HEADER RNA BINDING PROTEIN 09-JUN-17 5W4A TITLE C. JAPONICA N-DOMAIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: P-GRANULE SCAFFOLD; COMPND 3 CHAIN: A, B, C, D; COMPND 4 FRAGMENT: N-DOMAIN (UNP RESIDUES 1-216); COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CAENORHABDITIS JAPONICA; SOURCE 3 ORGANISM_TAXID: 281687; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 7 EXPRESSION_SYSTEM_VARIANT: ROSETTA2; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET21A KEYWDS P-GRANULE SCAFFOLD PROTEIN, RNA BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR S.T.AOKI,C.A.BINGMAN,J.KIMBLE REVDAT 4 15-NOV-23 5W4A 1 REMARK REVDAT 3 04-OCT-23 5W4A 1 JRNL REVDAT 2 20-NOV-19 5W4A 1 REMARK REVDAT 1 13-JUN-18 5W4A 0 JRNL AUTH S.T.AOKI,T.R.LYNCH,S.L.CRITTENDEN,C.A.BINGMAN,M.WICKENS, JRNL AUTH 2 J.KIMBLE JRNL TITL C. ELEGANS GERM GRANULES REQUIRE BOTH ASSEMBLY AND LOCALIZED JRNL TITL 2 REGULATORS FOR MRNA REPRESSION. JRNL REF NAT COMMUN V. 12 996 2021 JRNL REFN ESSN 2041-1723 JRNL PMID 33579952 JRNL DOI 10.1038/S41467-021-21278-1 REMARK 2 REMARK 2 RESOLUTION. 1.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.11.1_2575: ???) 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) : 1.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.36 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 283749 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.162 REMARK 3 R VALUE (WORKING SET) : 0.162 REMARK 3 FREE R VALUE : 0.197 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 1.030 REMARK 3 FREE R VALUE TEST SET COUNT : 2915 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 30.3671 - 4.1351 0.99 13298 138 0.1624 0.1586 REMARK 3 2 4.1351 - 3.2834 1.00 13399 142 0.1467 0.1891 REMARK 3 3 3.2834 - 2.8687 1.00 13436 136 0.1568 0.1953 REMARK 3 4 2.8687 - 2.6066 1.00 13363 126 0.1521 0.2595 REMARK 3 5 2.6066 - 2.4199 1.00 13451 142 0.1412 0.1942 REMARK 3 6 2.4199 - 2.2772 1.00 13356 146 0.1371 0.1666 REMARK 3 7 2.2772 - 2.1632 1.00 13460 136 0.1338 0.1638 REMARK 3 8 2.1632 - 2.0691 1.00 13403 138 0.1437 0.2037 REMARK 3 9 2.0691 - 1.9894 1.00 13349 143 0.1526 0.1586 REMARK 3 10 1.9894 - 1.9208 1.00 13452 139 0.1572 0.1846 REMARK 3 11 1.9208 - 1.8608 0.99 13237 139 0.1652 0.2046 REMARK 3 12 1.8608 - 1.8076 0.99 13247 132 0.1704 0.2253 REMARK 3 13 1.8076 - 1.7600 1.00 13423 144 0.1908 0.2461 REMARK 3 14 1.7600 - 1.7171 1.00 13432 140 0.1998 0.2236 REMARK 3 15 1.7171 - 1.6780 1.00 13321 150 0.2076 0.2750 REMARK 3 16 1.6780 - 1.6423 1.00 13469 130 0.2238 0.2044 REMARK 3 17 1.6423 - 1.6095 1.00 13467 142 0.2330 0.2990 REMARK 3 18 1.6095 - 1.5791 1.00 13299 129 0.2523 0.2707 REMARK 3 19 1.5791 - 1.5509 1.00 13337 135 0.2718 0.2896 REMARK 3 20 1.5509 - 1.5246 1.00 13463 136 0.2874 0.2886 REMARK 3 21 1.5246 - 1.5000 0.98 13172 152 0.3209 0.3724 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) : 0.200 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 22.160 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 : 0.009 7040 REMARK 3 ANGLE : 0.989 9463 REMARK 3 CHIRALITY : 0.050 1088 REMARK 3 PLANARITY : 0.006 1229 REMARK 3 DIHEDRAL : 10.323 4336 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 1 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: ALL REMARK 3 ORIGIN FOR THE GROUP (A): -33.4193 -13.2487 17.9092 REMARK 3 T TENSOR REMARK 3 T11: 0.1356 T22: 0.1062 REMARK 3 T33: 0.1370 T12: -0.0035 REMARK 3 T13: -0.0004 T23: -0.0114 REMARK 3 L TENSOR REMARK 3 L11: 0.4239 L22: 0.2751 REMARK 3 L33: 0.3533 L12: 0.0204 REMARK 3 L13: 0.0005 L23: -0.0731 REMARK 3 S TENSOR REMARK 3 S11: 0.0050 S12: -0.0109 S13: 0.0263 REMARK 3 S21: 0.0051 S22: -0.0261 S23: -0.0081 REMARK 3 S31: -0.0218 S32: 0.0068 S33: -0.0000 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 5W4A COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 16-JUN-17. REMARK 100 THE DEPOSITION ID IS D_1000226296. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 10-NOV-16 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5-8.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 21-ID-D REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.984 REMARK 200 MONOCHROMATOR : SI(111) REMARK 200 OPTICS : MD2 MICRO DIFFRACTOMETER REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 9M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 283749 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.500 REMARK 200 RESOLUTION RANGE LOW (A) : 30.361 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 15.10 REMARK 200 R MERGE (I) : 0.08108 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 16.9100 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.55 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.3 REMARK 200 DATA REDUNDANCY IN SHELL : 13.60 REMARK 200 R MERGE FOR SHELL (I) : 1.28200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.850 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: 5W4D REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.69 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.35 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 100 MM IMIDAZOLE PH 7.5, 40-45% PEG REMARK 280 400, 1 MM TCEP PH 7.4, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 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 66.38500 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 47.33500 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 66.38500 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 47.33500 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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 APPLY THE FOLLOWING TO CHAINS: A, 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 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, D 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 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 556 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 592 LIES ON A SPECIAL POSITION. REMARK 375 HOH D 541 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 MSE A 1 REMARK 465 ASP A 2 REMARK 465 THR A 3 REMARK 465 PRO A 216 REMARK 465 PRO B 216 REMARK 465 GLY C 114 REMARK 465 PRO C 216 REMARK 465 MSE D 1 REMARK 465 ASP D 2 REMARK 465 THR D 3 REMARK 465 PRO D 216 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 OD1 ASP B 117 HZ1 LYS B 121 1.56 REMARK 500 HE ARG A 200 O HOH A 406 1.58 REMARK 500 O HOH D 401 O HOH D 539 1.58 REMARK 500 O HOH B 505 O HOH B 572 1.63 REMARK 500 O HOH A 503 O HOH A 512 1.82 REMARK 500 O HOH A 466 O HOH A 534 1.82 REMARK 500 O HOH B 406 O HOH B 568 1.85 REMARK 500 O HOH D 406 O HOH D 455 1.90 REMARK 500 O HOH B 522 O HOH B 568 1.91 REMARK 500 O HOH A 512 O HOH A 513 1.96 REMARK 500 O HOH D 521 O HOH D 537 2.03 REMARK 500 O HOH A 503 O HOH A 513 2.08 REMARK 500 O HOH B 492 O HOH B 516 2.16 REMARK 500 OE1 GLU B 10 O HOH B 401 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 O HOH C 524 O HOH D 499 4456 2.06 REMARK 500 O HOH D 441 O HOH D 527 2556 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 GLN A 113 -154.80 -108.74 REMARK 500 ASP A 115 74.42 37.01 REMARK 500 LEU B 12 64.17 39.05 REMARK 500 GLN B 113 -44.96 -130.26 REMARK 500 ASN B 214 105.55 -161.39 REMARK 500 LEU C 12 63.33 38.23 REMARK 500 THR C 204 -35.15 -131.19 REMARK 500 ASN C 214 -75.07 -119.42 REMARK 500 ASP D 36 63.67 -115.58 REMARK 500 THR D 204 -33.54 -134.97 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PGE A 305 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PGE A 306 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue IMD B 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue IMD B 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue IMD B 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PG4 B 305 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PGE B 306 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO C 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO C 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO C 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO C 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue IMD C 305 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PGE C 306 REMARK 800 REMARK 800 SITE_IDENTIFIER: AE1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PEG C 307 REMARK 800 REMARK 800 SITE_IDENTIFIER: AE2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO D 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AE3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue IMD D 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AE4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PEG D 304 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5W4D RELATED DB: PDB REMARK 900 ENTRY CONTAINS METHIONINE MUTATIONS; SELENOMETHIONINE SAMPLE USED REMARK 900 FOR SAD PHASING DBREF 5W4A A 1 216 UNP H2W791 H2W791_CAEJA 1 216 DBREF 5W4A B 1 216 UNP H2W791 H2W791_CAEJA 1 216 DBREF 5W4A C 1 216 UNP H2W791 H2W791_CAEJA 1 216 DBREF 5W4A D 1 216 UNP H2W791 H2W791_CAEJA 1 216 SEQRES 1 A 216 MSE ASP THR ASN LYS ARG GLU ILE VAL GLU PHE LEU GLY SEQRES 2 A 216 ILE ARG THR TYR PHE PHE PRO ASN LEU ALA LEU TYR ALA SEQRES 3 A 216 VAL ASN ASN ASP GLU LEU LEU VAL SER ASP PRO ASN LYS SEQRES 4 A 216 ALA ASN SER PHE ALA ALA TYR VAL PHE GLY ALA SER ASP SEQRES 5 A 216 LYS LYS PRO SER VAL ASP ASP ILE VAL GLN ILE LEU PHE SEQRES 6 A 216 PRO SER GLY SER ASP SER GLY THR ILE LEU THR SER MSE SEQRES 7 A 216 ASP THR LEU LEU ALA LEU GLY PRO ASP PHE LEU THR GLU SEQRES 8 A 216 PHE LYS LYS ARG ASN GLN ASP LEU ALA ARG PHE ASN LEU SEQRES 9 A 216 THR HIS ASP LEU SER ILE LEU ALA GLN GLY ASP GLU ASP SEQRES 10 A 216 ALA ALA LYS LYS LYS LEU ASN LEU MSE GLY ARG LYS ALA SEQRES 11 A 216 LYS LEU GLN LYS THR GLU ALA ALA LYS ILE LEU ALA ILE SEQRES 12 A 216 LEU ILE LYS THR ILE ASN SER GLU GLU ASN TYR GLU LYS SEQRES 13 A 216 PHE THR GLU LEU SER GLU LEU CYS GLY LEU ASP LEU ASP SEQRES 14 A 216 PHE ASP ALA TYR VAL PHE THR LYS ILE LEU GLY LEU GLU SEQRES 15 A 216 ASP GLU ASP THR ALA ASP GLU VAL GLU VAL ILE ARG ASP SEQRES 16 A 216 ASN PHE LEU ASN ARG LEU ASP GLN THR LYS PRO LYS LEU SEQRES 17 A 216 ALA ASP ILE ILE ARG ASN GLY PRO SEQRES 1 B 216 MSE ASP THR ASN LYS ARG GLU ILE VAL GLU PHE LEU GLY SEQRES 2 B 216 ILE ARG THR TYR PHE PHE PRO ASN LEU ALA LEU TYR ALA SEQRES 3 B 216 VAL ASN ASN ASP GLU LEU LEU VAL SER ASP PRO ASN LYS SEQRES 4 B 216 ALA ASN SER PHE ALA ALA TYR VAL PHE GLY ALA SER ASP SEQRES 5 B 216 LYS LYS PRO SER VAL ASP ASP ILE VAL GLN ILE LEU PHE SEQRES 6 B 216 PRO SER GLY SER ASP SER GLY THR ILE LEU THR SER MSE SEQRES 7 B 216 ASP THR LEU LEU ALA LEU GLY PRO ASP PHE LEU THR GLU SEQRES 8 B 216 PHE LYS LYS ARG ASN GLN ASP LEU ALA ARG PHE ASN LEU SEQRES 9 B 216 THR HIS ASP LEU SER ILE LEU ALA GLN GLY ASP GLU ASP SEQRES 10 B 216 ALA ALA LYS LYS LYS LEU ASN LEU MSE GLY ARG LYS ALA SEQRES 11 B 216 LYS LEU GLN LYS THR GLU ALA ALA LYS ILE LEU ALA ILE SEQRES 12 B 216 LEU ILE LYS THR ILE ASN SER GLU GLU ASN TYR GLU LYS SEQRES 13 B 216 PHE THR GLU LEU SER GLU LEU CYS GLY LEU ASP LEU ASP SEQRES 14 B 216 PHE ASP ALA TYR VAL PHE THR LYS ILE LEU GLY LEU GLU SEQRES 15 B 216 ASP GLU ASP THR ALA ASP GLU VAL GLU VAL ILE ARG ASP SEQRES 16 B 216 ASN PHE LEU ASN ARG LEU ASP GLN THR LYS PRO LYS LEU SEQRES 17 B 216 ALA ASP ILE ILE ARG ASN GLY PRO SEQRES 1 C 216 MSE ASP THR ASN LYS ARG GLU ILE VAL GLU PHE LEU GLY SEQRES 2 C 216 ILE ARG THR TYR PHE PHE PRO ASN LEU ALA LEU TYR ALA SEQRES 3 C 216 VAL ASN ASN ASP GLU LEU LEU VAL SER ASP PRO ASN LYS SEQRES 4 C 216 ALA ASN SER PHE ALA ALA TYR VAL PHE GLY ALA SER ASP SEQRES 5 C 216 LYS LYS PRO SER VAL ASP ASP ILE VAL GLN ILE LEU PHE SEQRES 6 C 216 PRO SER GLY SER ASP SER GLY THR ILE LEU THR SER MSE SEQRES 7 C 216 ASP THR LEU LEU ALA LEU GLY PRO ASP PHE LEU THR GLU SEQRES 8 C 216 PHE LYS LYS ARG ASN GLN ASP LEU ALA ARG PHE ASN LEU SEQRES 9 C 216 THR HIS ASP LEU SER ILE LEU ALA GLN GLY ASP GLU ASP SEQRES 10 C 216 ALA ALA LYS LYS LYS LEU ASN LEU MSE GLY ARG LYS ALA SEQRES 11 C 216 LYS LEU GLN LYS THR GLU ALA ALA LYS ILE LEU ALA ILE SEQRES 12 C 216 LEU ILE LYS THR ILE ASN SER GLU GLU ASN TYR GLU LYS SEQRES 13 C 216 PHE THR GLU LEU SER GLU LEU CYS GLY LEU ASP LEU ASP SEQRES 14 C 216 PHE ASP ALA TYR VAL PHE THR LYS ILE LEU GLY LEU GLU SEQRES 15 C 216 ASP GLU ASP THR ALA ASP GLU VAL GLU VAL ILE ARG ASP SEQRES 16 C 216 ASN PHE LEU ASN ARG LEU ASP GLN THR LYS PRO LYS LEU SEQRES 17 C 216 ALA ASP ILE ILE ARG ASN GLY PRO SEQRES 1 D 216 MSE ASP THR ASN LYS ARG GLU ILE VAL GLU PHE LEU GLY SEQRES 2 D 216 ILE ARG THR TYR PHE PHE PRO ASN LEU ALA LEU TYR ALA SEQRES 3 D 216 VAL ASN ASN ASP GLU LEU LEU VAL SER ASP PRO ASN LYS SEQRES 4 D 216 ALA ASN SER PHE ALA ALA TYR VAL PHE GLY ALA SER ASP SEQRES 5 D 216 LYS LYS PRO SER VAL ASP ASP ILE VAL GLN ILE LEU PHE SEQRES 6 D 216 PRO SER GLY SER ASP SER GLY THR ILE LEU THR SER MSE SEQRES 7 D 216 ASP THR LEU LEU ALA LEU GLY PRO ASP PHE LEU THR GLU SEQRES 8 D 216 PHE LYS LYS ARG ASN GLN ASP LEU ALA ARG PHE ASN LEU SEQRES 9 D 216 THR HIS ASP LEU SER ILE LEU ALA GLN GLY ASP GLU ASP SEQRES 10 D 216 ALA ALA LYS LYS LYS LEU ASN LEU MSE GLY ARG LYS ALA SEQRES 11 D 216 LYS LEU GLN LYS THR GLU ALA ALA LYS ILE LEU ALA ILE SEQRES 12 D 216 LEU ILE LYS THR ILE ASN SER GLU GLU ASN TYR GLU LYS SEQRES 13 D 216 PHE THR GLU LEU SER GLU LEU CYS GLY LEU ASP LEU ASP SEQRES 14 D 216 PHE ASP ALA TYR VAL PHE THR LYS ILE LEU GLY LEU GLU SEQRES 15 D 216 ASP GLU ASP THR ALA ASP GLU VAL GLU VAL ILE ARG ASP SEQRES 16 D 216 ASN PHE LEU ASN ARG LEU ASP GLN THR LYS PRO LYS LEU SEQRES 17 D 216 ALA ASP ILE ILE ARG ASN GLY PRO MODRES 5W4A MSE A 78 MET MODIFIED RESIDUE MODRES 5W4A MSE A 126 MET MODIFIED RESIDUE MODRES 5W4A MSE B 1 MET MODIFIED RESIDUE MODRES 5W4A MSE B 78 MET MODIFIED RESIDUE MODRES 5W4A MSE B 126 MET MODIFIED RESIDUE MODRES 5W4A MSE C 1 MET MODIFIED RESIDUE MODRES 5W4A MSE C 78 MET MODIFIED RESIDUE MODRES 5W4A MSE C 126 MET MODIFIED RESIDUE MODRES 5W4A MSE D 78 MET MODIFIED RESIDUE MODRES 5W4A MSE D 126 MET MODIFIED RESIDUE HET MSE A 78 17 HET MSE A 126 31 HET MSE B 1 19 HET MSE B 78 17 HET MSE B 126 17 HET MSE C 1 19 HET MSE C 78 17 HET MSE C 126 17 HET MSE D 78 17 HET MSE D 126 29 HET EDO A 301 10 HET EDO A 302 10 HET EDO A 303 10 HET EDO A 304 10 HET PGE A 305 24 HET PGE A 306 24 HET EDO B 301 10 HET IMD B 302 10 HET IMD B 303 10 HET IMD B 304 10 HET PG4 B 305 31 HET PGE B 306 24 HET EDO C 301 10 HET EDO C 302 10 HET EDO C 303 10 HET EDO C 304 10 HET IMD C 305 10 HET PGE C 306 24 HET PEG C 307 17 HET EDO D 301 10 HET EDO D 302 10 HET IMD D 303 10 HET PEG D 304 17 HETNAM MSE SELENOMETHIONINE HETNAM EDO 1,2-ETHANEDIOL HETNAM PGE TRIETHYLENE GLYCOL HETNAM IMD IMIDAZOLE HETNAM PG4 TETRAETHYLENE GLYCOL HETNAM PEG DI(HYDROXYETHYL)ETHER HETSYN EDO ETHYLENE GLYCOL FORMUL 1 MSE 10(C5 H11 N O2 SE) FORMUL 5 EDO 11(C2 H6 O2) FORMUL 9 PGE 4(C6 H14 O4) FORMUL 12 IMD 5(C3 H5 N2 1+) FORMUL 15 PG4 C8 H18 O5 FORMUL 23 PEG 2(C4 H10 O3) FORMUL 28 HOH *836(H2 O) HELIX 1 AA1 PHE A 19 ASN A 29 1 11 HELIX 2 AA2 ASN A 29 ASP A 36 1 8 HELIX 3 AA3 PRO A 37 ALA A 40 5 4 HELIX 4 AA4 ASN A 41 PHE A 48 1 8 HELIX 5 AA5 SER A 56 PHE A 65 1 10 HELIX 6 AA6 ASP A 70 GLY A 85 1 16 HELIX 7 AA7 PHE A 88 ARG A 101 1 14 HELIX 8 AA8 LEU A 108 GLN A 113 5 6 HELIX 9 AA9 ASP A 115 LEU A 132 1 18 HELIX 10 AB1 THR A 135 ASN A 149 1 15 HELIX 11 AB2 GLU A 152 GLU A 162 1 11 HELIX 12 AB3 LEU A 163 ASP A 167 5 5 HELIX 13 AB4 LEU A 168 GLY A 180 1 13 HELIX 14 AB5 THR A 186 ASP A 202 1 17 HELIX 15 AB6 LYS A 205 GLY A 215 1 11 HELIX 16 AB7 PHE B 19 ASN B 29 1 11 HELIX 17 AB8 ASN B 29 ASP B 36 1 8 HELIX 18 AB9 PRO B 37 ALA B 40 5 4 HELIX 19 AC1 ASN B 41 PHE B 48 1 8 HELIX 20 AC2 SER B 56 PHE B 65 1 10 HELIX 21 AC3 ASP B 70 GLY B 85 1 16 HELIX 22 AC4 PHE B 88 ARG B 101 1 14 HELIX 23 AC5 SER B 109 GLY B 114 1 6 HELIX 24 AC6 ASP B 115 LEU B 132 1 18 HELIX 25 AC7 THR B 135 ASN B 149 1 15 HELIX 26 AC8 GLU B 152 SER B 161 1 10 HELIX 27 AC9 GLU B 162 ASP B 167 5 6 HELIX 28 AD1 LEU B 168 GLY B 180 1 13 HELIX 29 AD2 THR B 186 ASP B 202 1 17 HELIX 30 AD3 LYS B 205 ASN B 214 1 10 HELIX 31 AD4 PHE C 19 ASN C 29 1 11 HELIX 32 AD5 ASN C 29 ASP C 36 1 8 HELIX 33 AD6 PRO C 37 ALA C 40 5 4 HELIX 34 AD7 ASN C 41 PHE C 48 1 8 HELIX 35 AD8 SER C 56 PHE C 65 1 10 HELIX 36 AD9 ASP C 70 GLY C 85 1 16 HELIX 37 AE1 PHE C 88 ARG C 101 1 14 HELIX 38 AE2 GLU C 116 LEU C 132 1 17 HELIX 39 AE3 THR C 135 ASN C 149 1 15 HELIX 40 AE4 GLU C 152 SER C 161 1 10 HELIX 41 AE5 GLU C 162 ASP C 167 5 6 HELIX 42 AE6 LEU C 168 GLY C 180 1 13 HELIX 43 AE7 THR C 186 ASP C 202 1 17 HELIX 44 AE8 LYS C 205 ASN C 214 1 10 HELIX 45 AE9 PHE D 19 ASN D 29 1 11 HELIX 46 AF1 ASN D 29 ASP D 36 1 8 HELIX 47 AF2 PRO D 37 ALA D 40 5 4 HELIX 48 AF3 ASN D 41 PHE D 48 1 8 HELIX 49 AF4 SER D 56 PHE D 65 1 10 HELIX 50 AF5 ASP D 70 GLY D 85 1 16 HELIX 51 AF6 PHE D 88 ARG D 101 1 14 HELIX 52 AF7 LEU D 108 GLN D 113 5 6 HELIX 53 AF8 ASP D 115 LEU D 132 1 18 HELIX 54 AF9 THR D 135 ASN D 149 1 15 HELIX 55 AG1 GLU D 152 GLU D 162 1 11 HELIX 56 AG2 LEU D 163 ASP D 167 5 5 HELIX 57 AG3 LEU D 168 GLY D 180 1 13 HELIX 58 AG4 THR D 186 ASP D 202 1 17 HELIX 59 AG5 LYS D 205 GLY D 215 1 11 SHEET 1 AA1 2 VAL A 9 PHE A 11 0 SHEET 2 AA1 2 ILE A 14 THR A 16 -1 O THR A 16 N VAL A 9 SHEET 1 AA2 2 VAL B 9 PHE B 11 0 SHEET 2 AA2 2 ILE B 14 THR B 16 -1 O THR B 16 N VAL B 9 SHEET 1 AA3 2 VAL C 9 PHE C 11 0 SHEET 2 AA3 2 ILE C 14 THR C 16 -1 O THR C 16 N VAL C 9 SHEET 1 AA4 2 VAL D 9 PHE D 11 0 SHEET 2 AA4 2 ILE D 14 THR D 16 -1 O THR D 16 N VAL D 9 LINK C SER A 77 N MSE A 78 1555 1555 1.33 LINK C MSE A 78 N ASP A 79 1555 1555 1.34 LINK C LEU A 125 N MSE A 126 1555 1555 1.34 LINK C MSE A 126 N GLY A 127 1555 1555 1.34 LINK C MSE B 1 N ASP B 2 1555 1555 1.33 LINK C SER B 77 N MSE B 78 1555 1555 1.34 LINK C MSE B 78 N ASP B 79 1555 1555 1.34 LINK C LEU B 125 N MSE B 126 1555 1555 1.33 LINK C MSE B 126 N GLY B 127 1555 1555 1.34 LINK C MSE C 1 N ASP C 2 1555 1555 1.33 LINK C SER C 77 N MSE C 78 1555 1555 1.33 LINK C MSE C 78 N ASP C 79 1555 1555 1.34 LINK C LEU C 125 N MSE C 126 1555 1555 1.33 LINK C MSE C 126 N GLY C 127 1555 1555 1.34 LINK C SER D 77 N MSE D 78 1555 1555 1.33 LINK C MSE D 78 N ASP D 79 1555 1555 1.33 LINK C LEU D 125 N MSE D 126 1555 1555 1.33 LINK C MSE D 126 N GLY D 127 1555 1555 1.33 SITE 1 AC1 2 GLU A 136 HOH A 547 SITE 1 AC2 3 ASP A 107 MSE A 126 ARG B 101 SITE 1 AC3 1 LYS A 134 SITE 1 AC4 7 ASN A 4 ARG A 6 TYR A 17 LEU A 75 SITE 2 AC4 7 THR A 76 ASP A 79 HOH B 497 SITE 1 AC5 5 SER A 69 SER A 71 PHE A 102 HOH A 417 SITE 2 AC5 5 HOH A 539 SITE 1 AC6 3 ASP A 117 LYS A 121 ASN A 124 SITE 1 AC7 2 ILE B 74 HOH B 555 SITE 1 AC8 8 ASN A 103 ASN B 4 ARG B 6 TYR B 17 SITE 2 AC8 8 LEU B 75 THR B 76 ASP B 79 ASP B 107 SITE 1 AC9 2 TYR B 154 ASP B 185 SITE 1 AD1 3 GLU B 151 GLU B 152 HOH B 545 SITE 1 AD2 7 MSE B 1 PRO B 66 SER B 67 GLY B 72 SITE 2 AD2 7 THR B 73 THR B 76 HOH B 510 SITE 1 AD3 4 LYS B 54 PRO B 55 LYS B 177 ILE B 178 SITE 1 AD4 1 ILE C 178 SITE 1 AD5 1 ASP C 185 SITE 1 AD6 1 HOH C 556 SITE 1 AD7 4 TYR C 46 LYS C 54 LYS C 177 ILE C 178 SITE 1 AD8 9 ASN C 4 ARG C 6 TYR C 17 LEU C 75 SITE 2 AD8 9 THR C 76 ASP C 79 ASP C 107 HOH C 549 SITE 3 AD8 9 ASN D 103 SITE 1 AD9 8 LYS C 134 GLU C 136 LYS C 139 HOH C 420 SITE 2 AD9 8 HOH C 422 HOH C 428 HOH C 458 HOH C 548 SITE 1 AE1 2 PRO C 66 HOH C 511 SITE 1 AE2 2 PHE C 102 ASN D 4 SITE 1 AE3 7 ASN C 103 ASN D 4 ARG D 6 TYR D 17 SITE 2 AE3 7 LEU D 75 THR D 76 ASP D 79 SITE 1 AE4 4 LYS D 120 LYS D 121 ASN D 124 ASN D 149 CRYST1 132.770 94.670 72.950 90.00 90.76 90.00 C 1 2 1 16 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 0.007532 0.000000 0.000099 0.00000 SCALE2 0.000000 0.010563 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013709 0.00000