HEADER ANTIBIOTIC 14-DEC-18 6Q8D TITLE STRUCTURE OF FUCOSYLATED D-ANTIMICROBIAL PEPTIDE SB15 IN COMPLEX WITH TITLE 2 THE FUCOSE-BINDING LECTIN PA-IIL AT 1.630 ANGSTROM RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: FUCOSE-BINDING LECTIN; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: FUCOSE-BINDING LECTIN II (PA-IIL),FUCOSE-BINDING LECTIN PA- COMPND 5 IIL; COMPND 6 ENGINEERED: YES; COMPND 7 OTHER_DETAILS: FUCOSE-BINDING LECTIN PA-IIL LECTIN B FROM PSEUDOMONAS COMPND 8 AERUGINOSA; COMPND 9 MOL_ID: 2; COMPND 10 MOLECULE: SB15; COMPND 11 CHAIN: B; COMPND 12 ENGINEERED: YES; COMPND 13 OTHER_DETAILS: FUCOSYLATED D-ANTIMICROBIAL PEPTIDE SB15. PEPTIDE NOT COMPND 14 ENTIRELY RESOLVED. FULL SEQUENCE:(DLE)(DLY)(DAL)(DLE)(DLY)(DLY)(DLE) COMPND 15 (DAL)(DLY)(DLY)(DTY) SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PSEUDOMONAS AERUGINOSA; SOURCE 3 ORGANISM_TAXID: 287; SOURCE 4 GENE: LECB, C0043_24310, C0044_25260, C0046_23510, CAZ10_21840, SOURCE 5 CW299_25270, DI492_13230, DT376_00595, SOURCE 6 PAERUG_E15_LONDON_28_01_14_00983, PAMH19_1713, RW109_RW109_02453; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI 'BL21-GOLD(DE3)PLYSS AG'; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 866768; SOURCE 9 MOL_ID: 2; SOURCE 10 SYNTHETIC: YES; SOURCE 11 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 12 ORGANISM_TAXID: 32630 KEYWDS ANTIMICROBIAL, LECTIN, COMPLEX, ANTIBIOTIC EXPDTA X-RAY DIFFRACTION AUTHOR S.BAERISWYL,A.STOCKER,J.-L.REYMOND REVDAT 3 29-JUL-20 6Q8D 1 REMARK LINK SITE REVDAT 2 01-MAY-19 6Q8D 1 JRNL REVDAT 1 20-MAR-19 6Q8D 0 JRNL AUTH S.BAERISWYL,B.H.GAN,T.N.SIRIWARDENA,R.VISINI,M.ROBADEY, JRNL AUTH 2 S.JAVOR,A.STOCKER,T.DARBRE,J.L.REYMOND JRNL TITL X-RAY CRYSTAL STRUCTURES OF SHORT ANTIMICROBIAL PEPTIDES AS JRNL TITL 2 PSEUDOMONAS AERUGINOSA LECTIN B COMPLEXES. JRNL REF ACS CHEM.BIOL. V. 14 758 2019 JRNL REFN ESSN 1554-8937 JRNL PMID 30830745 JRNL DOI 10.1021/ACSCHEMBIO.9B00047 REMARK 2 REMARK 2 RESOLUTION. 1.63 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.63 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 49.00 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.190 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 3 NUMBER OF REFLECTIONS : 17092 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.215 REMARK 3 R VALUE (WORKING SET) : 0.213 REMARK 3 FREE R VALUE : 0.238 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.020 REMARK 3 FREE R VALUE TEST SET COUNT : 1570 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 49.0251 - 3.6237 1.00 2716 145 0.1710 0.1764 REMARK 3 2 3.6237 - 2.8763 1.00 2708 141 0.1770 0.2186 REMARK 3 3 2.8763 - 2.5127 1.00 2716 141 0.1991 0.2228 REMARK 3 4 2.5127 - 2.2830 1.00 2716 142 0.1988 0.2577 REMARK 3 5 2.2830 - 2.1194 1.00 2687 142 0.2175 0.2563 REMARK 3 6 2.1194 - 1.9944 1.00 2701 142 0.2419 0.2861 REMARK 3 7 1.9944 - 1.8945 0.99 2696 144 0.2735 0.3179 REMARK 3 8 1.8945 - 1.8120 1.00 2694 144 0.3246 0.3804 REMARK 3 9 1.8120 - 1.7423 0.99 2687 139 0.3550 0.4202 REMARK 3 10 1.7423 - 1.6822 1.00 2732 148 0.4080 0.4506 REMARK 3 11 1.6822 - 1.6296 0.98 2632 142 0.4469 0.4604 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) : 0.290 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 33.830 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 41.69 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 : 0.006 898 REMARK 3 ANGLE : 0.855 1231 REMARK 3 CHIRALITY : 0.058 159 REMARK 3 PLANARITY : 0.004 161 REMARK 3 DIHEDRAL : 5.240 502 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 7 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 1 THROUGH 32 ) REMARK 3 ORIGIN FOR THE GROUP (A): 19.2971 8.4966 13.2576 REMARK 3 T TENSOR REMARK 3 T11: 0.3706 T22: 0.3418 REMARK 3 T33: 0.2843 T12: -0.1118 REMARK 3 T13: 0.0629 T23: -0.0636 REMARK 3 L TENSOR REMARK 3 L11: 1.9404 L22: 3.3297 REMARK 3 L33: 4.0749 L12: -0.3246 REMARK 3 L13: -0.2561 L23: 0.6628 REMARK 3 S TENSOR REMARK 3 S11: 0.1872 S12: -0.2226 S13: 0.0221 REMARK 3 S21: 0.4294 S22: -0.2146 S23: 0.2738 REMARK 3 S31: -0.5211 S32: -0.5806 S33: 0.0677 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 33 THROUGH 42 ) REMARK 3 ORIGIN FOR THE GROUP (A): 15.1790 12.6683 18.5309 REMARK 3 T TENSOR REMARK 3 T11: 0.6013 T22: 0.5044 REMARK 3 T33: 0.3395 T12: -0.0755 REMARK 3 T13: 0.0655 T23: -0.1432 REMARK 3 L TENSOR REMARK 3 L11: 1.8825 L22: 2.3935 REMARK 3 L33: 8.5367 L12: -1.6944 REMARK 3 L13: 3.1284 L23: -1.1132 REMARK 3 S TENSOR REMARK 3 S11: 0.0908 S12: -0.4258 S13: 0.3429 REMARK 3 S21: 0.0723 S22: -0.3734 S23: 0.1688 REMARK 3 S31: -0.6010 S32: -1.4016 S33: 0.2571 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 43 THROUGH 47 ) REMARK 3 ORIGIN FOR THE GROUP (A): 35.1714 8.1681 21.5134 REMARK 3 T TENSOR REMARK 3 T11: 0.5881 T22: 0.4728 REMARK 3 T33: 0.3605 T12: -0.2995 REMARK 3 T13: -0.1301 T23: 0.0153 REMARK 3 L TENSOR REMARK 3 L11: 5.4605 L22: 7.0259 REMARK 3 L33: 5.3148 L12: 4.7681 REMARK 3 L13: 1.8697 L23: 5.0215 REMARK 3 S TENSOR REMARK 3 S11: 0.0895 S12: -0.1964 S13: 0.0561 REMARK 3 S21: 0.7202 S22: 0.2548 S23: -0.6759 REMARK 3 S31: 0.2467 S32: 0.8315 S33: -0.2897 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 48 THROUGH 61 ) REMARK 3 ORIGIN FOR THE GROUP (A): 14.8423 4.8061 17.2619 REMARK 3 T TENSOR REMARK 3 T11: 0.4305 T22: 0.5682 REMARK 3 T33: 0.3117 T12: -0.0561 REMARK 3 T13: 0.1317 T23: -0.1286 REMARK 3 L TENSOR REMARK 3 L11: 8.2714 L22: 3.5479 REMARK 3 L33: 5.1813 L12: 0.6920 REMARK 3 L13: 2.2978 L23: -0.3367 REMARK 3 S TENSOR REMARK 3 S11: 0.4602 S12: -0.3803 S13: 0.0296 REMARK 3 S21: 0.5557 S22: -0.4906 S23: 0.4978 REMARK 3 S31: -0.4722 S32: -1.0362 S33: 0.0425 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 62 THROUGH 69 ) REMARK 3 ORIGIN FOR THE GROUP (A): 18.8593 14.5065 12.4190 REMARK 3 T TENSOR REMARK 3 T11: 0.4524 T22: 0.3508 REMARK 3 T33: 0.3202 T12: -0.0794 REMARK 3 T13: 0.0894 T23: -0.1288 REMARK 3 L TENSOR REMARK 3 L11: 4.7184 L22: 4.1866 REMARK 3 L33: 9.3388 L12: 3.3291 REMARK 3 L13: 6.5179 L23: 3.8160 REMARK 3 S TENSOR REMARK 3 S11: -0.0231 S12: -0.7613 S13: 0.7172 REMARK 3 S21: -0.0943 S22: -0.2812 S23: 0.0617 REMARK 3 S31: -1.1698 S32: -0.6267 S33: 0.1863 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 70 THROUGH 74 ) REMARK 3 ORIGIN FOR THE GROUP (A): 26.7539 22.0194 15.7625 REMARK 3 T TENSOR REMARK 3 T11: 0.9535 T22: 0.4342 REMARK 3 T33: 0.3646 T12: -0.1204 REMARK 3 T13: -0.0379 T23: -0.1289 REMARK 3 L TENSOR REMARK 3 L11: 5.1611 L22: 5.8319 REMARK 3 L33: 6.7582 L12: -4.6026 REMARK 3 L13: -5.4147 L23: 6.1931 REMARK 3 S TENSOR REMARK 3 S11: 0.1251 S12: -0.6917 S13: 0.6827 REMARK 3 S21: 0.4204 S22: 0.2394 S23: -0.9016 REMARK 3 S31: -1.2420 S32: 0.0253 S33: -0.3099 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 75 THROUGH 114 ) REMARK 3 ORIGIN FOR THE GROUP (A): 24.5539 5.1219 8.2982 REMARK 3 T TENSOR REMARK 3 T11: 0.2988 T22: 0.2081 REMARK 3 T33: 0.2130 T12: -0.0625 REMARK 3 T13: -0.0066 T23: -0.0106 REMARK 3 L TENSOR REMARK 3 L11: 0.8259 L22: 1.4465 REMARK 3 L33: 4.1021 L12: -1.0433 REMARK 3 L13: -0.4931 L23: 0.2371 REMARK 3 S TENSOR REMARK 3 S11: 0.2014 S12: -0.1435 S13: 0.1207 REMARK 3 S21: 0.2835 S22: -0.3648 S23: 0.0780 REMARK 3 S31: -0.3220 S32: -0.1374 S33: 0.1457 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 6Q8D COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 15-DEC-18. REMARK 100 THE DEPOSITION ID IS D_1200013405. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 19-AUG-16 REMARK 200 TEMPERATURE (KELVIN) : 80 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SLS REMARK 200 BEAMLINE : X06DA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.036790 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 2M-F REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : SCALA 3.3.22 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 17151 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.630 REMARK 200 RESOLUTION RANGE LOW (A) : 49.003 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 6.200 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.07100 REMARK 200 FOR THE DATA SET : 14.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.63 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.72 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.0 REMARK 200 DATA REDUNDANCY IN SHELL : 6.00 REMARK 200 R MERGE FOR SHELL (I) : 1.74600 REMARK 200 R SYM FOR SHELL (I) : 1.74600 REMARK 200 FOR SHELL : 0.500 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER 2.6.0 REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.21 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.57 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M HEPES SODIUM PH 7.5, 1.4 M REMARK 280 SODIUM CITRATE TRIBASIC DIHYDRATE, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 42 2 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 -Y,X,Z+1/2 REMARK 290 4555 Y,-X,Z+1/2 REMARK 290 5555 -X,Y,-Z REMARK 290 6555 X,-Y,-Z REMARK 290 7555 Y,X,-Z+1/2 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 0.00000 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 49.00300 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 49.00300 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 0.00000 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 49.00300 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 49.00300 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: 650 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 6690 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -25.0 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 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 422 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 DLY B 10 REMARK 465 DLY B 11 REMARK 465 DTY B 12 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 GLU A 35 CG CD OE1 OE2 REMARK 470 ARG A 72 CD NE CZ NH1 NH2 REMARK 470 DLY B 6 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 O HOH A 406 O HOH A 449 1.95 REMARK 500 O HOH A 442 O HOH A 463 1.96 REMARK 500 O HOH A 415 O HOH A 448 2.07 REMARK 500 N DLE B 2 O7A ZDC B 1 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 A 457 O HOH A 457 5655 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 THR A 84 39.33 37.79 REMARK 500 GLU A 86 -50.34 -153.35 REMARK 500 DLE B 8 -162.80 -179.36 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 CA A 302 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN A 21 O REMARK 620 2 ASP A 101 OD1 142.3 REMARK 620 3 ASP A 101 OD2 151.5 45.2 REMARK 620 4 ASN A 103 OD1 87.2 68.0 71.5 REMARK 620 5 ASP A 104 OD1 80.5 72.3 117.4 90.7 REMARK 620 6 GLY A 114 O 56.6 94.3 101.1 30.6 84.0 REMARK 620 7 ZDC B 1 O2 79.3 132.7 113.3 156.4 105.8 132.9 REMARK 620 8 ZDC B 1 O3 136.3 65.6 70.9 132.9 82.4 158.4 67.3 REMARK 620 N 1 2 3 4 5 6 7 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 301 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 95 OE1 REMARK 620 2 GLU A 95 OE2 53.9 REMARK 620 3 ASP A 99 OD1 79.0 85.2 REMARK 620 4 ASP A 101 OD1 134.2 81.4 88.6 REMARK 620 5 ASP A 104 OD1 128.0 120.5 149.8 80.6 REMARK 620 6 ASP A 104 OD2 78.7 85.7 157.2 110.6 50.2 REMARK 620 7 ZDC B 1 O3 139.4 146.4 72.2 73.7 77.7 124.0 REMARK 620 8 ZDC B 1 O4 85.9 139.8 89.4 138.3 80.5 84.1 66.1 REMARK 620 N 1 2 3 4 5 6 7 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 6Q6W RELATED DB: PDB REMARK 900 6Q6W CONTAINS THE SAME PROTEIN COMPLEXED WITH A CLOSE DERIVATIVE OF REMARK 900 THE FUCOSYLATED D-ANTIMICROBIAL PEPTIDE REMARK 900 RELATED ID: 6Q6X RELATED DB: PDB REMARK 900 6Q6X CONTAINS THE SAME PROTEIN COMPLEXED WITH A CLOSE DERIVATIVE OF REMARK 900 THE FUCOSYLATED D-ANTIMICROBIAL PEPTIDE REMARK 900 RELATED ID: 6Q77 RELATED DB: PDB REMARK 900 6Q77 CONTAINS THE SAME PROTEIN COMPLEXED WITH A CLOSE DERIVATIVE OF REMARK 900 THE FUCOSYLATED D-ANTIMICROBIAL PEPTIDE REMARK 900 RELATED ID: 6Q79 RELATED DB: PDB REMARK 900 6Q79 CONTAINS THE SAME PROTEIN COMPLEXED WITH A CLOSE DERIVATIVE OF REMARK 900 THE FUCOSYLATED D-ANTIMICROBIAL PEPTIDE REMARK 900 RELATED ID: 6Q85 RELATED DB: PDB REMARK 900 6Q85 CONTAINS THE SAME PROTEIN COMPLEXED WITH A CLOSE DERIVATIVE OF REMARK 900 THE FUCOSYLATED D-ANTIMICROBIAL PEPTIDE REMARK 900 RELATED ID: 6Q86 RELATED DB: PDB REMARK 900 6Q86 CONTAINS THE SAME PROTEIN COMPLEXED WITH A CLOSE DERIVATIVE OF REMARK 900 THE FUCOSYLATED D-ANTIMICROBIAL PEPTIDE REMARK 900 RELATED ID: 6Q87 RELATED DB: PDB REMARK 900 6Q87 CONTAINS THE SAME PROTEIN COMPLEXED WITH A CLOSE DERIVATIVE OF REMARK 900 THE FUCOSYLATED D-ANTIMICROBIAL PEPTIDE DBREF1 6Q8D A 1 114 UNP A0A069Q9V4_PSEAI DBREF2 6Q8D A A0A069Q9V4 2 115 DBREF 6Q8D B 2 12 PDB 6Q8D 6Q8D 2 12 SEQRES 1 A 114 ALA THR GLN GLY VAL PHE THR LEU PRO ALA ASN THR ARG SEQRES 2 A 114 PHE GLY VAL THR ALA PHE ALA ASN SER SER GLY THR GLN SEQRES 3 A 114 THR VAL ASN VAL LEU VAL ASN ASN GLU THR ALA ALA THR SEQRES 4 A 114 PHE SER GLY GLN SER THR ASN ASN ALA VAL ILE GLY THR SEQRES 5 A 114 GLN VAL LEU ASN SER GLY SER SER GLY LYS VAL GLN VAL SEQRES 6 A 114 GLN VAL SER VAL ASN GLY ARG PRO SER ASP LEU VAL SER SEQRES 7 A 114 ALA GLN VAL ILE LEU THR ASN GLU LEU ASN PHE ALA LEU SEQRES 8 A 114 VAL GLY SER GLU ASP GLY THR ASP ASN ASP TYR ASN ASP SEQRES 9 A 114 ALA VAL VAL VAL ILE ASN TRP PRO LEU GLY SEQRES 1 B 11 DLE DLY DAL DLE DLY DLY DLE DAL DLY DLY DTY HET DLE B 2 8 HET DLY B 3 9 HET DAL B 4 5 HET DLE B 5 8 HET DLY B 6 5 HET DLY B 7 9 HET DLE B 8 8 HET DAL B 9 5 HET CA A 301 1 HET CA A 302 1 HET ZDC B 1 13 HETNAM DLE D-LEUCINE HETNAM DLY D-LYSINE HETNAM DAL D-ALANINE HETNAM CA CALCIUM ION HETNAM ZDC 3,7-ANHYDRO-2,8-DIDEOXY-L-GLYCERO-D-GLUCO-OCTONIC ACID FORMUL 2 DLE 3(C6 H13 N O2) FORMUL 2 DLY 3(C6 H14 N2 O2) FORMUL 2 DAL 2(C3 H7 N O2) FORMUL 3 CA 2(CA 2+) FORMUL 5 ZDC C8 H14 O6 FORMUL 6 HOH *68(H2 O) SHEET 1 AA1 4 VAL A 5 THR A 7 0 SHEET 2 AA1 4 LYS A 62 VAL A 69 -1 O VAL A 63 N PHE A 6 SHEET 3 AA1 4 ARG A 13 VAL A 32 -1 N LEU A 31 O GLN A 64 SHEET 4 AA1 4 ARG A 72 PRO A 73 0 SHEET 1 AA2 6 GLU A 35 ASN A 56 0 SHEET 2 AA2 6 ARG A 13 VAL A 32 -1 N VAL A 30 O ALA A 37 SHEET 3 AA2 6 LYS A 62 VAL A 69 -1 O GLN A 64 N LEU A 31 SHEET 4 AA2 6 ALA A 105 TRP A 111 0 SHEET 5 AA2 6 LEU A 87 GLU A 95 -1 N ASN A 88 O TRP A 111 SHEET 6 AA2 6 ASP A 75 LEU A 83 -1 N VAL A 77 O GLY A 93 LINK C7 ZDC B 1 N DLE B 2 1555 1555 1.25 LINK C DLE B 2 N DLY B 3 1555 1555 1.33 LINK C DLY B 3 N DAL B 4 1555 1555 1.33 LINK C DAL B 4 N DLE B 5 1555 1555 1.33 LINK C DLE B 5 N DLY B 6 1555 1555 1.33 LINK C DLY B 6 N DLY B 7 1555 1555 1.33 LINK C DLY B 7 N DLE B 8 1555 1555 1.34 LINK C DLE B 8 N DAL B 9 1555 1555 1.34 LINK O ASN A 21 CA CA A 302 1555 1555 2.38 LINK OE1 GLU A 95 CA CA A 301 1555 1555 2.49 LINK OE2 GLU A 95 CA CA A 301 1555 1555 2.38 LINK OD1 ASP A 99 CA CA A 301 1555 1555 2.45 LINK OD1 ASP A 101 CA CA A 301 1555 1555 2.48 LINK OD1 ASP A 101 CA CA A 302 1555 1555 3.07 LINK OD2 ASP A 101 CA CA A 302 1555 1555 2.51 LINK OD1 ASN A 103 CA CA A 302 1555 1555 2.42 LINK OD1 ASP A 104 CA CA A 301 1555 1555 2.65 LINK OD2 ASP A 104 CA CA A 301 1555 1555 2.55 LINK OD1 ASP A 104 CA CA A 302 1555 1555 2.50 LINK O GLY A 114 CA CA A 302 1555 2655 2.50 LINK CA CA A 301 O3 ZDC B 1 1555 1555 2.62 LINK CA CA A 301 O4 ZDC B 1 1555 1555 2.46 LINK CA CA A 302 O2 ZDC B 1 1555 1555 2.44 LINK CA CA A 302 O3 ZDC B 1 1555 1555 2.51 CISPEP 1 TRP A 111 PRO A 112 0 -2.47 CRYST1 51.445 51.445 98.006 90.00 90.00 90.00 P 42 2 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 0.019438 0.000000 0.000000 0.00000 SCALE2 0.000000 0.019438 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010203 0.00000