HEADER TRANSPORT PROTEIN 01-AUG-06 2DVZ TITLE STRUCTURE OF A PERIPLASMIC TRANSPORTER COMPND MOL_ID: 1; COMPND 2 MOLECULE: PUTATIVE EXPORTED PROTEIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: RESIDUES 13-314; COMPND 5 SYNONYM: BUGE; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BORDETELLA PERTUSSIS; SOURCE 3 ORGANISM_TAXID: 520; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: SG13009; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PQE-30 KEYWDS PERIPLAMSIC BINDING PROTEINS, CARBOXYLATE BINDING, KEYWDS 2 GLUTAMATE, BORDETELLA, TRANSPORT PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR I.HUVENT,H.BELRHALI,R.ANTOINE,C.BOMPARD,C.LOCHT,F.JACOB- AUTHOR 2 DUBUISSON,V.VILLERET REVDAT 2 24-FEB-09 2DVZ 1 VERSN REVDAT 1 07-NOV-06 2DVZ 0 JRNL AUTH I.HUVENT,H.BELRHALI,R.ANTOINE,C.BOMPARD,C.LOCHT, JRNL AUTH 2 F.JACOB-DUBUISSON,V.VILLERET JRNL TITL STRUCTURAL ANALYSIS OF BORDETELLA PERTUSSIS BUGE JRNL TITL 2 SOLUTE RECEPTOR IN A BOUND CONFORMATION JRNL REF ACTA CRYSTALLOGR.,SECT.D V. 62 1375 2006 JRNL REFN ISSN 0907-4449 JRNL PMID 17057341 JRNL DOI 10.1107/S0907444906032653 REMARK 1 REMARK 2 REMARK 2 RESOLUTION. 2.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 15.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 96.6 REMARK 3 NUMBER OF REFLECTIONS : 15977 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) : 0.180 REMARK 3 R VALUE (WORKING SET) : 0.176 REMARK 3 FREE R VALUE : 0.249 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 863 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) : 2.30 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.36 REMARK 3 REFLECTION IN BIN (WORKING SET) : 841 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 71.99 REMARK 3 BIN R VALUE (WORKING SET) : 0.1550 REMARK 3 BIN FREE R VALUE SET COUNT : 43 REMARK 3 BIN FREE R VALUE : 0.3640 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2248 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 15 REMARK 3 SOLVENT ATOMS : 202 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 18.35 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.05000 REMARK 3 B22 (A**2) : 0.05000 REMARK 3 B33 (A**2) : -0.07000 REMARK 3 B12 (A**2) : 0.02000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.232 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.145 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 12.912 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.940 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.885 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2310 ; 0.019 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3142 ; 1.610 ; 1.981 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 299 ; 6.445 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 89 ;37.437 ;25.506 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 377 ;15.607 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 8 ;19.127 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 350 ; 0.099 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1759 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1106 ; 0.209 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1606 ; 0.301 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 190 ; 0.221 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 2 ; 0.229 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 29 ; 0.287 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 19 ; 0.499 ; 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): 1539 ; 1.008 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2427 ; 1.598 ; 2.000 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 869 ; 2.716 ; 3.000 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 715 ; 4.060 ; 4.500 REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): 2408 ; 1.716 ; 3.000 REMARK 3 SPHERICITY; FREE ATOMS (A**2): 211 ; 7.428 ; 3.000 REMARK 3 SPHERICITY; BONDED ATOMS (A**2): 2258 ; 2.686 ; 3.000 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 : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2DVZ COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 03-AUG-06. REMARK 100 THE RCSB ID CODE IS RCSB025910. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 20-OCT-05 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 4.30 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : BM14 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9758 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : CCP4 (SCALA) REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 15977 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 REMARK 200 RESOLUTION RANGE LOW (A) : 15.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.6 REMARK 200 DATA REDUNDANCY : 9.000 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.07900 REMARK 200 FOR THE DATA SET : 6.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.36 REMARK 200 COMPLETENESS FOR SHELL (%) : 72.0 REMARK 200 DATA REDUNDANCY IN SHELL : 8.70 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.12500 REMARK 200 FOR SHELL : 5.300 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: SHELXS REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.73 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.60 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M CDCL2, 0.1M SODIUM ACETATE, REMARK 280 30-32% (V/V) PEG 400 OR 34-40% (V/V) PEG 200, PH 4.30, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 65 2 2 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 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/6 REMARK 290 6555 X-Y,X,Z+5/6 REMARK 290 7555 Y,X,-Z+2/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+1/3 REMARK 290 10555 -Y,-X,-Z+1/6 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-Z+5/6 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 281.77333 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 140.88667 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 211.33000 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 70.44333 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 352.21667 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 281.77333 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 140.88667 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 70.44333 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 211.33000 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 352.21667 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2750 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 23080 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -69.0 KCAL/MOL 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 BIOMT1 2 0.500000 -0.866025 0.000000 53.82900 REMARK 350 BIOMT2 2 -0.866025 -0.500000 0.000000 93.23456 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 70.44333 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 MET A 1 REMARK 465 ARG A 2 REMARK 465 GLY A 3 REMARK 465 SER A 4 REMARK 465 HIS A 5 REMARK 465 HIS A 6 REMARK 465 HIS A 7 REMARK 465 HIS A 8 REMARK 465 HIS A 9 REMARK 465 HIS A 10 REMARK 465 GLY A 11 REMARK 465 SER A 12 REMARK 465 ALA A 13 REMARK 465 ASP A 14 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 1252 O HOH A 1253 2.08 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 PRO A 26 26.05 -75.09 REMARK 500 THR A 110 146.21 -173.20 REMARK 500 ASN A 140 55.43 -140.52 REMARK 500 VAL A 241 -163.15 -117.47 REMARK 500 SER A 284 -78.61 -111.34 REMARK 500 GLN A 309 -6.98 68.55 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 A1189 DISTANCE = 5.15 ANGSTROMS REMARK 525 HOH A1222 DISTANCE = 5.28 ANGSTROMS 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 CD A1001 CD REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 225 OD1 REMARK 620 2 ASP A 225 OD2 52.7 REMARK 620 3 HOH A1153 O 88.7 101.4 REMARK 620 4 HOH A1255 O 166.9 137.7 95.5 REMARK 620 5 ASP A 231 OD1 86.7 88.1 163.8 85.9 REMARK 620 6 ASP A 231 OD2 75.3 118.0 109.4 91.6 54.5 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CD A1002 CD REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 129 OD2 REMARK 620 2 HOH A1146 O 93.7 REMARK 620 3 HOH A1147 O 150.7 96.8 REMARK 620 4 HOH A1148 O 114.3 97.2 91.4 REMARK 620 5 ASP A 129 OD1 54.9 85.9 98.6 169.1 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CD A1003 CD REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A1149 O REMARK 620 2 HOH A1147 O 108.7 REMARK 620 3 GLU A 135 OE1 89.8 101.1 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CD A1004 CD REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A1124 O REMARK 620 2 HOH A1151 O 86.7 REMARK 620 3 HOH A1150 O 176.8 94.3 REMARK 620 4 GLU A 136 OE1 87.7 103.2 95.0 REMARK 620 5 GLU A 289 OE1 89.5 106.7 87.4 149.7 REMARK 620 6 GLU A 289 OE2 87.0 158.3 91.0 97.2 52.5 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CD A1005 CD REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 221 OD2 REMARK 620 2 HOH A1152 O 109.8 REMARK 620 3 ASP A 221 OD1 51.4 103.7 REMARK 620 4 ASP A 221 OD1 124.7 96.7 75.8 REMARK 620 5 ASP A 221 OD2 150.0 100.2 121.9 49.2 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CD A 1001 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CD A 1002 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CD A 1003 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CD A 1004 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CD A 1005 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GLU A 1055 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2F5X RELATED DB: PDB REMARK 900 PERIPLASMIC BINDING PROTEIN BUGD DBREF 2DVZ A 13 314 UNP Q7W0A0 Q7W0A0_BORPE 26 327 SEQADV 2DVZ MET A 1 UNP Q7W0A0 CLONING ARTIFACT SEQADV 2DVZ ARG A 2 UNP Q7W0A0 CLONING ARTIFACT SEQADV 2DVZ GLY A 3 UNP Q7W0A0 CLONING ARTIFACT SEQADV 2DVZ SER A 4 UNP Q7W0A0 CLONING ARTIFACT SEQADV 2DVZ HIS A 5 UNP Q7W0A0 EXPRESSION TAG SEQADV 2DVZ HIS A 6 UNP Q7W0A0 EXPRESSION TAG SEQADV 2DVZ HIS A 7 UNP Q7W0A0 EXPRESSION TAG SEQADV 2DVZ HIS A 8 UNP Q7W0A0 EXPRESSION TAG SEQADV 2DVZ HIS A 9 UNP Q7W0A0 EXPRESSION TAG SEQADV 2DVZ HIS A 10 UNP Q7W0A0 EXPRESSION TAG SEQADV 2DVZ GLY A 11 UNP Q7W0A0 CLONING ARTIFACT SEQADV 2DVZ SER A 12 UNP Q7W0A0 CLONING ARTIFACT SEQADV 2DVZ MSE A 44 UNP Q7W0A0 MET 57 MODIFIED RESIDUE SEQADV 2DVZ MSE A 52 UNP Q7W0A0 MET 65 MODIFIED RESIDUE SEQADV 2DVZ MSE A 87 UNP Q7W0A0 MET 100 MODIFIED RESIDUE SEQADV 2DVZ MSE A 158 UNP Q7W0A0 MET 171 MODIFIED RESIDUE SEQADV 2DVZ MSE A 164 UNP Q7W0A0 MET 177 MODIFIED RESIDUE SEQADV 2DVZ MSE A 201 UNP Q7W0A0 MET 214 MODIFIED RESIDUE SEQADV 2DVZ MSE A 212 UNP Q7W0A0 MET 225 MODIFIED RESIDUE SEQADV 2DVZ MSE A 253 UNP Q7W0A0 MET 266 MODIFIED RESIDUE SEQRES 1 A 314 MET ARG GLY SER HIS HIS HIS HIS HIS HIS GLY SER ALA SEQRES 2 A 314 ASP ALA TYR PRO SER LYS ALA ILE ARG VAL ILE VAL PRO SEQRES 3 A 314 PHE ALA PRO GLY GLY SER THR ASP ILE ILE ALA ARG LEU SEQRES 4 A 314 VAL THR GLN ARG MSE SER GLN GLU LEU GLY GLN PRO MSE SEQRES 5 A 314 VAL VAL GLU ASN LYS GLY GLY ALA GLY GLY ALA ILE GLY SEQRES 6 A 314 ALA SER GLU ALA ALA ARG ALA GLU PRO ASP GLY TYR THR SEQRES 7 A 314 LEU SER ILE ALA THR VAL SER THR MSE ALA VAL ASN PRO SEQRES 8 A 314 ALA CYS ARG PRO LYS ASP LEU PRO TYR ASP PRO ILE LYS SEQRES 9 A 314 ASP PHE GLN PRO VAL THR ASN PHE ALA ASN THR ALA ASN SEQRES 10 A 314 VAL VAL ALA VAL ASN PRO LYS PHE PRO ALA LYS ASP PHE SEQRES 11 A 314 LYS GLY PHE LEU GLU GLU LEU LYS LYS ASN PRO GLY LYS SEQRES 12 A 314 TYR SER TYR GLY SER SER GLY THR CYS GLY VAL LEU HIS SEQRES 13 A 314 LEU MSE GLY GLU SER PHE LYS MSE ALA THR GLY THR ASP SEQRES 14 A 314 ILE VAL HIS VAL PRO TYR LYS GLY SER GLY PRO ALA VAL SEQRES 15 A 314 ALA ASP ALA VAL GLY GLY GLN ILE GLU LEU ILE PHE ASP SEQRES 16 A 314 ASN LEU PRO SER SER MSE PRO GLN ILE GLN ALA GLY LYS SEQRES 17 A 314 LEU ARG ALA MSE ALA ILE ALA TRP PRO THR ARG ILE ASP SEQRES 18 A 314 ALA ILE LYS ASP VAL PRO THR PHE ALA ASP ALA GLY PHE SEQRES 19 A 314 PRO VAL LEU ASN GLN PRO VAL TRP TYR GLY LEU LEU ALA SEQRES 20 A 314 PRO LYS GLY THR PRO MSE ASP VAL VAL ASN LYS LEU ARG SEQRES 21 A 314 ASP ALA ALA VAL VAL ALA LEU LYS ASP PRO LYS VAL ILE SEQRES 22 A 314 LYS ALA LEU ASP ASP GLN GLY SER ALA PRO SER GLY ASN SEQRES 23 A 314 THR PRO GLU GLU PHE ALA LYS GLU ILE LYS GLU GLN TYR SEQRES 24 A 314 ASP TRP ALA GLN ASP VAL VAL LYS LYS GLN ASN ILE LYS SEQRES 25 A 314 LEU ASP MODRES 2DVZ MSE A 44 MET SELENOMETHIONINE MODRES 2DVZ MSE A 52 MET SELENOMETHIONINE MODRES 2DVZ MSE A 87 MET SELENOMETHIONINE MODRES 2DVZ MSE A 158 MET SELENOMETHIONINE MODRES 2DVZ MSE A 164 MET SELENOMETHIONINE MODRES 2DVZ MSE A 201 MET SELENOMETHIONINE MODRES 2DVZ MSE A 212 MET SELENOMETHIONINE MODRES 2DVZ MSE A 253 MET SELENOMETHIONINE HET MSE A 44 8 HET MSE A 52 8 HET MSE A 87 8 HET MSE A 158 8 HET MSE A 164 8 HET MSE A 201 8 HET MSE A 212 8 HET MSE A 253 8 HET CD A1001 1 HET CD A1002 1 HET CD A1003 1 HET CD A1004 1 HET CD A1005 1 HET GLU A1055 10 HETNAM MSE SELENOMETHIONINE HETNAM CD CADMIUM ION HETNAM GLU GLUTAMIC ACID FORMUL 1 MSE 8(C5 H11 N O2 SE) FORMUL 2 CD 5(CD 2+) FORMUL 7 GLU C5 H9 N O4 FORMUL 8 HOH *202(H2 O) HELIX 1 1 GLY A 31 GLY A 49 1 19 HELIX 2 2 GLY A 59 GLY A 61 5 3 HELIX 3 3 GLY A 62 ALA A 72 1 11 HELIX 4 4 THR A 83 ALA A 88 1 6 HELIX 5 5 ALA A 88 ARG A 94 1 7 HELIX 6 6 ASP A 129 LYS A 139 1 11 HELIX 7 7 GLY A 153 GLY A 167 1 15 HELIX 8 8 GLY A 177 GLY A 188 1 12 HELIX 9 9 LEU A 197 ALA A 206 1 10 HELIX 10 10 ILE A 220 LYS A 224 5 5 HELIX 11 11 PHE A 234 ASN A 238 5 5 HELIX 12 12 PRO A 252 LYS A 268 1 17 HELIX 13 13 ASP A 269 GLY A 280 1 12 HELIX 14 14 THR A 287 LYS A 308 1 22 SHEET 1 A 6 MSE A 52 ASN A 56 0 SHEET 2 A 6 ILE A 21 VAL A 25 1 N VAL A 25 O GLU A 55 SHEET 3 A 6 THR A 78 ALA A 82 1 O LEU A 79 N ARG A 22 SHEET 4 A 6 VAL A 241 PRO A 248 -1 O LEU A 246 N SER A 80 SHEET 5 A 6 PHE A 106 THR A 115 -1 N GLN A 107 O ALA A 247 SHEET 6 A 6 SER A 281 PRO A 283 -1 O ALA A 282 N ASN A 114 SHEET 1 B 5 VAL A 171 PRO A 174 0 SHEET 2 B 5 SER A 145 SER A 148 1 N TYR A 146 O VAL A 171 SHEET 3 B 5 LEU A 192 ASN A 196 1 O PHE A 194 N GLY A 147 SHEET 4 B 5 ASN A 117 VAL A 121 -1 N VAL A 118 O ASP A 195 SHEET 5 B 5 ARG A 210 ALA A 215 -1 O MSE A 212 N VAL A 119 SSBOND 1 CYS A 93 CYS A 152 1555 1555 2.03 LINK C ARG A 43 N MSE A 44 1555 1555 1.33 LINK C MSE A 44 N SER A 45 1555 1555 1.32 LINK C PRO A 51 N MSE A 52 1555 1555 1.33 LINK C MSE A 52 N VAL A 53 1555 1555 1.32 LINK C THR A 86 N MSE A 87 1555 1555 1.32 LINK C MSE A 87 N ALA A 88 1555 1555 1.32 LINK C LEU A 157 N MSE A 158 1555 1555 1.33 LINK C MSE A 158 N GLY A 159 1555 1555 1.34 LINK C LYS A 163 N MSE A 164 1555 1555 1.33 LINK C MSE A 164 N ALA A 165 1555 1555 1.33 LINK C SER A 200 N MSE A 201 1555 1555 1.33 LINK C MSE A 201 N PRO A 202 1555 1555 1.37 LINK C ALA A 211 N MSE A 212 1555 1555 1.33 LINK C MSE A 212 N ALA A 213 1555 1555 1.33 LINK C PRO A 252 N MSE A 253 1555 1555 1.33 LINK C MSE A 253 N ASP A 254 1555 1555 1.33 LINK CD CD A1001 OD1 ASP A 225 1555 1555 2.58 LINK CD CD A1001 OD2 ASP A 225 1555 1555 2.31 LINK CD CD A1001 O HOH A1153 1555 1555 1.88 LINK CD CD A1001 O HOH A1255 1555 1555 2.51 LINK CD CD A1002 OD2 ASP A 129 1555 1555 2.21 LINK CD CD A1002 O HOH A1146 1555 1555 2.74 LINK CD CD A1002 O HOH A1147 1555 1555 2.20 LINK CD CD A1002 O HOH A1148 1555 1555 2.52 LINK CD CD A1002 OD1 ASP A 129 1555 1555 2.44 LINK CD CD A1003 O HOH A1149 1555 1555 2.82 LINK CD CD A1003 O HOH A1147 1555 1555 2.62 LINK CD CD A1003 OE1 GLU A 135 1555 1555 2.45 LINK CD CD A1004 O HOH A1124 1555 1555 2.26 LINK CD CD A1004 O HOH A1151 1555 1555 2.50 LINK CD CD A1004 O HOH A1150 1555 1555 2.77 LINK CD CD A1004 OE1 GLU A 136 1555 1555 2.29 LINK CD CD A1005 OD2 ASP A 221 1555 1555 2.21 LINK CD CD A1005 O HOH A1152 1555 1555 2.26 LINK CD CD A1005 OD1 ASP A 221 1555 1555 2.71 LINK CD CD A1001 OD1 ASP A 231 1555 10775 2.27 LINK CD CD A1001 OD2 ASP A 231 1555 10775 2.59 LINK CD CD A1004 OE1 GLU A 289 1555 1565 2.57 LINK CD CD A1004 OE2 GLU A 289 1555 1565 2.38 LINK CD CD A1005 OD1 ASP A 221 1555 10775 2.80 LINK CD CD A1005 OD2 ASP A 221 1555 10775 2.37 CISPEP 1 TYR A 16 PRO A 17 0 -7.44 SITE 1 AC1 4 ASP A 225 ASP A 231 HOH A1153 HOH A1255 SITE 1 AC2 4 ASP A 129 HOH A1146 HOH A1147 HOH A1148 SITE 1 AC3 3 GLU A 135 HOH A1147 HOH A1149 SITE 1 AC4 5 GLU A 136 GLU A 289 HOH A1124 HOH A1150 SITE 2 AC4 5 HOH A1151 SITE 1 AC5 2 ASP A 221 HOH A1152 SITE 1 AC6 16 PHE A 27 GLY A 31 SER A 32 THR A 33 SITE 2 AC6 16 THR A 83 SER A 85 SER A 149 VAL A 154 SITE 3 AC6 16 LEU A 155 GLY A 177 SER A 178 ASN A 196 SITE 4 AC6 16 TYR A 243 HOH A1066 HOH A1155 HOH A1156 CRYST1 53.829 53.829 422.660 90.00 90.00 120.00 P 65 2 2 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 0.018577 0.010726 0.000000 0.00000 SCALE2 0.000000 0.021451 0.000000 0.00000 SCALE3 0.000000 0.000000 0.002366 0.00000