HEADER TRANSPORT PROTEIN 24-MAR-20 6YEB TITLE E.COLI'S PUTRESCINE RECEPTOR POTF IN ITS CLOSED APO STATE COMPND MOL_ID: 1; COMPND 2 MOLECULE: PUTRESCINE-BINDING PERIPLASMIC PROTEIN; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI K-12; SOURCE 3 ORGANISM_TAXID: 83333; SOURCE 4 GENE: POTF, B0854, JW0838; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_PLASMID: PET21B(+) KEYWDS PERIPLASMIC BINDING PROTEIN, E.COLI, CLOSED APO, TRANSPORT PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR S.SHANMUGARATNAM,P.KROEGER,B.HOCKER REVDAT 3 24-JAN-24 6YEB 1 REMARK REVDAT 2 19-MAY-21 6YEB 1 JRNL REVDAT 1 20-JAN-21 6YEB 0 JRNL AUTH P.KROGER,S.SHANMUGARATNAM,N.FERRUZ,K.SCHWEIMER,B.HOCKER JRNL TITL A COMPREHENSIVE BINDING STUDY ILLUSTRATES LIGAND RECOGNITION JRNL TITL 2 IN THE PERIPLASMIC BINDING PROTEIN POTF. JRNL REF STRUCTURE V. 29 433 2021 JRNL REFN ISSN 0969-2126 JRNL PMID 33406388 JRNL DOI 10.1016/J.STR.2020.12.005 REMARK 2 REMARK 2 RESOLUTION. 1.97 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.97 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 45.68 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 58117 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.192 REMARK 3 R VALUE (WORKING SET) : 0.191 REMARK 3 FREE R VALUE : 0.219 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 3.460 REMARK 3 FREE R VALUE TEST SET COUNT : 2009 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 45.6800 - 4.7400 1.00 4302 149 0.1924 0.2062 REMARK 3 2 4.7400 - 3.7600 1.00 4123 148 0.1491 0.1843 REMARK 3 3 3.7600 - 3.2900 1.00 4075 147 0.1672 0.1820 REMARK 3 4 3.2800 - 2.9900 1.00 3999 141 0.1792 0.2221 REMARK 3 5 2.9800 - 2.7700 1.00 4041 147 0.1940 0.2144 REMARK 3 6 2.7700 - 2.6100 1.00 3963 141 0.1967 0.2426 REMARK 3 7 2.6100 - 2.4800 1.00 3980 145 0.1996 0.2541 REMARK 3 8 2.4800 - 2.3700 1.00 3939 140 0.2183 0.2496 REMARK 3 9 2.3700 - 2.2800 1.00 3997 144 0.2364 0.2721 REMARK 3 10 2.2800 - 2.2000 1.00 3951 143 0.2458 0.2963 REMARK 3 11 2.2000 - 2.1300 1.00 3978 143 0.2770 0.3341 REMARK 3 12 2.1300 - 2.0700 1.00 3933 142 0.2898 0.3417 REMARK 3 13 2.0700 - 2.0200 1.00 3945 142 0.3102 0.3372 REMARK 3 14 2.0200 - 1.9700 0.98 3882 137 0.3262 0.2971 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) : 0.225 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 22.607 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 44.59 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 55.64 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 5625 REMARK 3 ANGLE : 0.934 7600 REMARK 3 CHIRALITY : 0.058 827 REMARK 3 PLANARITY : 0.008 973 REMARK 3 DIHEDRAL : 19.924 2059 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 2 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: (CHAIN 'A' AND RESID 29 THROUGH 369) REMARK 3 ORIGIN FOR THE GROUP (A): -7.0588 21.5273 -71.1854 REMARK 3 T TENSOR REMARK 3 T11: 0.5563 T22: 0.2851 REMARK 3 T33: 0.3820 T12: 0.0643 REMARK 3 T13: -0.0700 T23: 0.0322 REMARK 3 L TENSOR REMARK 3 L11: 2.2386 L22: 2.0374 REMARK 3 L33: 1.6691 L12: 0.3961 REMARK 3 L13: 0.5880 L23: 0.4023 REMARK 3 S TENSOR REMARK 3 S11: -0.0670 S12: -0.0309 S13: 0.0882 REMARK 3 S21: 0.1286 S22: -0.1549 S23: 0.2148 REMARK 3 S31: -0.3726 S32: -0.0684 S33: -0.0106 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: (CHAIN 'B' AND RESID 29 THROUGH 368) REMARK 3 ORIGIN FOR THE GROUP (A): -14.1498 -10.0762 -65.3911 REMARK 3 T TENSOR REMARK 3 T11: 0.5817 T22: 0.2725 REMARK 3 T33: 0.3903 T12: 0.0040 REMARK 3 T13: 0.0116 T23: -0.0512 REMARK 3 L TENSOR REMARK 3 L11: 1.6322 L22: 1.9387 REMARK 3 L33: 2.6804 L12: 0.4282 REMARK 3 L13: -0.8372 L23: -0.2702 REMARK 3 S TENSOR REMARK 3 S11: -0.0076 S12: -0.1155 S13: 0.0923 REMARK 3 S21: 0.3066 S22: -0.0939 S23: -0.0435 REMARK 3 S31: 0.3325 S32: -0.1005 S33: -0.0027 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 6YEB COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 24-MAR-20. REMARK 100 THE DEPOSITION ID IS D_1292107498. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 17-JAN-18 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.8 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 : DCM SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS 20180126 REMARK 200 DATA SCALING SOFTWARE : XDS 20180126 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 58117 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.970 REMARK 200 RESOLUTION RANGE LOW (A) : 45.680 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 10.90 REMARK 200 R MERGE (I) : 0.12420 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 12.1600 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.97 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.04 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : 11.30 REMARK 200 R MERGE FOR SHELL (I) : 3.32400 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 0.680 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER 2.8.1 REMARK 200 STARTING MODEL: 1A99 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 51.30 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.53 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2.4 M AMMONIUMSULFATE, 0.1 M BICINE PH REMARK 280 8.8, 5% PEG 3550, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 32 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+1/3 REMARK 290 6555 -X,-X+Y,-Z+2/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 181.61333 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 90.80667 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 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 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 90.80667 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 181.61333 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: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 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 ALA A 27 REMARK 465 GLU A 28 REMARK 465 LYS A 370 REMARK 465 LEU A 371 REMARK 465 GLU A 372 REMARK 465 HIS A 373 REMARK 465 HIS A 374 REMARK 465 HIS A 375 REMARK 465 HIS A 376 REMARK 465 HIS A 377 REMARK 465 HIS A 378 REMARK 465 ALA B 27 REMARK 465 GLU B 28 REMARK 465 GLY B 369 REMARK 465 LYS B 370 REMARK 465 LEU B 371 REMARK 465 GLU B 372 REMARK 465 HIS B 373 REMARK 465 HIS B 374 REMARK 465 HIS B 375 REMARK 465 HIS B 376 REMARK 465 HIS B 377 REMARK 465 HIS B 378 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 LYS B 287 O HOH B 701 2.12 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 GLU A 108 0.60 -68.76 REMARK 500 TYR A 133 -70.93 -115.08 REMARK 500 ALA A 136 -162.31 -166.23 REMARK 500 SER A 227 -24.17 -142.34 REMARK 500 ASN A 288 74.98 -115.08 REMARK 500 ILE A 335 -52.36 -121.62 REMARK 500 SER A 368 75.10 -109.11 REMARK 500 TYR B 133 -72.68 -112.54 REMARK 500 ALA B 136 -162.76 -166.74 REMARK 500 SER B 227 -28.05 -152.25 REMARK 500 ASN B 288 76.46 -111.24 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 LYS B 51 -11.13 REMARK 500 GLU B 257 -11.89 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 628 DISTANCE = 6.37 ANGSTROMS REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PGE A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PEG A 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 404 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 405 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 406 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 407 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 408 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 409 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 410 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 411 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 412 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 414 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 415 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO B 601 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO B 602 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PEG B 603 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO B 604 REMARK 800 REMARK 800 SITE_IDENTIFIER: AE1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PEG B 605 REMARK 800 REMARK 800 SITE_IDENTIFIER: AE2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PEG B 606 REMARK 800 REMARK 800 SITE_IDENTIFIER: AE3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO B 607 REMARK 800 REMARK 800 SITE_IDENTIFIER: AE4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO B 608 REMARK 800 REMARK 800 SITE_IDENTIFIER: AE5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PEG B 609 REMARK 800 REMARK 800 SITE_IDENTIFIER: AE6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO B 610 REMARK 800 REMARK 800 SITE_IDENTIFIER: AE7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO B 611 REMARK 800 REMARK 800 SITE_IDENTIFIER: AE8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PEG B 612 REMARK 800 REMARK 800 SITE_IDENTIFIER: AE9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO B 613 REMARK 800 REMARK 800 SITE_IDENTIFIER: AF1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO B 614 REMARK 800 REMARK 800 SITE_IDENTIFIER: AF2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO B 615 REMARK 800 REMARK 800 SITE_IDENTIFIER: AF3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 B 616 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 6YE0 RELATED DB: PDB REMARK 900 6YE0 CONTAINS THE SAME PROTEIN COMPLEXED WITH PUTRESCINE REMARK 900 RELATED ID: 6YE6 RELATED DB: PDB REMARK 900 6YE6 CONTAINS THE SAME PROTEIN COMPLEXED WITH AGMATINE REMARK 900 RELATED ID: 6YE7 RELATED DB: PDB REMARK 900 6YE7 CONTAINS THE SAME PROTEIN COMPLEXED WITH CADAVERINE REMARK 900 RELATED ID: 6YE8 RELATED DB: PDB REMARK 900 6YE8 CONTAINS THE SAME PROTEIN COMPLEXED WITH SPERMIDINE DBREF 6YEB A 27 370 UNP P31133 POTF_ECOLI 27 370 DBREF 6YEB B 27 370 UNP P31133 POTF_ECOLI 27 370 SEQADV 6YEB LEU A 371 UNP P31133 EXPRESSION TAG SEQADV 6YEB GLU A 372 UNP P31133 EXPRESSION TAG SEQADV 6YEB HIS A 373 UNP P31133 EXPRESSION TAG SEQADV 6YEB HIS A 374 UNP P31133 EXPRESSION TAG SEQADV 6YEB HIS A 375 UNP P31133 EXPRESSION TAG SEQADV 6YEB HIS A 376 UNP P31133 EXPRESSION TAG SEQADV 6YEB HIS A 377 UNP P31133 EXPRESSION TAG SEQADV 6YEB HIS A 378 UNP P31133 EXPRESSION TAG SEQADV 6YEB LEU B 371 UNP P31133 EXPRESSION TAG SEQADV 6YEB GLU B 372 UNP P31133 EXPRESSION TAG SEQADV 6YEB HIS B 373 UNP P31133 EXPRESSION TAG SEQADV 6YEB HIS B 374 UNP P31133 EXPRESSION TAG SEQADV 6YEB HIS B 375 UNP P31133 EXPRESSION TAG SEQADV 6YEB HIS B 376 UNP P31133 EXPRESSION TAG SEQADV 6YEB HIS B 377 UNP P31133 EXPRESSION TAG SEQADV 6YEB HIS B 378 UNP P31133 EXPRESSION TAG SEQRES 1 A 352 ALA GLU GLN LYS THR LEU HIS ILE TYR ASN TRP SER ASP SEQRES 2 A 352 TYR ILE ALA PRO ASP THR VAL ALA ASN PHE GLU LYS GLU SEQRES 3 A 352 THR GLY ILE LYS VAL VAL TYR ASP VAL PHE ASP SER ASN SEQRES 4 A 352 GLU VAL LEU GLU GLY LYS LEU MET ALA GLY SER THR GLY SEQRES 5 A 352 PHE ASP LEU VAL VAL PRO SER ALA SER PHE LEU GLU ARG SEQRES 6 A 352 GLN LEU THR ALA GLY VAL PHE GLN PRO LEU ASP LYS SER SEQRES 7 A 352 LYS LEU PRO GLU TRP LYS ASN LEU ASP PRO GLU LEU LEU SEQRES 8 A 352 LYS LEU VAL ALA LYS HIS ASP PRO ASP ASN LYS PHE ALA SEQRES 9 A 352 MET PRO TYR MET TRP ALA THR THR GLY ILE GLY TYR ASN SEQRES 10 A 352 VAL ASP LYS VAL LYS ALA VAL LEU GLY GLU ASN ALA PRO SEQRES 11 A 352 VAL ASP SER TRP ASP LEU ILE LEU LYS PRO GLU ASN LEU SEQRES 12 A 352 GLU LYS LEU LYS SER CYS GLY VAL SER PHE LEU ASP ALA SEQRES 13 A 352 PRO GLU GLU VAL PHE ALA THR VAL LEU ASN TYR LEU GLY SEQRES 14 A 352 LYS ASP PRO ASN SER THR LYS ALA ASP ASP TYR THR GLY SEQRES 15 A 352 PRO ALA THR ASP LEU LEU LEU LYS LEU ARG PRO ASN ILE SEQRES 16 A 352 ARG TYR PHE HIS SER SER GLN TYR ILE ASN ASP LEU ALA SEQRES 17 A 352 ASN GLY ASP ILE CYS VAL ALA ILE GLY TRP ALA GLY ASP SEQRES 18 A 352 VAL TRP GLN ALA SER ASN ARG ALA LYS GLU ALA LYS ASN SEQRES 19 A 352 GLY VAL ASN VAL SER PHE SER ILE PRO LYS GLU GLY ALA SEQRES 20 A 352 MET ALA PHE PHE ASP VAL PHE ALA MET PRO ALA ASP ALA SEQRES 21 A 352 LYS ASN LYS ASP GLU ALA TYR GLN PHE LEU ASN TYR LEU SEQRES 22 A 352 LEU ARG PRO ASP VAL VAL ALA HIS ILE SER ASP HIS VAL SEQRES 23 A 352 PHE TYR ALA ASN ALA ASN LYS ALA ALA THR PRO LEU VAL SEQRES 24 A 352 SER ALA GLU VAL ARG GLU ASN PRO GLY ILE TYR PRO PRO SEQRES 25 A 352 ALA ASP VAL ARG ALA LYS LEU PHE THR LEU LYS VAL GLN SEQRES 26 A 352 ASP PRO LYS ILE ASP ARG VAL ARG THR ARG ALA TRP THR SEQRES 27 A 352 LYS VAL LYS SER GLY LYS LEU GLU HIS HIS HIS HIS HIS SEQRES 28 A 352 HIS SEQRES 1 B 352 ALA GLU GLN LYS THR LEU HIS ILE TYR ASN TRP SER ASP SEQRES 2 B 352 TYR ILE ALA PRO ASP THR VAL ALA ASN PHE GLU LYS GLU SEQRES 3 B 352 THR GLY ILE LYS VAL VAL TYR ASP VAL PHE ASP SER ASN SEQRES 4 B 352 GLU VAL LEU GLU GLY LYS LEU MET ALA GLY SER THR GLY SEQRES 5 B 352 PHE ASP LEU VAL VAL PRO SER ALA SER PHE LEU GLU ARG SEQRES 6 B 352 GLN LEU THR ALA GLY VAL PHE GLN PRO LEU ASP LYS SER SEQRES 7 B 352 LYS LEU PRO GLU TRP LYS ASN LEU ASP PRO GLU LEU LEU SEQRES 8 B 352 LYS LEU VAL ALA LYS HIS ASP PRO ASP ASN LYS PHE ALA SEQRES 9 B 352 MET PRO TYR MET TRP ALA THR THR GLY ILE GLY TYR ASN SEQRES 10 B 352 VAL ASP LYS VAL LYS ALA VAL LEU GLY GLU ASN ALA PRO SEQRES 11 B 352 VAL ASP SER TRP ASP LEU ILE LEU LYS PRO GLU ASN LEU SEQRES 12 B 352 GLU LYS LEU LYS SER CYS GLY VAL SER PHE LEU ASP ALA SEQRES 13 B 352 PRO GLU GLU VAL PHE ALA THR VAL LEU ASN TYR LEU GLY SEQRES 14 B 352 LYS ASP PRO ASN SER THR LYS ALA ASP ASP TYR THR GLY SEQRES 15 B 352 PRO ALA THR ASP LEU LEU LEU LYS LEU ARG PRO ASN ILE SEQRES 16 B 352 ARG TYR PHE HIS SER SER GLN TYR ILE ASN ASP LEU ALA SEQRES 17 B 352 ASN GLY ASP ILE CYS VAL ALA ILE GLY TRP ALA GLY ASP SEQRES 18 B 352 VAL TRP GLN ALA SER ASN ARG ALA LYS GLU ALA LYS ASN SEQRES 19 B 352 GLY VAL ASN VAL SER PHE SER ILE PRO LYS GLU GLY ALA SEQRES 20 B 352 MET ALA PHE PHE ASP VAL PHE ALA MET PRO ALA ASP ALA SEQRES 21 B 352 LYS ASN LYS ASP GLU ALA TYR GLN PHE LEU ASN TYR LEU SEQRES 22 B 352 LEU ARG PRO ASP VAL VAL ALA HIS ILE SER ASP HIS VAL SEQRES 23 B 352 PHE TYR ALA ASN ALA ASN LYS ALA ALA THR PRO LEU VAL SEQRES 24 B 352 SER ALA GLU VAL ARG GLU ASN PRO GLY ILE TYR PRO PRO SEQRES 25 B 352 ALA ASP VAL ARG ALA LYS LEU PHE THR LEU LYS VAL GLN SEQRES 26 B 352 ASP PRO LYS ILE ASP ARG VAL ARG THR ARG ALA TRP THR SEQRES 27 B 352 LYS VAL LYS SER GLY LYS LEU GLU HIS HIS HIS HIS HIS SEQRES 28 B 352 HIS HET GOL A 401 6 HET PGE A 402 10 HET PEG A 403 7 HET EDO A 404 4 HET EDO A 405 4 HET EDO A 406 4 HET EDO A 407 4 HET EDO A 408 4 HET EDO A 409 4 HET EDO A 410 4 HET SO4 A 411 5 HET SO4 A 412 5 HET CL A 413 1 HET CL A 414 1 HET CL A 415 1 HET EDO B 601 4 HET EDO B 602 4 HET PEG B 603 7 HET EDO B 604 4 HET PEG B 605 7 HET PEG B 606 7 HET EDO B 607 4 HET EDO B 608 4 HET PEG B 609 7 HET EDO B 610 4 HET EDO B 611 4 HET PEG B 612 7 HET EDO B 613 4 HET EDO B 614 4 HET EDO B 615 4 HET SO4 B 616 5 HETNAM GOL GLYCEROL HETNAM PGE TRIETHYLENE GLYCOL HETNAM PEG DI(HYDROXYETHYL)ETHER HETNAM EDO 1,2-ETHANEDIOL HETNAM SO4 SULFATE ION HETNAM CL CHLORIDE ION HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 3 GOL C3 H8 O3 FORMUL 4 PGE C6 H14 O4 FORMUL 5 PEG 6(C4 H10 O3) FORMUL 6 EDO 17(C2 H6 O2) FORMUL 13 SO4 3(O4 S 2-) FORMUL 15 CL 3(CL 1-) FORMUL 34 HOH *259(H2 O) HELIX 1 AA1 ASP A 44 GLY A 54 1 11 HELIX 2 AA2 SER A 64 GLY A 75 1 12 HELIX 3 AA3 SER A 85 THR A 94 1 10 HELIX 4 AA4 ASP A 102 LEU A 112 5 11 HELIX 5 AA5 ASP A 113 LYS A 122 1 10 HELIX 6 AA6 HIS A 123 LYS A 128 5 6 HELIX 7 AA7 VAL A 144 GLY A 152 1 9 HELIX 8 AA8 TRP A 160 LYS A 165 1 6 HELIX 9 AA9 LYS A 165 LYS A 173 1 9 HELIX 10 AB1 ALA A 182 LEU A 194 1 13 HELIX 11 AB2 LYS A 202 GLY A 208 1 7 HELIX 12 AB3 GLY A 208 ARG A 218 1 11 HELIX 13 AB4 PRO A 219 ILE A 221 5 3 HELIX 14 AB5 GLN A 228 ASN A 235 1 8 HELIX 15 AB6 ALA A 245 LYS A 259 1 15 HELIX 16 AB7 ASN A 288 LEU A 300 1 13 HELIX 17 AB8 ARG A 301 PHE A 313 1 13 HELIX 18 AB9 ALA A 321 VAL A 325 5 5 HELIX 19 AC1 SER A 326 GLU A 331 1 6 HELIX 20 AC2 PRO A 338 ALA A 343 1 6 HELIX 21 AC3 ASP A 352 SER A 368 1 17 HELIX 22 AC4 ASP B 44 GLY B 54 1 11 HELIX 23 AC5 SER B 64 GLY B 75 1 12 HELIX 24 AC6 SER B 85 THR B 94 1 10 HELIX 25 AC7 ASP B 102 LEU B 112 5 11 HELIX 26 AC8 ASP B 113 LYS B 122 1 10 HELIX 27 AC9 HIS B 123 LYS B 128 5 6 HELIX 28 AD1 VAL B 144 GLY B 152 1 9 HELIX 29 AD2 TRP B 160 LYS B 165 1 6 HELIX 30 AD3 LYS B 165 LYS B 173 1 9 HELIX 31 AD4 ALA B 182 LEU B 194 1 13 HELIX 32 AD5 LYS B 202 GLY B 208 1 7 HELIX 33 AD6 GLY B 208 ARG B 218 1 11 HELIX 34 AD7 PRO B 219 ILE B 221 5 3 HELIX 35 AD8 GLN B 228 ASN B 235 1 8 HELIX 36 AD9 ALA B 245 LYS B 259 1 15 HELIX 37 AE1 ASN B 288 ARG B 301 1 14 HELIX 38 AE2 ARG B 301 PHE B 313 1 13 HELIX 39 AE3 ASN B 318 VAL B 325 5 8 HELIX 40 AE4 SER B 326 GLU B 331 1 6 HELIX 41 AE5 PRO B 338 ALA B 343 1 6 HELIX 42 AE6 ASP B 352 SER B 368 1 17 SHEET 1 AA1 3 LYS A 56 PHE A 62 0 SHEET 2 AA1 3 THR A 31 TRP A 37 1 N LEU A 32 O VAL A 58 SHEET 3 AA1 3 LEU A 81 VAL A 82 1 O LEU A 81 N TYR A 35 SHEET 1 AA2 5 TYR A 223 PHE A 224 0 SHEET 2 AA2 5 VAL A 177 PHE A 179 1 N PHE A 179 O TYR A 223 SHEET 3 AA2 5 VAL A 240 TRP A 244 1 O ILE A 242 N SER A 178 SHEET 4 AA2 5 MET A 131 ASN A 143 -1 N GLY A 141 O ALA A 241 SHEET 5 AA2 5 ALA A 315 ASN A 316 -1 O ALA A 315 N TRP A 135 SHEET 1 AA3 4 VAL A 264 SER A 267 0 SHEET 2 AA3 4 MET A 131 ASN A 143 -1 N TYR A 142 O SER A 265 SHEET 3 AA3 4 ALA A 273 PHE A 280 -1 O PHE A 280 N MET A 131 SHEET 4 AA3 4 LEU A 345 PHE A 346 1 O PHE A 346 N ALA A 275 SHEET 1 AA4 3 LYS B 56 PHE B 62 0 SHEET 2 AA4 3 THR B 31 TRP B 37 1 N LEU B 32 O VAL B 58 SHEET 3 AA4 3 LEU B 81 VAL B 82 1 O LEU B 81 N TYR B 35 SHEET 1 AA5 5 TYR B 223 PHE B 224 0 SHEET 2 AA5 5 VAL B 177 PHE B 179 1 N PHE B 179 O TYR B 223 SHEET 3 AA5 5 VAL B 240 TRP B 244 1 O ILE B 242 N SER B 178 SHEET 4 AA5 5 MET B 131 ASN B 143 -1 N GLY B 141 O ALA B 241 SHEET 5 AA5 5 ALA B 315 ASN B 316 -1 O ALA B 315 N TRP B 135 SHEET 1 AA6 4 VAL B 264 SER B 267 0 SHEET 2 AA6 4 MET B 131 ASN B 143 -1 N ILE B 140 O SER B 267 SHEET 3 AA6 4 ALA B 273 PHE B 280 -1 O PHE B 280 N MET B 131 SHEET 4 AA6 4 LEU B 345 PHE B 346 1 O PHE B 346 N ALA B 275 SSBOND 1 CYS A 175 CYS A 239 1555 1555 2.05 SSBOND 2 CYS B 175 CYS B 239 1555 1555 2.28 SITE 1 AC1 5 THR A 201 LYS A 202 ALA A 203 ASP A 204 SITE 2 AC1 5 LYS A 354 SITE 1 AC2 3 MET A 73 ALA A 95 EDO B 601 SITE 1 AC3 2 LEU A 116 LEU A 119 SITE 1 AC4 4 ASP A 113 LEU A 116 TRP A 135 ASN A 316 SITE 1 AC5 2 SER A 326 ALA A 327 SITE 1 AC6 4 LYS A 256 PHE A 313 GLU A 328 ASN A 332 SITE 1 AC7 3 ASP A 39 GLN A 250 HIS A 311 SITE 1 AC8 5 TYR A 142 SER A 265 PHE A 266 SER A 267 SITE 2 AC8 5 ALA B 343 SITE 1 AC9 3 ARG A 330 TYR A 336 SO4 A 412 SITE 1 AD1 3 SER A 38 ASP A 39 HOH A 513 SITE 1 AD2 4 ARG A 361 LYS A 365 LYS B 287 ASN B 288 SITE 1 AD3 3 ALA A 339 ARG A 342 EDO A 409 SITE 1 AD4 2 GLY A 152 HOH A 610 SITE 1 AD5 1 ARG A 222 SITE 1 AD6 2 PGE A 402 MET B 73 SITE 1 AD7 2 HIS A 225 HIS B 225 SITE 1 AD8 3 LEU B 72 MET B 73 GLY B 75 SITE 1 AD9 1 HIS B 123 SITE 1 AE1 3 LEU B 116 LEU B 119 LEU B 345 SITE 1 AE2 1 PHE B 98 SITE 1 AE3 2 ALA B 47 GLU B 50 SITE 1 AE4 1 ASN B 263 SITE 1 AE5 1 ASN B 154 SITE 1 AE6 1 SER B 38 SITE 1 AE7 4 ASP B 39 TYR B 59 VAL B 61 HOH B 715 SITE 1 AE8 3 HIS B 307 ASP B 310 HIS B 311 SITE 1 AE9 4 TRP B 249 PHE B 266 ILE B 268 GLY B 334 SITE 1 AF1 6 ASP B 63 SER B 64 ASP B 181 HIS B 225 SITE 2 AF1 6 SER B 226 HOH B 704 SITE 1 AF2 4 ASP B 113 TRP B 135 ASN B 316 HOH B 743 SITE 1 AF3 5 THR A 31 LYS A 287 ASN A 288 ARG B 361 SITE 2 AF3 5 LYS B 365 CRYST1 71.118 71.118 272.420 90.00 90.00 120.00 P 32 2 1 12 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 0.014061 0.008118 0.000000 0.00000 SCALE2 0.000000 0.016236 0.000000 0.00000 SCALE3 0.000000 0.000000 0.003671 0.00000