10 20 30 40 50 60 70 80 3DVX - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER OXIDOREDUCTASE 21-JUL-08 3DVX
TITLE CRYSTAL STRUCTURE OF REDUCED DSBA3 FROM NEISSERIA TITLE 2 MENINGITIDIS
COMPND MOL_ID: 1; COMPND 2 MOLECULE: THIOL:DISULFIDE INTERCHANGE PROTEIN DSBA; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: MATURE FORM: UNP RESIDUES 20-214; COMPND 5 ENGINEERED: YES
SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: NEISSERIA MENINGITIDIS MC58; SOURCE 3 ORGANISM_TAXID: 122586; SOURCE 4 STRAIN: MC58 / SEROGROUP B; SOURCE 5 GENE: DSBA-3, NMB0407; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)-CODON PLUS-RIL; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PLIM01
KEYWDS THIOL-OXIDOREDUCTASE, NEISSERIA, DSBA, DISULFIDE BOND
EXPDTA X-RAY DIFFRACTION
AUTHOR C.LAFAYE,L.SERRE
REVDAT 2 29-SEP-09 3DVX 1 JRNL REVDAT 1 04-AUG-09 3DVX 0
JRNL AUTH C.LAFAYE,T.IWEMA,P.CARPENTIER,C.JULLIAN-BINARD, JRNL AUTH 2 J.S.KROLL,J.F.COLLET,L.SERRE JRNL TITL BIOCHEMICAL AND STRUCTURAL STUDY OF THE HOMOLOGUES JRNL TITL 2 OF THE THIOL-DISULFIDE OXIDOREDUCTASE DSBA IN JRNL TITL 3 NEISSERIA MENINGITIDIS. JRNL REF J.MOL.BIOL. V. 392 952 2009 JRNL REFN ISSN 0022-2836 JRNL PMID 19631659 JRNL DOI 10.1016/J.JMB.2009.07.056
REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH C.LAFAYE,T.IWEMA,J.L.FERRER,J.S.KROLL,M.GRIAT, REMARK 1 AUTH 2 L.SERRE REMARK 1 TITL PRELIMINARY CRYSTALLOGRAPHIC DATA OF THE THREE REMARK 1 TITL 2 HOMOLOGUES OF THE THIOL-DISULFIDE OXIDOREDUCTASE REMARK 1 TITL 3 DSBA IN NEISSERIA MENINGITIDIS. REMARK 1 REF ACTA CRYSTALLOGR.,SECT.F V. 64 111 2008 REMARK 1 REFN ESSN 1744-3091 REMARK 1 PMID 18259062 REMARK 1 DOI 10.1107/S1744309108000754
REMARK 2 REMARK 2 RESOLUTION. 2.80 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) : 2.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.79 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 11936 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) : 0.230 REMARK 3 R VALUE (WORKING SET) : 0.227 REMARK 3 FREE R VALUE : 0.286 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 610 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) : 2.80 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.87 REMARK 3 REFLECTION IN BIN (WORKING SET) : 852 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.00 REMARK 3 BIN R VALUE (WORKING SET) : 0.3070 REMARK 3 BIN FREE R VALUE SET COUNT : 44 REMARK 3 BIN FREE R VALUE : 0.4220 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2952 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 20 REMARK 3 SOLVENT ATOMS : 23 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 61.00 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 31.55 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.15000 REMARK 3 B22 (A**2) : -0.15000 REMARK 3 B33 (A**2) : 0.29000 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): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.408 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.331 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 16.744 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.907 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.861 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3033 ; 0.008 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 2077 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4098 ; 1.177 ; 1.973 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5066 ; 0.739 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 375 ; 5.946 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 133 ;36.839 ;24.060 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 527 ;20.783 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 16 ;21.509 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 443 ; 0.063 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3349 ; 0.003 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 612 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 878 ; 0.250 ; 0.300 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 2291 ; 0.223 ; 0.300 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1518 ; 0.200 ; 0.500 REMARK 3 NON-BONDED TORSION OTHERS (A): 1671 ; 0.095 ; 0.500 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 144 ; 0.224 ; 0.500 REMARK 3 H-BOND (X...Y) OTHERS (A): 6 ; 0.116 ; 0.500 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): 21 ; 0.218 ; 0.300 REMARK 3 SYMMETRY VDW OTHERS (A): 37 ; 0.244 ; 0.300 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 4 ; 0.180 ; 0.500 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): 1917 ; 0.601 ; 2.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 766 ; 0.079 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2975 ; 1.034 ; 3.000 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1268 ; 0.424 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1123 ; 0.643 ; 3.000 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
REMARK 4 REMARK 4 3DVX COMPLIES WITH FORMAT V. 3.20, 01-DEC-08
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 25-JUL-08. REMARK 100 THE RCSB ID CODE IS RCSB048555.
REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID14-3 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.93100 REMARK 200 MONOCHROMATOR : DIAMOND(111), GE(220) REMARK 200 OPTICS : TOROIDAL MIRROR REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 12602 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.800 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 12.900 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.09900 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 6.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.95 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 13.20 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.27200 REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.700 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: PDB ENTRY 3DVW REMARK 200 REMARK 200 REMARK: NULL
REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 55.53 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.77 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2.2 M AMMONIUM SULFATE, 0.25 M REMARK 280 SODIUM MALONATE, 0.1 M MES PH 5.0, VAPOR DIFFUSION, HANGING REMARK 280 DROP, TEMPERATURE 281K
REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 41 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 3555 -Y,X+1/2,Z+1/4 REMARK 290 4555 Y+1/2,-X,Z+3/4 REMARK 290 5555 -X+1/2,Y,-Z+3/4 REMARK 290 6555 X,-Y+1/2,-Z+1/4 REMARK 290 7555 Y+1/2,X+1/2,-Z+1/2 REMARK 290 8555 -Y,-X,-Z REMARK 290 9555 X+1/2,Y+1/2,Z+1/2 REMARK 290 10555 -X,-Y,Z REMARK 290 11555 -Y+1/2,X,Z+3/4 REMARK 290 12555 Y,-X+1/2,Z+1/4 REMARK 290 13555 -X,Y+1/2,-Z+1/4 REMARK 290 14555 X+1/2,-Y,-Z+3/4 REMARK 290 15555 Y,X,-Z REMARK 290 16555 -Y+1/2,-X+1/2,-Z+1/2 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 79.98950 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 79.98950 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 38.44400 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 79.98950 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 19.22200 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 79.98950 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 57.66600 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 79.98950 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 57.66600 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 79.98950 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 19.22200 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 79.98950 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 79.98950 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 38.44400 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 1.000000 0.000000 0.000000 79.98950 REMARK 290 SMTRY2 9 0.000000 1.000000 0.000000 79.98950 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 38.44400 REMARK 290 SMTRY1 10 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 10 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 11 0.000000 -1.000000 0.000000 79.98950 REMARK 290 SMTRY2 11 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 1.000000 57.66600 REMARK 290 SMTRY1 12 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 12 -1.000000 0.000000 0.000000 79.98950 REMARK 290 SMTRY3 12 0.000000 0.000000 1.000000 19.22200 REMARK 290 SMTRY1 13 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 79.98950 REMARK 290 SMTRY3 13 0.000000 0.000000 -1.000000 19.22200 REMARK 290 SMTRY1 14 1.000000 0.000000 0.000000 79.98950 REMARK 290 SMTRY2 14 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 14 0.000000 0.000000 -1.000000 57.66600 REMARK 290 SMTRY1 15 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 15 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 15 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 16 0.000000 -1.000000 0.000000 79.98950 REMARK 290 SMTRY2 16 -1.000000 0.000000 0.000000 79.98950 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 38.44400 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 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 PRO A 191 REMARK 465 ALA A 192 REMARK 465 VAL A 193 REMARK 465 GLN A 194 REMARK 465 LYS A 195 REMARK 465 GLY B 0 REMARK 465 LYS B 187 REMARK 465 ARG B 188 REMARK 465 GLN B 189 REMARK 465 THR B 190 REMARK 465 PRO B 191 REMARK 465 ALA B 192 REMARK 465 VAL B 193 REMARK 465 GLN B 194 REMARK 465 LYS B 195
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 ALA A 2 CB REMARK 470 SER A 21 OG REMARK 470 SER A 106 OG REMARK 470 SER A 114 OG REMARK 470 ARG A 147 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 188 CG CD NE CZ NH1 NH2 REMARK 470 GLN A 189 CG CD OE1 NE2 REMARK 470 THR A 190 OG1 CG2 REMARK 470 TYR B 1 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 SER B 21 OG REMARK 470 SER B 106 OG REMARK 470 SER B 114 OG REMARK 470 ARG B 147 CG CD NE CZ NH1 NH2
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 7 -64.10 -136.69 REMARK 500 PRO A 66 -45.56 -16.80 REMARK 500 LYS A 116 -8.86 -159.41 REMARK 500 GLN A 189 -145.57 -111.67 REMARK 500 ALA B 2 -165.24 -102.76 REMARK 500 ASP B 13 -76.66 -7.14 REMARK 500 GLN B 20 83.37 -165.12 REMARK 500 VAL B 62 137.10 -31.65 REMARK 500 TRP B 64 -31.79 -134.48 REMARK 500 PRO B 66 -1.94 -39.83 REMARK 500 ASP B 119 -82.12 -50.10 REMARK 500 ASP B 149 26.29 -140.33 REMARK 500 PHE B 164 57.36 -91.36 REMARK 500 ASN B 166 52.06 -140.28 REMARK 500 ARG B 183 -71.94 -38.05 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 196 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 197 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 196 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 197
REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3DVW RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF REDUCED DSBA1 FROM NEISSERIA REMARK 900 MENINGITIDIS
DBREF 3DVX A 1 191 UNP Q9K0Z4 Q9K0Z4_NEIMB 20 214 DBREF 3DVX B 1 195 UNP Q9K0Z4 Q9K0Z4_NEIMB 20 214
SEQADV 3DVX GLY A 0 UNP Q9K0Z4 EXPRESSION TAG SEQADV 3DVX GLY B 0 UNP Q9K0Z4 EXPRESSION TAG
SEQRES 1 A 196 GLY TYR ALA LEU THR GLU GLY GLU ASP TYR LEU VAL LEU SEQRES 2 A 196 ASP LYS PRO ILE PRO GLN GLU GLN SER GLY LYS ILE GLU SEQRES 3 A 196 VAL LEU GLU PHE PHE GLY TYR PHE CYS VAL HIS CYS HIS SEQRES 4 A 196 HIS PHE ASP PRO LEU LEU LEU LYS LEU GLY LYS ALA LEU SEQRES 5 A 196 PRO SER ASP ALA TYR LEU ARG THR GLU HIS VAL VAL TRP SEQRES 6 A 196 GLN PRO GLU MSE LEU GLY LEU ALA ARG MSE ALA ALA ALA SEQRES 7 A 196 VAL ASN LEU SER GLY LEU LYS TYR GLN ALA ASN PRO ALA SEQRES 8 A 196 VAL PHE LYS ALA VAL TYR GLU GLN LYS ILE ARG LEU GLU SEQRES 9 A 196 ASN ARG SER VAL ALA GLY LYS TRP ALA LEU SER GLN LYS SEQRES 10 A 196 GLY PHE ASP GLY LYS LYS LEU MSE ARG ALA TYR ASP SER SEQRES 11 A 196 PRO GLU ALA ALA ALA ALA ALA LEU LYS MSE GLN LYS LEU SEQRES 12 A 196 THR GLU GLN TYR ARG ILE ASP SER THR PRO THR VAL ILE SEQRES 13 A 196 VAL GLY GLY LYS TYR ARG VAL ILE PHE ASN ASN GLY PHE SEQRES 14 A 196 ASP GLY GLY VAL HIS THR ILE LYS GLU LEU VAL ALA LYS SEQRES 15 A 196 VAL ARG GLU GLU ARG LYS ARG GLN THR PRO ALA VAL GLN SEQRES 16 A 196 LYS SEQRES 1 B 196 GLY TYR ALA LEU THR GLU GLY GLU ASP TYR LEU VAL LEU SEQRES 2 B 196 ASP LYS PRO ILE PRO GLN GLU GLN SER GLY LYS ILE GLU SEQRES 3 B 196 VAL LEU GLU PHE PHE GLY TYR PHE CYS VAL HIS CYS HIS SEQRES 4 B 196 HIS PHE ASP PRO LEU LEU LEU LYS LEU GLY LYS ALA LEU SEQRES 5 B 196 PRO SER ASP ALA TYR LEU ARG THR GLU HIS VAL VAL TRP SEQRES 6 B 196 GLN PRO GLU MSE LEU GLY LEU ALA ARG MSE ALA ALA ALA SEQRES 7 B 196 VAL ASN LEU SER GLY LEU LYS TYR GLN ALA ASN PRO ALA SEQRES 8 B 196 VAL PHE LYS ALA VAL TYR GLU GLN LYS ILE ARG LEU GLU SEQRES 9 B 196 ASN ARG SER VAL ALA GLY LYS TRP ALA LEU SER GLN LYS SEQRES 10 B 196 GLY PHE ASP GLY LYS LYS LEU MSE ARG ALA TYR ASP SER SEQRES 11 B 196 PRO GLU ALA ALA ALA ALA ALA LEU LYS MSE GLN LYS LEU SEQRES 12 B 196 THR GLU GLN TYR ARG ILE ASP SER THR PRO THR VAL ILE SEQRES 13 B 196 VAL GLY GLY LYS TYR ARG VAL ILE PHE ASN ASN GLY PHE SEQRES 14 B 196 ASP GLY GLY VAL HIS THR ILE LYS GLU LEU VAL ALA LYS SEQRES 15 B 196 VAL ARG GLU GLU ARG LYS ARG GLN THR PRO ALA VAL GLN SEQRES 16 B 196 LYS
MODRES 3DVX MSE A 68 MET SELENOMETHIONINE MODRES 3DVX MSE A 74 MET SELENOMETHIONINE MODRES 3DVX MSE A 124 MET SELENOMETHIONINE MODRES 3DVX MSE A 139 MET SELENOMETHIONINE MODRES 3DVX MSE B 68 MET SELENOMETHIONINE MODRES 3DVX MSE B 74 MET SELENOMETHIONINE MODRES 3DVX MSE B 124 MET SELENOMETHIONINE MODRES 3DVX MSE B 139 MET SELENOMETHIONINE
HET MSE A 68 8 HET MSE A 74 8 HET MSE A 124 8 HET MSE A 139 8 HET MSE B 68 8 HET MSE B 74 8 HET MSE B 124 8 HET MSE B 139 8 HET SO4 A 196 5 HET SO4 A 197 5 HET SO4 B 196 5 HET SO4 B 197 5
HETNAM MSE SELENOMETHIONINE HETNAM SO4 SULFATE ION
FORMUL 1 MSE 8(C5 H11 N O2 SE) FORMUL 3 SO4 4(O4 S 2-) FORMUL 7 HOH *23(H2 O)
HELIX 1 1 CYS A 34 LEU A 51 1 18 HELIX 2 2 GLN A 65 GLU A 67 5 3 HELIX 3 3 MSE A 68 SER A 81 1 14 HELIX 4 4 LEU A 83 GLU A 97 1 15 HELIX 5 5 ASN A 104 GLN A 115 1 12 HELIX 6 6 ASP A 119 SER A 129 1 11 HELIX 7 7 SER A 129 ARG A 147 1 19 HELIX 8 8 ASN A 166 LYS A 187 1 22 HELIX 9 9 CYS B 34 LEU B 51 1 18 HELIX 10 10 MSE B 68 SER B 81 1 14 HELIX 11 11 LEU B 83 TYR B 96 1 14 HELIX 12 12 ASN B 104 GLN B 115 1 12 HELIX 13 13 GLY B 120 ASP B 128 1 9 HELIX 14 14 SER B 129 ARG B 147 1 19 HELIX 15 15 GLY B 170 ARG B 186 1 17
SHEET 1 A 5 TYR A 9 VAL A 11 0 SHEET 2 A 5 TYR A 160 VAL A 162 -1 O ARG A 161 N LEU A 10 SHEET 3 A 5 THR A 153 VAL A 156 -1 N VAL A 154 O VAL A 162 SHEET 4 A 5 ILE A 24 PHE A 30 -1 N LEU A 27 O ILE A 155 SHEET 5 A 5 ALA A 55 HIS A 61 1 O GLU A 60 N GLU A 28 SHEET 1 B 2 TYR B 9 ILE B 16 0 SHEET 2 B 2 GLY B 158 VAL B 162 -1 O GLY B 158 N ILE B 16 SHEET 1 C 3 ALA B 55 HIS B 61 0 SHEET 2 C 3 ILE B 24 PHE B 30 1 N VAL B 26 O ARG B 58 SHEET 3 C 3 THR B 153 ILE B 155 -1 O ILE B 155 N LEU B 27
LINK C GLU A 67 N MSE A 68 1555 1555 1.33 LINK C MSE A 68 N LEU A 69 1555 1555 1.33 LINK C ARG A 73 N MSE A 74 1555 1555 1.33 LINK C MSE A 74 N ALA A 75 1555 1555 1.33 LINK C LEU A 123 N MSE A 124 1555 1555 1.33 LINK C MSE A 124 N ARG A 125 1555 1555 1.33 LINK C LYS A 138 N MSE A 139 1555 1555 1.33 LINK C MSE A 139 N GLN A 140 1555 1555 1.33 LINK C GLU B 67 N MSE B 68 1555 1555 1.33 LINK C MSE B 68 N LEU B 69 1555 1555 1.33 LINK C ARG B 73 N MSE B 74 1555 1555 1.33 LINK C MSE B 74 N ALA B 75 1555 1555 1.33 LINK C LEU B 123 N MSE B 124 1555 1555 1.33 LINK C MSE B 124 N ARG B 125 1555 1555 1.33 LINK C LYS B 138 N MSE B 139 1555 1555 1.33 LINK C MSE B 139 N GLN B 140 1555 1555 1.33
CISPEP 1 THR A 151 PRO A 152 0 -5.63 CISPEP 2 ALA B 2 LEU B 3 0 9.13 CISPEP 3 THR B 151 PRO B 152 0 0.28 CISPEP 4 GLY B 157 GLY B 158 0 -18.58
SITE 1 AC1 4 GLY A 167 PHE A 168 ASP A 169 HIS B 36 SITE 1 AC2 4 GLU A 103 ARG A 105 LYS A 141 HOH A 213 SITE 1 AC3 4 LYS A 93 GLN A 98 LYS A 116 LYS B 93 SITE 1 AC4 4 HIS A 36 GLY B 167 PHE B 168 ASP B 169
CRYST1 159.979 159.979 76.888 90.00 90.00 90.00 I 41 2 2 32
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 0.006251 0.000000 0.000000 0.00000
SCALE2 0.000000 0.006251 0.000000 0.00000
SCALE3 0.000000 0.000000 0.013006 0.00000