 1 491 UNP A0A291L8F4_TRYBR DBREF2 6Z7A A A0A291L8F4 1 491 SEQRES 1 A 491 MET GLN ALA VAL THR ARG PHE PHE ARG HIS LEU ILE THR SEQRES 2 A 491 LEU THR ALA VAL ALA LEU LEU ALA ALA PHE LEU ASP THR SEQRES 3 A 491 VAL ASN ALA ALA LYS ASP THR ALA ALA GLY HIS VAL THR SEQRES 4 A 491 THR PRO CYS THR GLU ILE LEU PHE ASP LEU THR LEU ALA SEQRES 5 A 491 LYS HIS TYR GLU ASN GLN ILE GLN ALA ALA GLU SER ALA SEQRES 6 A 491 LEU ASN ARG ASN TYR ALA ALA ILE ARG SER TRP THR LEU SEQRES 7 A 491 LEU GLU ALA MET SER SER ASP GLY ASN ARG GLN ASN ALA SEQRES 8 A 491 TYR THR GLY LEU ILE ALA TYR GLY ILE GLN ILE THR VAL SEQRES 9 A 491 ASN ALA GLU GLN GLU LEU GLN GLY PRO LYS GLN THR LYS SEQRES 10 A 491 LEU ARG ALA ALA HIS ALA LEU ARG HIS ARG ALA ALA ASN SEQRES 11 A 491 LEU SER ALA ALA LEU GLN ILE GLN ALA ALA GLN GLN ALA SEQRES 12 A 491 THR LEU THR LYS PRO THR ALA GLY GLY ALA GLN THR PRO SEQRES 13 A 491 PHE SER GLY ALA THR GLY THR CYS LYS TYR GLU GLY ILE SEQRES 14 A 491 THR ALA THR ALA GLY GLU GLN SER CYS LYS TYR SER THR SEQRES 15 A 491 GLU ASP GLU GLU LYS ILE ASN ALA ALA HIS MET ASN PRO SEQRES 16 A 491 GLU VAL MET THR GLN ILE THR THR ILE GLY ASP LYS TYR SEQRES 17 A 491 LEU THR THR ILE THR LEU ASP ALA ILE ALA GLY SER LYS SEQRES 18 A 491 GLY ASN PRO THR GLN SER SER ALA THR TYR ALA GLU GLN SEQRES 19 A 491 ASP CYS GLN ASP GLY GLY ASN PRO GLY PRO ASN PHE GLY SEQRES 20 A 491 GLY ALA ASN ALA LEU GLY LEU GLN VAL THR LYS LEU GLY SEQRES 21 A 491 THR LYS ALA THR THR GLU LYS THR ASN LEU TYR THR ALA SEQRES 22 A 491 GLY GLY THR GLU CYS GLU HIS GLN PRO GLY ASN GLY PRO SEQRES 23 A 491 GLN LYS THR LYS GLN ARG LEU ALA TYR LEU VAL CYS GLU SEQRES 24 A 491 ALA ASN LYS ALA ALA ILE ILE THR PRO THR ASP LEU GLN SEQRES 25 A 491 THR LEU THR LEU ASP ALA LEU ILE SER ALA PRO GLU MET SEQRES 26 A 491 ALA ALA ILE GLY ASP ALA LEU LEU THR ASP GLU PRO ALA SEQRES 27 A 491 THR GLU LYS GLU TYR SER SER ALA GLN HIS THR GLN ILE SEQRES 28 A 491 GLN GLN LEU LEU LYS LYS ALA TYR GLY GLN THR ASN GLU SEQRES 29 A 491 GLN PHE GLN LYS ASN PHE ILE LYS PRO LEU ALA ALA GLN SEQRES 30 A 491 THR VAL LYS PHE LYS ILE GLY GLY ALA GLU VAL SER ASN SEQRES 31 A 491 THR VAL ALA ALA LEU MET SER SER PRO ASN SER GLY LEU SEQRES 32 A 491 ALA LEU ALA TYR HIS LYS GLY LYS ASN LYS LEU GLN HIS SEQRES 33 A 491 GLN VAL LYS PRO ASP THR PRO LEU VAL GLU SER LYS LYS SEQRES 34 A 491 GLY SER GLU CYS GLN VAL ILE GLU ASP LYS GLU LYS CYS SEQRES 35 A 491 LYS THR THR TYR GLY CYS GLU LEU LYS GLY ASP LYS CYS SEQRES 36 A 491 VAL VAL LYS MET THR THR LYS GLY GLU VAL THR GLY THR SEQRES 37 A 491 GLN ASN THR THR GLY SER ASN SER PHE VAL ILE LYS LYS SEQRES 38 A 491 ALA PRO LEU LEU LEU ALA PHE LEU LEU PHE HET NAG B 1 27 HET NAG B 2 27 HET BMA B 3 20 HET MAN B 4 21 HET MAN B 5 11 HET MAN B 6 22 HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM BMA BETA-D-MANNOPYRANOSE HETNAM MAN ALPHA-D-MANNOPYRANOSE 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 BMA BETA-D-MANNOSE; D-MANNOSE; MANNOSE HETSYN MAN ALPHA-D-MANNOSE; D-MANNOSE; MANNOSE FORMUL 2 NAG 2(C8 H15 N O6) FORMUL 2 BMA C6 H12 O6 FORMUL 2 MAN 3(C6 H12 O6) FORMUL 3 HOH *339(H2 O) HELIX 1 AA1 ALA A 34 VAL A 38 5 5 HELIX 2 AA2 THR A 40 SER A 83 1 44 HELIX 3 AA3 ASP A 85 ALA A 139 1 55 HELIX 4 AA4 SER A 181 ILE A 188 1 8 HELIX 5 AA5 ASN A 189 MET A 193 5 5 HELIX 6 AA6 ASN A 194 MET A 198 5 5 HELIX 7 AA7 ASP A 206 THR A 211 1 6 HELIX 8 AA8 LYS A 288 ALA A 303 1 16 HELIX 9 AA9 ASP A 310 LEU A 314 5 5 HELIX 10 AB1 THR A 315 ALA A 322 1 8 HELIX 11 AB2 GLU A 324 LEU A 333 1 10 HELIX 12 AB3 GLN A 352 GLY A 360 1 9 HELIX 13 AB4 THR A 362 ILE A 371 1 10 HELIX 14 AB5 ILE A 371 GLN A 377 1 7 HELIX 15 AB6 VAL A 392 MET A 396 1 5 HELIX 16 AB7 ASN A 400 LYS A 411 1 12 SHEET 1 AA1 2 ALA A 143 THR A 144 0 SHEET 2 AA1 2 THR A 170 ALA A 171 -1 O THR A 170 N THR A 144 SHEET 1 AA2 2 THR A 149 GLY A 151 0 SHEET 2 AA2 2 THR A 163 LYS A 165 -1 O LYS A 165 N THR A 149 SHEET 1 AA3 2 GLN A 200 ILE A 204 0 SHEET 2 AA3 2 THR A 265 ASN A 269 -1 O THR A 268 N ILE A 201 SHEET 1 AA4 3 LEU A 214 LYS A 221 0 SHEET 2 AA4 3 GLY A 248 LEU A 259 -1 O ALA A 251 N LYS A 221 SHEET 3 AA4 3 CYS A 236 GLY A 240 -1 N CYS A 236 O LEU A 252 SHEET 1 AA5 2 THR A 378 VAL A 379 0 SHEET 2 AA5 2 ASN A 390 THR A 391 -1 O ASN A 390 N VAL A 379 SSBOND 1 CYS A 42 CYS A 178 1555 1555 2.12 SSBOND 2 CYS A 164 CYS A 236 1555 1555 2.09 SSBOND 3 CYS A 278 CYS A 298 1555 1555 2.11 LINK ND2 ASN A 130 C1 NAG B 1 1555 1555 1.44 LINK O4 NAG B 1 C1 NAG B 2 1555 1555 1.43 LINK O4 NAG B 2 C1 BMA B 3 1555 1555 1.38 LINK O3 BMA B 3 C1 MAN B 4 1555 1555 1.46 LINK O6 BMA B 3 C1 MAN B 6 1555 1555 1.40 LINK O2 MAN B 4 C1 MAN B 5 1555 1555 1.42 CISPEP 1 THR A 155 PRO A 156 0 5.68 CRYST1 47.042 71.062 130.453 90.00 90.00 90.00 P 21 21 2 4 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 0.021258 0.000000 0.000000 0.00000 SCALE2 0.000000 0.014072 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007666 0.00000