HEADER PROTEIN TRANSPORT 20-JUN-06 2HDF TITLE CRYSTAL STRUCTURE OF THE COLICIN I RECEPTOR CIR FROM E.COLI COMPND MOL_ID: 1; COMPND 2 MOLECULE: COLICIN I RECEPTOR; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: COLICIN I RECEPTOR; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 GENE: CIRA; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET20B KEYWDS OUTER MEMBRANE, IRON TRANSPORT, TONB BOX, SIGNAL TRANSDUCTION, KEYWDS 2 COLICIN I RECEPTOR, MEMBRANE PROTEIN, PROTEIN TRANSPORT EXPDTA X-RAY DIFFRACTION AUTHOR S.K.BUCHANAN,L.ESSER,P.LUKACIK REVDAT 5 20-OCT-21 2HDF 1 REMARK SEQADV LINK REVDAT 4 13-JUL-11 2HDF 1 VERSN REVDAT 3 24-FEB-09 2HDF 1 VERSN REVDAT 2 29-MAY-07 2HDF 1 JRNL REVDAT 1 08-MAY-07 2HDF 0 JRNL AUTH S.K.BUCHANAN,P.LUKACIK,S.GRIZOT,R.GHIRLANDO,M.M.ALI, JRNL AUTH 2 T.J.BARNARD,K.S.JAKES,P.K.KIENKER,L.ESSER JRNL TITL STRUCTURE OF COLICIN I RECEPTOR BOUND TO THE R-DOMAIN OF JRNL TITL 2 COLICIN IA: IMPLICATIONS FOR PROTEIN IMPORT. JRNL REF EMBO J. V. 26 2594 2007 JRNL REFN ISSN 0261-4189 JRNL PMID 17464289 JRNL DOI 10.1038/SJ.EMBOJ.7601693 REMARK 2 REMARK 2 RESOLUTION. 2.65 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0005 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD WITH PHASES REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.65 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 15.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 19508 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.241 REMARK 3 R VALUE (WORKING SET) : 0.239 REMARK 3 FREE R VALUE : 0.291 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1056 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.65 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.72 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1407 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.93 REMARK 3 BIN R VALUE (WORKING SET) : 0.2690 REMARK 3 BIN FREE R VALUE SET COUNT : 72 REMARK 3 BIN FREE R VALUE : 0.2990 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4493 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 27 REMARK 3 SOLVENT ATOMS : 18 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 57.58 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 2.67000 REMARK 3 B22 (A**2) : 0.36000 REMARK 3 B33 (A**2) : -2.24000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 1.20000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 1.217 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.380 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.271 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 27.090 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.920 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.872 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4636 ; 0.010 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6288 ; 1.303 ; 1.939 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 580 ; 6.505 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 221 ;40.544 ;24.480 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 716 ;18.502 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 27 ;16.523 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 676 ; 0.091 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3585 ; 0.003 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1725 ; 0.219 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 3026 ; 0.306 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 200 ; 0.130 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 25 ; 0.242 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 3 ; 0.147 ; 0.200 REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 2888 ; 1.936 ; 5.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4629 ; 3.311 ; 6.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1846 ; 4.056 ; 7.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1659 ; 6.136 ;12.000 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 2 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 31 A 160 REMARK 3 ORIGIN FOR THE GROUP (A): 21.1470 10.1482 22.4539 REMARK 3 T TENSOR REMARK 3 T11: 0.0186 T22: 0.0205 REMARK 3 T33: 0.0384 T12: 0.0171 REMARK 3 T13: -0.0218 T23: -0.0220 REMARK 3 L TENSOR REMARK 3 L11: 4.0342 L22: 2.3894 REMARK 3 L33: 3.4417 L12: -0.5638 REMARK 3 L13: -1.3359 L23: -0.4598 REMARK 3 S TENSOR REMARK 3 S11: 0.1003 S12: 0.1442 S13: 0.2751 REMARK 3 S21: -0.2250 S22: 0.1148 S23: 0.0641 REMARK 3 S31: -0.1191 S32: -0.3664 S33: -0.2151 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 161 A 663 REMARK 3 ORIGIN FOR THE GROUP (A): 20.2418 10.1329 18.7800 REMARK 3 T TENSOR REMARK 3 T11: -0.1651 T22: -0.1205 REMARK 3 T33: -0.1551 T12: -0.0017 REMARK 3 T13: -0.0493 T23: 0.0117 REMARK 3 L TENSOR REMARK 3 L11: 0.9137 L22: 1.0035 REMARK 3 L33: 1.6406 L12: -0.3963 REMARK 3 L13: -0.1067 L23: -0.1729 REMARK 3 S TENSOR REMARK 3 S11: -0.0118 S12: 0.0404 S13: 0.1062 REMARK 3 S21: -0.1039 S22: 0.0479 S23: -0.0068 REMARK 3 S31: 0.0500 S32: -0.2183 S33: -0.0360 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 2HDF COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 21-JUN-06. REMARK 100 THE DEPOSITION ID IS D_1000038224. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-JUL-03 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 : APS REMARK 200 BEAMLINE : 22-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97940, 0.97924, 0.97240 REMARK 200 MONOCHROMATOR : SI 220 (ROSENBAUM-ROCK DOUBLE REMARK 200 -CRYSTAL MONOCHROMATOR) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 40440 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.650 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.1 REMARK 200 DATA REDUNDANCY : 3.700 REMARK 200 R MERGE (I) : 0.09500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 16.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.65 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.74 REMARK 200 COMPLETENESS FOR SHELL (%) : 91.8 REMARK 200 DATA REDUNDANCY IN SHELL : 2.00 REMARK 200 R MERGE FOR SHELL (I) : 0.64500 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.850 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: SHARP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.79 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.50 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 7-8 G/L PROTEIN IN 0.02M TRIS PH7.5, REMARK 280 0.001M EDTA, 0.3M NACL, 1% N-OCTYL-2-HYDROXYETHYL SULFOXIDE REMARK 280 MIXED AT 1:1 RATIO WITH 0.1M TRIS PH7.5, 0.02-0.05M SRCL2, 5% REMARK 280 ISOPROPANOL, 32-40 % PEG 2000 MME, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 294K 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 45.29650 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 42.16800 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 45.29650 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 42.16800 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: 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 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 SER A 25 REMARK 465 VAL A 26 REMARK 465 ASP A 27 REMARK 465 ASP A 28 REMARK 465 ASP A 29 REMARK 465 PHE A 115 REMARK 465 ARG A 116 REMARK 465 HIS A 117 REMARK 465 ASN A 118 REMARK 465 ASP A 119 REMARK 465 PHE A 120 REMARK 465 ASP A 121 REMARK 465 LEU A 122 REMARK 465 ASP A 214 REMARK 465 PRO A 215 REMARK 465 GLN A 216 REMARK 465 ASN A 217 REMARK 465 SER A 218 REMARK 465 THR A 219 REMARK 465 THR A 220 REMARK 465 THR A 221 REMARK 465 ASP A 222 REMARK 465 THR A 223 REMARK 465 GLY A 224 REMARK 465 GLU A 225 REMARK 465 THR A 226 REMARK 465 PRO A 227 REMARK 465 SER A 266 REMARK 465 LEU A 267 REMARK 465 GLY A 305 REMARK 465 ASN A 306 REMARK 465 SER A 307 REMARK 465 ASN A 348 REMARK 465 LEU A 349 REMARK 465 THR A 350 REMARK 465 GLY A 351 REMARK 465 GLY A 352 REMARK 465 THR A 353 REMARK 465 SER A 354 REMARK 465 GLN A 598 REMARK 465 LYS A 599 REMARK 465 ARG A 600 REMARK 465 ALA A 601 REMARK 465 ASP A 602 REMARK 465 SER A 603 REMARK 465 ALA A 604 REMARK 465 THR A 605 REMARK 465 ALA A 606 REMARK 465 LYS A 607 REMARK 465 THR A 608 REMARK 465 PRO A 609 REMARK 465 ARG A 643 REMARK 465 ASP A 644 REMARK 465 ASP A 645 REMARK 465 TYR A 646 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 LYS A 45 CE NZ REMARK 470 LEU A 67 CG CD1 CD2 REMARK 470 LYS A 68 CG CD CE NZ REMARK 470 GLU A 82 CD OE1 OE2 REMARK 470 ARG A 86 CD NE CZ NH1 NH2 REMARK 470 LYS A 87 CG CD CE NZ REMARK 470 VAL A 114 CB CG1 CG2 REMARK 470 LYS A 163 CE NZ REMARK 470 LYS A 209 CD CE NZ REMARK 470 LYS A 212 CD CE NZ REMARK 470 GLU A 230 CB CG CD OE1 OE2 REMARK 470 ARG A 235 CD NE CZ NH1 NH2 REMARK 470 ARG A 259 CZ NH1 NH2 REMARK 470 ARG A 262 CZ NH1 NH2 REMARK 470 ASP A 265 CG OD1 OD2 REMARK 470 ASP A 268 CG OD1 OD2 REMARK 470 LYS A 269 CE NZ REMARK 470 LYS A 298 CG CD CE NZ REMARK 470 LYS A 302 CE NZ REMARK 470 ASP A 345 CB CG OD1 OD2 REMARK 470 VAL A 347 CB CG1 CG2 REMARK 470 LYS A 356 CG CD CE NZ REMARK 470 GLU A 388 CG CD OE1 OE2 REMARK 470 LEU A 424 CG CD1 CD2 REMARK 470 ARG A 436 NE CZ NH1 NH2 REMARK 470 GLU A 464 CG CD OE1 OE2 REMARK 470 LYS A 483 NZ REMARK 470 ASN A 511 CG OD1 ND2 REMARK 470 ARG A 514 CZ NH1 NH2 REMARK 470 LYS A 525 NZ REMARK 470 LYS A 536 CD CE NZ REMARK 470 LYS A 544 CE NZ REMARK 470 LYS A 580 CE NZ REMARK 470 LEU A 584 CG CD1 CD2 REMARK 470 TRP A 587 CD1 CD2 NE1 CE2 CE3 CZ2 CZ3 REMARK 470 TRP A 587 CH2 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 PRO A 48 58.01 -68.33 REMARK 500 GLN A 60 74.80 -110.30 REMARK 500 ARG A 61 -21.65 -157.92 REMARK 500 PRO A 63 -96.72 3.46 REMARK 500 ASN A 81 -161.06 -75.49 REMARK 500 GLU A 82 107.03 -40.65 REMARK 500 ASP A 84 101.54 62.36 REMARK 500 ARG A 92 49.71 38.22 REMARK 500 ARG A 111 -113.27 -130.23 REMARK 500 ALA A 113 -87.25 27.10 REMARK 500 TRP A 124 -72.43 -132.81 REMARK 500 LYS A 212 176.92 51.96 REMARK 500 GLU A 230 -107.53 -139.07 REMARK 500 SER A 264 -124.97 -54.30 REMARK 500 LYS A 269 -145.92 77.13 REMARK 500 TYR A 287 1.59 58.74 REMARK 500 ASN A 303 112.31 -165.23 REMARK 500 SER A 344 -164.62 -109.91 REMARK 500 ASP A 345 -178.76 77.37 REMARK 500 THR A 357 99.91 -166.70 REMARK 500 ALA A 359 106.30 -179.46 REMARK 500 GLU A 388 47.17 -66.32 REMARK 500 THR A 389 -31.27 -162.77 REMARK 500 ARG A 436 -2.32 58.51 REMARK 500 GLU A 465 -78.61 -93.15 REMARK 500 ASN A 502 -42.00 124.72 REMARK 500 ALA A 510 -50.73 -150.23 REMARK 500 ASN A 511 29.26 92.33 REMARK 500 ARG A 513 -155.12 -102.87 REMARK 500 ASN A 540 -146.79 63.02 REMARK 500 ASN A 559 16.63 58.88 REMARK 500 SER A 566 94.15 -28.63 REMARK 500 ASP A 567 83.27 24.80 REMARK 500 ALA A 583 130.42 91.70 REMARK 500 LEU A 584 -9.52 -146.90 REMARK 500 ASP A 586 73.06 62.88 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 SR A 23 SR REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN A 123 O REMARK 620 2 SER A 234 OG 106.9 REMARK 620 3 ASP A 236 OD2 113.8 139.1 REMARK 620 4 ASP A 258 OD1 105.6 92.6 72.4 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SR A 23 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE OES A 21 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE OES A 22 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2HDI RELATED DB: PDB REMARK 900 THE SAME PROTEIN IN COMPLEX WITH THE R-DOMAIN OF COLICIN IA DBREF 2HDF A 26 663 UNP P17315 CIRA_ECOLI 26 663 SEQADV 2HDF SER A 25 UNP P17315 CLONING ARTIFACT SEQADV 2HDF MSE A 33 UNP P17315 MET 33 MODIFIED RESIDUE SEQADV 2HDF MSE A 140 UNP P17315 MET 140 MODIFIED RESIDUE SEQADV 2HDF MSE A 201 UNP P17315 MET 201 MODIFIED RESIDUE SEQADV 2HDF MSE A 338 UNP P17315 TRP 338 ENGINEERED MUTATION SEQADV 2HDF MSE A 343 UNP P17315 LEU 343 ENGINEERED MUTATION SEQADV 2HDF MSE A 384 UNP P17315 MET 384 MODIFIED RESIDUE SEQADV 2HDF MSE A 462 UNP P17315 MET 462 MODIFIED RESIDUE SEQADV 2HDF MSE A 589 UNP P17315 PHE 589 ENGINEERED MUTATION SEQADV 2HDF MSE A 591 UNP P17315 VAL 591 ENGINEERED MUTATION SEQADV 2HDF MSE A 657 UNP P17315 MET 657 MODIFIED RESIDUE SEQRES 1 A 639 SER VAL ASP ASP ASP GLY GLU THR MSE VAL VAL THR ALA SEQRES 2 A 639 SER SER VAL GLU GLN ASN LEU LYS ASP ALA PRO ALA SER SEQRES 3 A 639 ILE SER VAL ILE THR GLN GLU ASP LEU GLN ARG LYS PRO SEQRES 4 A 639 VAL GLN ASN LEU LYS ASP VAL LEU LYS GLU VAL PRO GLY SEQRES 5 A 639 VAL GLN LEU THR ASN GLU GLY ASP ASN ARG LYS GLY VAL SEQRES 6 A 639 SER ILE ARG GLY LEU ASP SER SER TYR THR LEU ILE LEU SEQRES 7 A 639 VAL ASP GLY LYS ARG VAL ASN SER ARG ASN ALA VAL PHE SEQRES 8 A 639 ARG HIS ASN ASP PHE ASP LEU ASN TRP ILE PRO VAL ASP SEQRES 9 A 639 SER ILE GLU ARG ILE GLU VAL VAL ARG GLY PRO MSE SER SEQRES 10 A 639 SER LEU TYR GLY SER ASP ALA LEU GLY GLY VAL VAL ASN SEQRES 11 A 639 ILE ILE THR LYS LYS ILE GLY GLN LYS TRP SER GLY THR SEQRES 12 A 639 VAL THR VAL ASP THR THR ILE GLN GLU HIS ARG ASP ARG SEQRES 13 A 639 GLY ASP THR TYR ASN GLY GLN PHE PHE THR SER GLY PRO SEQRES 14 A 639 LEU ILE ASP GLY VAL LEU GLY MSE LYS ALA TYR GLY SER SEQRES 15 A 639 LEU ALA LYS ARG GLU LYS ASP ASP PRO GLN ASN SER THR SEQRES 16 A 639 THR THR ASP THR GLY GLU THR PRO ARG ILE GLU GLY PHE SEQRES 17 A 639 SER SER ARG ASP GLY ASN VAL GLU PHE ALA TRP THR PRO SEQRES 18 A 639 ASN GLN ASN HIS ASP PHE THR ALA GLY TYR GLY PHE ASP SEQRES 19 A 639 ARG GLN ASP ARG ASP SER ASP SER LEU ASP LYS ASN ARG SEQRES 20 A 639 LEU GLU ARG GLN ASN TYR SER VAL SER HIS ASN GLY ARG SEQRES 21 A 639 TRP ASP TYR GLY THR SER GLU LEU LYS TYR TYR GLY GLU SEQRES 22 A 639 LYS VAL GLU ASN LYS ASN PRO GLY ASN SER SER PRO ILE SEQRES 23 A 639 THR SER GLU SER ASN THR VAL ASP GLY LYS TYR THR LEU SEQRES 24 A 639 PRO LEU THR ALA ILE ASN GLN PHE LEU THR VAL GLY GLY SEQRES 25 A 639 GLU MSE ARG HIS ASP LYS MSE SER ASP ALA VAL ASN LEU SEQRES 26 A 639 THR GLY GLY THR SER SER LYS THR SER ALA SER GLN TYR SEQRES 27 A 639 ALA LEU PHE VAL GLU ASP GLU TRP ARG ILE PHE GLU PRO SEQRES 28 A 639 LEU ALA LEU THR THR GLY VAL ARG MSE ASP ASP HIS GLU SEQRES 29 A 639 THR TYR GLY GLU HIS TRP SER PRO ARG ALA TYR LEU VAL SEQRES 30 A 639 TYR ASN ALA THR ASP THR VAL THR VAL LYS GLY GLY TRP SEQRES 31 A 639 ALA THR ALA PHE LYS ALA PRO SER LEU LEU GLN LEU SER SEQRES 32 A 639 PRO ASP TRP THR SER ASN SER CYS ARG GLY ALA CYS LYS SEQRES 33 A 639 ILE VAL GLY SER PRO ASP LEU LYS PRO GLU THR SER GLU SEQRES 34 A 639 SER TRP GLU LEU GLY LEU TYR TYR MSE GLY GLU GLU GLY SEQRES 35 A 639 TRP LEU GLU GLY VAL GLU SER SER VAL THR VAL PHE ARG SEQRES 36 A 639 ASN ASP VAL LYS ASP ARG ILE SER ILE SER ARG THR SER SEQRES 37 A 639 ASP VAL ASN ALA ALA PRO GLY TYR GLN ASN PHE VAL GLY SEQRES 38 A 639 PHE GLU THR GLY ALA ASN GLY ARG ARG ILE PRO VAL PHE SEQRES 39 A 639 SER TYR TYR ASN VAL ASN LYS ALA ARG ILE GLN GLY VAL SEQRES 40 A 639 GLU THR GLU LEU LYS ILE PRO PHE ASN ASP GLU TRP LYS SEQRES 41 A 639 LEU SER ILE ASN TYR THR TYR ASN ASP GLY ARG ASP VAL SEQRES 42 A 639 SER ASN GLY GLU ASN LYS PRO LEU SER ASP LEU PRO PHE SEQRES 43 A 639 HIS THR ALA ASN GLY THR LEU ASP TRP LYS PRO LEU ALA SEQRES 44 A 639 LEU GLU ASP TRP SER MSE TYR MSE SER GLY HIS TYR THR SEQRES 45 A 639 GLY GLN LYS ARG ALA ASP SER ALA THR ALA LYS THR PRO SEQRES 46 A 639 GLY GLY TYR THR ILE TRP ASN THR GLY ALA ALA TRP GLN SEQRES 47 A 639 VAL THR LYS ASP VAL LYS LEU ARG ALA GLY VAL LEU ASN SEQRES 48 A 639 LEU GLY ASP LYS ASP LEU SER ARG ASP ASP TYR SER TYR SEQRES 49 A 639 ASN GLU ASP GLY ARG ARG TYR PHE MSE ALA VAL ASP TYR SEQRES 50 A 639 ARG PHE MODRES 2HDF MSE A 33 MET SELENOMETHIONINE MODRES 2HDF MSE A 140 MET SELENOMETHIONINE MODRES 2HDF MSE A 201 MET SELENOMETHIONINE MODRES 2HDF MSE A 338 MET SELENOMETHIONINE MODRES 2HDF MSE A 343 MET SELENOMETHIONINE MODRES 2HDF MSE A 384 MET SELENOMETHIONINE MODRES 2HDF MSE A 462 MET SELENOMETHIONINE MODRES 2HDF MSE A 589 MET SELENOMETHIONINE MODRES 2HDF MSE A 591 MET SELENOMETHIONINE MODRES 2HDF MSE A 657 MET SELENOMETHIONINE HET MSE A 33 8 HET MSE A 140 8 HET MSE A 201 8 HET MSE A 338 8 HET MSE A 343 8 HET MSE A 384 8 HET MSE A 462 8 HET MSE A 589 8 HET MSE A 591 8 HET MSE A 657 8 HET SR A 23 1 HET OES A 21 13 HET OES A 22 13 HETNAM MSE SELENOMETHIONINE HETNAM SR STRONTIUM ION HETNAM OES N-OCTYL-2-HYDROXYETHYL SULFOXIDE FORMUL 1 MSE 10(C5 H11 N O2 SE) FORMUL 2 SR SR 2+ FORMUL 3 OES 2(C10 H22 O2 S) FORMUL 5 HOH *18(H2 O) HELIX 1 1 LYS A 45 ALA A 47 5 3 HELIX 2 2 THR A 55 GLN A 60 1 6 HELIX 3 3 ASN A 66 LYS A 72 1 7 HELIX 4 4 ASP A 95 THR A 99 5 5 HELIX 5 5 PRO A 126 ASP A 128 5 3 HELIX 6 6 MSE A 140 GLY A 145 1 6 HELIX 7 7 SER A 146 LEU A 149 5 4 HELIX 8 8 THR A 326 ILE A 328 5 3 HELIX 9 9 SER A 422 SER A 427 1 6 HELIX 10 10 CYS A 435 ALA A 438 5 4 HELIX 11 11 ALA A 496 TYR A 500 5 5 HELIX 12 12 SER A 558 GLU A 561 5 4 SHEET 1 A 2 MSE A 33 VAL A 34 0 SHEET 2 A 2 GLN A 42 ASN A 43 -1 O GLN A 42 N VAL A 34 SHEET 1 B 5 SER A 50 ILE A 54 0 SHEET 2 B 5 ILE A 130 ARG A 137 -1 O VAL A 135 N SER A 52 SHEET 3 B 5 VAL A 152 THR A 157 -1 O ASN A 154 N GLU A 134 SHEET 4 B 5 LEU A 100 VAL A 103 1 N LEU A 102 O VAL A 153 SHEET 5 B 5 LYS A 106 ARG A 107 -1 O LYS A 106 N VAL A 103 SHEET 1 C 2 VAL A 77 THR A 80 0 SHEET 2 C 2 GLY A 88 ILE A 91 -1 O GLY A 88 N THR A 80 SHEET 1 D24 LYS A 563 PRO A 564 0 SHEET 2 D24 TRP A 543 ASP A 556 -1 N ASP A 556 O LYS A 563 SHEET 3 D24 PHE A 570 TRP A 579 -1 O ASP A 578 N LYS A 544 SHEET 4 D24 TRP A 587 THR A 596 -1 O MSE A 589 N TRP A 579 SHEET 5 D24 THR A 613 TRP A 621 -1 O ASN A 616 N SER A 592 SHEET 6 D24 VAL A 627 LEU A 634 -1 O ALA A 631 N ALA A 619 SHEET 7 D24 ARG A 654 ARG A 662 -1 O ASP A 660 N LYS A 628 SHEET 8 D24 SER A 165 GLN A 175 -1 N VAL A 168 O TYR A 661 SHEET 9 D24 THR A 183 ILE A 195 -1 O ASN A 185 N ASP A 171 SHEET 10 D24 LEU A 199 ARG A 210 -1 O LEU A 199 N LEU A 194 SHEET 11 D24 PHE A 232 ASN A 246 -1 O PHE A 232 N ARG A 210 SHEET 12 D24 HIS A 249 ARG A 262 -1 O PHE A 251 N TRP A 243 SHEET 13 D24 ARG A 271 TRP A 285 -1 O ARG A 274 N ASP A 258 SHEET 14 D24 GLY A 288 LYS A 302 -1 O GLU A 300 N GLU A 273 SHEET 15 D24 ILE A 310 LEU A 325 -1 O SER A 312 N VAL A 299 SHEET 16 D24 GLN A 330 MSE A 343 -1 O MSE A 338 N VAL A 317 SHEET 17 D24 SER A 360 PHE A 373 -1 O GLU A 367 N THR A 333 SHEET 18 D24 LEU A 376 HIS A 387 -1 O LEU A 378 N TRP A 370 SHEET 19 D24 GLY A 391 ASN A 403 -1 O GLY A 391 N HIS A 387 SHEET 20 D24 VAL A 408 LYS A 419 -1 O GLY A 412 N LEU A 400 SHEET 21 D24 GLU A 450 MSE A 462 -1 O GLY A 458 N LYS A 411 SHEET 22 D24 GLU A 472 SER A 487 -1 O ASP A 481 N GLU A 453 SHEET 23 D24 TYR A 521 PHE A 539 -1 O ILE A 528 N ASN A 480 SHEET 24 D24 TRP A 543 ASP A 556 -1 O ASP A 553 N GLN A 529 SHEET 1 E 4 THR A 431 SER A 434 0 SHEET 2 E 4 CYS A 439 VAL A 442 -1 O ILE A 441 N SER A 432 SHEET 3 E 4 ILE A 515 SER A 519 1 O PHE A 518 N LYS A 440 SHEET 4 E 4 PHE A 503 GLU A 507 -1 N VAL A 504 O VAL A 517 SSBOND 1 CYS A 435 CYS A 439 1555 1555 2.03 LINK C THR A 32 N MSE A 33 1555 1555 1.34 LINK C MSE A 33 N VAL A 34 1555 1555 1.33 LINK C PRO A 139 N MSE A 140 1555 1555 1.33 LINK C MSE A 140 N SER A 141 1555 1555 1.33 LINK C GLY A 200 N MSE A 201 1555 1555 1.33 LINK C MSE A 201 N LYS A 202 1555 1555 1.32 LINK C GLU A 337 N MSE A 338 1555 1555 1.33 LINK C MSE A 338 N ARG A 339 1555 1555 1.33 LINK C LYS A 342 N MSE A 343 1555 1555 1.34 LINK C MSE A 343 N SER A 344 1555 1555 1.33 LINK C ARG A 383 N MSE A 384 1555 1555 1.32 LINK C MSE A 384 N ASP A 385 1555 1555 1.34 LINK C TYR A 461 N MSE A 462 1555 1555 1.33 LINK C MSE A 462 N GLY A 463 1555 1555 1.33 LINK C SER A 588 N MSE A 589 1555 1555 1.33 LINK C MSE A 589 N TYR A 590 1555 1555 1.33 LINK C TYR A 590 N MSE A 591 1555 1555 1.32 LINK C MSE A 591 N SER A 592 1555 1555 1.33 LINK C PHE A 656 N MSE A 657 1555 1555 1.33 LINK C MSE A 657 N ALA A 658 1555 1555 1.33 LINK SR SR A 23 O ASN A 123 1555 1555 3.39 LINK SR SR A 23 OG SER A 234 1555 1555 2.99 LINK SR SR A 23 OD2 ASP A 236 1555 1555 3.04 LINK SR SR A 23 OD1 ASP A 258 1555 1555 2.93 CISPEP 1 PRO A 63 VAL A 64 0 3.54 CISPEP 2 GLU A 82 GLY A 83 0 -3.51 CISPEP 3 ASP A 84 ASN A 85 0 -2.73 CISPEP 4 LYS A 212 ASP A 213 0 -7.36 CISPEP 5 ILE A 229 GLU A 230 0 5.67 CISPEP 6 GLU A 230 GLY A 231 0 -10.22 CISPEP 7 ASP A 345 ALA A 346 0 0.19 CISPEP 8 GLN A 501 ASN A 502 0 -1.40 CISPEP 9 ALA A 510 ASN A 511 0 17.64 CISPEP 10 LEU A 568 PRO A 569 0 -0.36 CISPEP 11 ALA A 583 LEU A 584 0 -0.10 SITE 1 AC1 5 ASN A 123 TRP A 124 SER A 234 ASP A 236 SITE 2 AC1 5 ASP A 258 SITE 1 AC2 5 TYR A 362 MSE A 384 GLU A 392 ASN A 495 SITE 2 AC2 5 ARG A 513 SITE 1 AC3 4 TYR A 277 TYR A 294 GLU A 313 ASN A 315 CRYST1 90.593 84.336 99.458 90.00 109.16 90.00 C 1 2 1 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 0.011038 0.000000 0.003835 0.00000 SCALE2 0.000000 0.011857 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010644 0.00000