10 20 30 40 50 60 70 80 3DPO - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER CHAPERONE, PEPTIDE BINDING PROTEIN 09-JUL-08 3DPO
TITLE CRYSTAL STRUCTURE OF THE SUBSTRATE BINDING DOMAIN OF E. TITLE 2 COLI DNAK IN COMPLEX WITH A SHORT PYRRHOCORICIN-DERIVED TITLE 3 INHIBITOR PEPTIDE
COMPND MOL_ID: 1; COMPND 2 MOLECULE: CHAPERONE PROTEIN DNAK; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: SUBSTRATE BINDING DOMAIN (UNP RESIDUES 389 TO COMPND 5 607); COMPND 6 SYNONYM: HEAT SHOCK PROTEIN 70, HEAT SHOCK 70 KDA PROTEIN, COMPND 7 HSP70; COMPND 8 ENGINEERED: YES; COMPND 9 MOL_ID: 2; COMPND 10 MOLECULE: INHIBITOR PEPTIDE; COMPND 11 CHAIN: C, D; COMPND 12 ENGINEERED: YES
SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 83333; SOURCE 4 GENE: DNAK, GROP, GRPF, SEG, B0014, JW0013; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 MOL_ID: 2; SOURCE 9 SYNTHETIC: YES; SOURCE 10 OTHER_DETAILS: THE PEPTIDE WAS PYRRHOCORICIN-DERIVED.
KEYWDS MOLECULAR CHAPERONE, DNAK, HSP70, SUBSTRATE-BINDING DOMAIN, KEYWDS 2 PYRRHOCORICIN INHIBITOR, ATP-BINDING, CHAPERONE, CYTOPLASM, KEYWDS 3 DNA REPLICATION, MEMBRANE, NUCLEOTIDE-BINDING, KEYWDS 4 PHOSPHOPROTEIN, STRESS RESPONSE, PEPTIDE BINDING PROTEIN
EXPDTA X-RAY DIFFRACTION
AUTHOR A.ROUJEINIKOVA
REVDAT 1 10-MAR-09 3DPO 0
JRNL AUTH M.LIEBSCHER,A.ROUJEINIKOVA JRNL TITL ALLOSTERIC COUPLING BETWEEN THE LID AND JRNL TITL 2 INTERDOMAIN LINKER IN DNAK REVEALED BY INHIBITOR JRNL TITL 3 BINDING STUDIES JRNL REF J.BACTERIOL. V. 191 1456 2009 JRNL REFN ISSN 0021-9193 JRNL PMID 19103929 JRNL DOI 10.1128/JB.01131-08
REMARK 1
REMARK 2 REMARK 2 RESOLUTION. 2.10 ANGSTROMS.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.4.0073 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) : 2.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 15.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.0 REMARK 3 NUMBER OF REFLECTIONS : 32829 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) : 0.182 REMARK 3 R VALUE (WORKING SET) : 0.178 REMARK 3 FREE R VALUE : 0.241 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1670 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) : 2.10 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.15 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2227 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 97.79 REMARK 3 BIN R VALUE (WORKING SET) : 0.1950 REMARK 3 BIN FREE R VALUE SET COUNT : 122 REMARK 3 BIN FREE R VALUE : 0.2630 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3507 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 30 REMARK 3 SOLVENT ATOMS : 496 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 22.09 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.86000 REMARK 3 B22 (A**2) : 0.53000 REMARK 3 B33 (A**2) : 0.33000 REMARK 3 B12 (A**2) : 0.00000 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): 0.199 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.187 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.115 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.232 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.944 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.898 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3579 ; 0.013 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 2351 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4851 ; 1.434 ; 1.987 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5839 ; 1.482 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 469 ; 5.930 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 154 ;36.859 ;26.169 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 662 ;14.630 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 18 ;19.202 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 567 ; 0.076 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3991 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 599 ; 0.003 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL 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): 2307 ; 0.644 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 924 ; 0.150 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3718 ; 1.255 ; 2.000 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1272 ; 2.435 ; 3.000 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1133 ; 4.262 ; 4.500 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 : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 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 REMARK 3 RIDING POSITIONS U VALUES: REFINED INDIVIDUALLY
REMARK 4 REMARK 4 3DPO COMPLIES WITH FORMAT V. 3.20, 01-DEC-08
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 11-JUL-08. REMARK 100 THE RCSB ID CODE IS RCSB048333.
REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 03-NOV-07 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID23-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : NULL REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 32942 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.100 REMARK 200 RESOLUTION RANGE LOW (A) : 69.843 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.3 REMARK 200 DATA REDUNDANCY : 3.400 REMARK 200 R MERGE (I) : 0.09000 REMARK 200 R SYM (I) : 0.09000 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 7.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.21 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.9 REMARK 200 DATA REDUNDANCY IN SHELL : 3.40 REMARK 200 R MERGE FOR SHELL (I) : 0.31800 REMARK 200 R SYM FOR SHELL (I) : 0.31800 REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.300 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: N/A REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: PDB ENTRY 1DKX REMARK 200 REMARK 200 REMARK: NULL
REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 55.57 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.77 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2.4 M AMMONIUM SULFATE, 100 MM REMARK 280 CITRIC ACID, PH 5.0, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 293K
REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 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 -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 38.78950 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 79.98250 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 38.78950 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 79.98250 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL
REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5190 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 22620 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -96.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, D REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, C REMARK 350 BIOMT1 2 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 -44.93100 REMARK 350 REMARK 350 BIOMOLECULE: 2 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: 1660 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 12220 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -44.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, D REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 3 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: 1640 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 12290 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -40.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, C REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000
REMARK 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 602 REMARK 465 GLN A 603 REMARK 465 GLN A 604 REMARK 465 GLN A 605 REMARK 465 HIS A 606 REMARK 465 ALA A 607 REMARK 465 GLN B 604 REMARK 465 GLN B 605 REMARK 465 HIS B 606 REMARK 465 ALA B 607 REMARK 465 VAL C -2 REMARK 465 ASP C -1 REMARK 465 VAL D -2 REMARK 465 ASP D -1
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 548 CG CD CE NZ REMARK 470 GLU A 551 CG CD OE1 OE2 REMARK 470 GLU A 552 CG CD OE1 OE2 REMARK 470 LYS A 562 CG CD CE NZ REMARK 470 GLN A 596 CG CD OE1 NE2 REMARK 470 LYS A 597 CG CD CE NZ REMARK 470 MET A 599 CG SD CE REMARK 470 GLU A 600 CG CD OE1 OE2 REMARK 470 GLU B 520 CG CD OE1 OE2 REMARK 470 GLN B 603 CG CD OE1 NE2
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 1238 O HOH A 1245 1.84 REMARK 500 O HOH A 1239 O HOH A 1245 1.92 REMARK 500 O HOH B 1380 O HOH B 1430 2.02 REMARK 500 O HOH A 1051 O HOH B 1422 2.05 REMARK 500 O HOH A 1066 O HOH B 1422 2.10 REMARK 500 O HOH B 1354 O HOH B 1403 2.13 REMARK 500 O HOH A 1155 O HOH B 1420 2.15 REMARK 500 O HOH B 1311 O HOH B 1390 2.17 REMARK 500 O HOH A 1105 O HOH A 1217 2.18 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 B 1384 O HOH B 1384 2555 1.11 REMARK 500 O HOH A 1090 O HOH B 1436 1554 2.14 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CHIRAL CENTERS REMARK 500 REMARK 500 UNEXPECTED CONFIGURATION OF THE FOLLOWING CHIRAL REMARK 500 CENTER(S) USING IMPROPER CA--C--CB--N CHIRALITY REMARK 500 M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (11X,I3,1X,A3,1X,A1,I4,A1,6X,F5.1,6X,A1,10X,A1,3X,A16) REMARK 500 REMARK 500 M RES CSSEQI IMPROPER EXPECTED FOUND DETAILS REMARK 500 THR C 8 25.0 L L OUTSIDE RANGE REMARK 500 REMARK 500 REMARK: NULL
REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 1002 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 1003 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 1005 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 1001 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 1004 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 1006
REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3DPO RELATED DB: PDB REMARK 900 RELATED ID: 3DPQ RELATED DB: PDB
DBREF 3DPO A 389 607 UNP P0A6Y8 DNAK_ECOLI 389 607 DBREF 3DPO B 389 607 UNP P0A6Y8 DNAK_ECOLI 389 607 DBREF 3DPO C -2 8 PDB 3DPO 3DPO -2 8 DBREF 3DPO D -2 8 PDB 3DPO 3DPO -2 8
SEQRES 1 A 219 VAL LEU LEU LEU ASP VAL THR PRO LEU SER LEU GLY ILE SEQRES 2 A 219 GLU THR MET GLY GLY VAL MET THR THR LEU ILE ALA LYS SEQRES 3 A 219 ASN THR THR ILE PRO THR LYS HIS SER GLN VAL PHE SER SEQRES 4 A 219 THR ALA GLU ASP ASN GLN SER ALA VAL THR ILE HIS VAL SEQRES 5 A 219 LEU GLN GLY GLU ARG LYS ARG ALA ALA ASP ASN LYS SER SEQRES 6 A 219 LEU GLY GLN PHE ASN LEU ASP GLY ILE ASN PRO ALA PRO SEQRES 7 A 219 ARG GLY MET PRO GLN ILE GLU VAL THR PHE ASP ILE ASP SEQRES 8 A 219 ALA ASP GLY ILE LEU HIS VAL SER ALA LYS ASP LYS ASN SEQRES 9 A 219 SER GLY LYS GLU GLN LYS ILE THR ILE LYS ALA SER SER SEQRES 10 A 219 GLY LEU ASN GLU ASP GLU ILE GLN LYS MET VAL ARG ASP SEQRES 11 A 219 ALA GLU ALA ASN ALA GLU ALA ASP ARG LYS PHE GLU GLU SEQRES 12 A 219 LEU VAL GLN THR ARG ASN GLN GLY ASP HIS LEU LEU HIS SEQRES 13 A 219 SER THR ARG LYS GLN VAL GLU GLU ALA GLY ASP LYS LEU SEQRES 14 A 219 PRO ALA ASP ASP LYS THR ALA ILE GLU SER ALA LEU THR SEQRES 15 A 219 ALA LEU GLU THR ALA LEU LYS GLY GLU ASP LYS ALA ALA SEQRES 16 A 219 ILE GLU ALA LYS MET GLN GLU LEU ALA GLN VAL SER GLN SEQRES 17 A 219 LYS LEU MET GLU ILE ALA GLN GLN GLN HIS ALA SEQRES 1 B 219 VAL LEU LEU LEU ASP VAL THR PRO LEU SER LEU GLY ILE SEQRES 2 B 219 GLU THR MET GLY GLY VAL MET THR THR LEU ILE ALA LYS SEQRES 3 B 219 ASN THR THR ILE PRO THR LYS HIS SER GLN VAL PHE SER SEQRES 4 B 219 THR ALA GLU ASP ASN GLN SER ALA VAL THR ILE HIS VAL SEQRES 5 B 219 LEU GLN GLY GLU ARG LYS ARG ALA ALA ASP ASN LYS SER SEQRES 6 B 219 LEU GLY GLN PHE ASN LEU ASP GLY ILE ASN PRO ALA PRO SEQRES 7 B 219 ARG GLY MET PRO GLN ILE GLU VAL THR PHE ASP ILE ASP SEQRES 8 B 219 ALA ASP GLY ILE LEU HIS VAL SER ALA LYS ASP LYS ASN SEQRES 9 B 219 SER GLY LYS GLU GLN LYS ILE THR ILE LYS ALA SER SER SEQRES 10 B 219 GLY LEU ASN GLU ASP GLU ILE GLN LYS MET VAL ARG ASP SEQRES 11 B 219 ALA GLU ALA ASN ALA GLU ALA ASP ARG LYS PHE GLU GLU SEQRES 12 B 219 LEU VAL GLN THR ARG ASN GLN GLY ASP HIS LEU LEU HIS SEQRES 13 B 219 SER THR ARG LYS GLN VAL GLU GLU ALA GLY ASP LYS LEU SEQRES 14 B 219 PRO ALA ASP ASP LYS THR ALA ILE GLU SER ALA LEU THR SEQRES 15 B 219 ALA LEU GLU THR ALA LEU LYS GLY GLU ASP LYS ALA ALA SEQRES 16 B 219 ILE GLU ALA LYS MET GLN GLU LEU ALA GLN VAL SER GLN SEQRES 17 B 219 LYS LEU MET GLU ILE ALA GLN GLN GLN HIS ALA SEQRES 1 C 11 VAL ASP LYS LEU TYR ALC LEU PRO ARG PRO THR SEQRES 1 D 11 VAL ASP LYS LEU TYR ALC LEU PRO ARG PRO THR
MODRES 3DPO ALC C 3 ALA 2-AMINO-3-CYCLOHEXYL-PROPIONIC ACID MODRES 3DPO ALC D 3 ALA 2-AMINO-3-CYCLOHEXYL-PROPIONIC ACID
HET ALC C 3 11 HET ALC D 3 11 HET SO4 A1002 5 HET SO4 A1003 5 HET SO4 A1005 5 HET SO4 B1001 5 HET SO4 B1004 5 HET SO4 B1006 5
HETNAM ALC 2-AMINO-3-CYCLOHEXYL-PROPIONIC ACID HETNAM SO4 SULFATE ION
FORMUL 3 ALC 2(C9 H17 N O2) FORMUL 5 SO4 6(O4 S 2-) FORMUL 11 HOH *496(H2 O)
HELIX 1 1 ARG A 447 ASN A 451 5 5 HELIX 2 2 ASN A 508 ASN A 522 1 15 HELIX 3 3 ASN A 522 GLY A 554 1 33 HELIX 4 4 ASP A 555 LEU A 557 5 3 HELIX 5 5 PRO A 558 LYS A 577 1 20 HELIX 6 6 ASP A 580 VAL A 594 1 15 HELIX 7 7 SER A 595 ILE A 601 1 7 HELIX 8 8 ARG B 447 ASN B 451 5 5 HELIX 9 9 ASN B 508 ASN B 522 1 15 HELIX 10 10 ASN B 522 GLY B 554 1 33 HELIX 11 11 PRO B 558 LEU B 576 1 19 HELIX 12 12 ASP B 580 VAL B 594 1 15 HELIX 13 13 SER B 595 GLN B 603 1 9
SHEET 1 A 4 VAL A 407 ILE A 412 0 SHEET 2 A 4 LEU A 399 THR A 403 -1 N LEU A 399 O LEU A 411 SHEET 3 A 4 VAL A 436 GLN A 442 -1 O LEU A 441 N GLY A 400 SHEET 4 A 4 LYS A 452 LEU A 459 -1 O LEU A 454 N VAL A 440 SHEET 1 B 5 GLU A 496 ILE A 501 0 SHEET 2 B 5 LEU A 484 ASP A 490 -1 N LEU A 484 O ILE A 501 SHEET 3 B 5 ILE A 472 ILE A 478 -1 N ASP A 477 O HIS A 485 SHEET 4 B 5 THR A 420 THR A 428 -1 N PHE A 426 O ILE A 472 SHEET 5 B 5 TYR D 2 LEU D 4 1 O LEU D 4 N SER A 427 SHEET 1 C 4 VAL B 407 ILE B 412 0 SHEET 2 C 4 LEU B 399 THR B 403 -1 N THR B 403 O VAL B 407 SHEET 3 C 4 VAL B 436 GLN B 442 -1 O LEU B 441 N GLY B 400 SHEET 4 C 4 LYS B 452 LEU B 459 -1 O PHE B 457 N ILE B 438 SHEET 1 D 5 GLU B 496 ILE B 501 0 SHEET 2 D 5 LEU B 484 ASP B 490 -1 N LEU B 484 O ILE B 501 SHEET 3 D 5 ILE B 472 ILE B 478 -1 N ASP B 477 O HIS B 485 SHEET 4 D 5 THR B 420 THR B 428 -1 N PHE B 426 O ILE B 472 SHEET 5 D 5 ALC C 3 LEU C 4 1 O LEU C 4 N SER B 427
LINK C TYR C 2 N ALC C 3 1555 1555 1.23 LINK C ALC C 3 N LEU C 4 1555 1555 1.40 LINK C TYR D 2 N ALC D 3 1555 1555 1.35 LINK C ALC D 3 N LEU D 4 1555 1555 1.29
CISPEP 1 ILE A 418 PRO A 419 0 3.31 CISPEP 2 ILE B 418 PRO B 419 0 0.65
SITE 1 AC1 8 GLU A 402 MET A 404 GLY A 405 GLY A 406 SITE 2 AC1 8 HOH A1104 HOH A1208 HOH A1228 PRO D 5 SITE 1 AC2 6 ASN A 451 LYS A 452 SER A 453 HOH A1085 SITE 2 AC2 6 HOH A1201 LYS B 452 SITE 1 AC3 3 ARG A 467 ASP A 481 SER A 545 SITE 1 AC4 3 LYS B 502 SER B 504 HOH B1255 SITE 1 AC5 6 ARG B 467 GLN B 538 HIS B 541 HOH B1369 SITE 2 AC5 6 HOH B1386 HOH B1431 SITE 1 AC6 5 ARG B 447 ARG B 536 GLU B 579 HOH B1317 SITE 2 AC6 5 HOH B1382
CRYST1 77.579 159.965 44.931 90.00 90.00 90.00 P 21 21 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 0.012890 0.000000 0.000000 0.00000
SCALE2 0.000000 0.006251 0.000000 0.00000
SCALE3 0.000000 0.000000 0.022257 0.00000