HEADER CELL INVASION 21-JUL-15 5CPC TITLE CRYSTAL STRUCTURE OF SOPD, A TYPE III SECRETED VIRULENCE EFFECTOR FROM TITLE 2 SALMONELLA ENTERICA COMPND MOL_ID: 1; COMPND 2 MOLECULE: SECRETED EFFECTOR PROTEIN SOPD; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: SALMONELLA OUTER PROTEIN D; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SALMONELLA TYPHIMURIUM (STRAIN LT2 / SGSC1412 / SOURCE 3 ATCC 700720); SOURCE 4 ORGANISM_TAXID: 99287; SOURCE 5 STRAIN: LT2 / SGSC1412 / ATCC 700720; SOURCE 6 GENE: SOPD, STM2945; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: PET15B KEYWDS T3SS EFFECTOR PROTEIN, STRUCTURAL GENOMICS, MONTREAL-KINGSTON KEYWDS 2 BACTERIAL STRUCTURAL GENOMICS INITIATIVE, BSGI, CELL INVASION EXPDTA X-RAY DIFFRACTION AUTHOR R.SHI,M.CYGLER,MONTREAL-KINGSTON BACTERIAL STRUCTURAL GENOMICS AUTHOR 2 INITIATIVE (BSGI) REVDAT 5 06-MAR-24 5CPC 1 REMARK REVDAT 4 08-JAN-20 5CPC 1 REMARK REVDAT 3 13-SEP-17 5CPC 1 REMARK REVDAT 2 16-SEP-15 5CPC 1 JRNL REVDAT 1 09-SEP-15 5CPC 0 JRNL AUTH V.M.D'COSTA,V.BRAUN,M.LANDEKIC,R.SHI,A.PROTEAU,L.MCDONALD, JRNL AUTH 2 M.CYGLER,S.GRINSTEIN,J.H.BRUMELL JRNL TITL SALMONELLA DISRUPTS HOST ENDOCYTIC TRAFFICKING BY JRNL TITL 2 SOPD2-MEDIATED INHIBITION OF RAB7. JRNL REF CELL REP V. 12 1508 2015 JRNL REFN ESSN 2211-1247 JRNL PMID 26299973 JRNL DOI 10.1016/J.CELREP.2015.07.063 REMARK 2 REMARK 2 RESOLUTION. 2.15 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0109 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.15 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.8 REMARK 3 NUMBER OF REFLECTIONS : 35455 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) : 0.214 REMARK 3 R VALUE (WORKING SET) : 0.212 REMARK 3 FREE R VALUE : 0.243 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1867 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) : 2.15 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.20 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2540 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 96.89 REMARK 3 BIN R VALUE (WORKING SET) : 0.2670 REMARK 3 BIN FREE R VALUE SET COUNT : 141 REMARK 3 BIN FREE R VALUE : 0.3550 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4473 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 109 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 55.80 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.28000 REMARK 3 B22 (A**2) : -0.66000 REMARK 3 B33 (A**2) : -0.96000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.64000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.240 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.192 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.162 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 14.162 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.955 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.941 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4570 ; 0.023 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6170 ; 1.969 ; 1.947 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 559 ; 7.046 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 211 ;37.997 ;25.024 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 841 ;19.842 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 16 ;18.122 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 689 ; 0.141 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3397 ; 0.010 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL 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): 2801 ; 1.066 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4526 ; 1.975 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1769 ; 3.239 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1643 ; 4.895 ; 4.500 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 30 A 317 REMARK 3 ORIGIN FOR THE GROUP (A): -0.3110 0.2397 13.4473 REMARK 3 T TENSOR REMARK 3 T11: 0.1726 T22: 0.1461 REMARK 3 T33: 0.1153 T12: -0.0749 REMARK 3 T13: 0.0197 T23: -0.0567 REMARK 3 L TENSOR REMARK 3 L11: 0.2191 L22: 0.0394 REMARK 3 L33: 4.0185 L12: 0.0510 REMARK 3 L13: 0.7642 L23: 0.2813 REMARK 3 S TENSOR REMARK 3 S11: -0.0897 S12: 0.0488 S13: -0.0253 REMARK 3 S21: 0.0066 S22: 0.0514 S23: -0.0288 REMARK 3 S31: 0.0736 S32: 0.0725 S33: 0.0382 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 : B 30 B 317 REMARK 3 ORIGIN FOR THE GROUP (A): -20.8586 -16.4093 40.8077 REMARK 3 T TENSOR REMARK 3 T11: 0.0547 T22: 0.0664 REMARK 3 T33: 0.1425 T12: -0.0079 REMARK 3 T13: -0.0230 T23: 0.0265 REMARK 3 L TENSOR REMARK 3 L11: 0.4098 L22: 2.9831 REMARK 3 L33: 2.9124 L12: -0.1436 REMARK 3 L13: -0.4343 L23: 2.1821 REMARK 3 S TENSOR REMARK 3 S11: 0.0067 S12: -0.1273 S13: -0.1064 REMARK 3 S21: 0.1470 S22: 0.0513 S23: -0.2936 REMARK 3 S31: 0.3109 S32: 0.1097 S33: -0.0580 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: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS U VALUES : RESIDUAL ONLY REMARK 4 REMARK 4 5CPC COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 27-JUL-15. REMARK 100 THE DEPOSITION ID IS D_1000212004. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 10-JUL-11 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 31-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9793 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MAR CCD 165 MM REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 37360 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.150 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.0 REMARK 200 DATA REDUNDANCY : 7.500 REMARK 200 R MERGE (I) : 0.06400 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 17.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.15 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.23 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 7.60 REMARK 200 R MERGE FOR SHELL (I) : 0.52100 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD 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 (%): 49.15 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.42 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M HEPES PH 7, 20% PEG 6000, PH 7.0, REMARK 280 MICROBATCH, TEMPERATURE 295K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 51.37150 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 MET A 1 REMARK 465 PRO A 2 REMARK 465 VAL A 3 REMARK 465 THR A 4 REMARK 465 LEU A 5 REMARK 465 SER A 6 REMARK 465 PHE A 7 REMARK 465 GLY A 8 REMARK 465 ASN A 9 REMARK 465 HIS A 10 REMARK 465 GLN A 11 REMARK 465 ASN A 12 REMARK 465 TYR A 13 REMARK 465 THR A 14 REMARK 465 LEU A 15 REMARK 465 ASN A 16 REMARK 465 GLU A 17 REMARK 465 SER A 18 REMARK 465 ARG A 19 REMARK 465 LEU A 20 REMARK 465 ALA A 21 REMARK 465 HIS A 22 REMARK 465 LEU A 23 REMARK 465 LEU A 24 REMARK 465 SER A 25 REMARK 465 ALA A 26 REMARK 465 ASP A 27 REMARK 465 LYS A 28 REMARK 465 GLU A 29 REMARK 465 GLY A 62 REMARK 465 GLN A 63 REMARK 465 GLY A 64 REMARK 465 ARG A 65 REMARK 465 GLY A 66 REMARK 465 GLU A 67 REMARK 465 PRO A 68 REMARK 465 MET B 1 REMARK 465 PRO B 2 REMARK 465 VAL B 3 REMARK 465 THR B 4 REMARK 465 LEU B 5 REMARK 465 SER B 6 REMARK 465 PHE B 7 REMARK 465 GLY B 8 REMARK 465 ASN B 9 REMARK 465 HIS B 10 REMARK 465 GLN B 11 REMARK 465 ASN B 12 REMARK 465 TYR B 13 REMARK 465 THR B 14 REMARK 465 LEU B 15 REMARK 465 ASN B 16 REMARK 465 GLU B 17 REMARK 465 SER B 18 REMARK 465 ARG B 19 REMARK 465 LEU B 20 REMARK 465 ALA B 21 REMARK 465 HIS B 22 REMARK 465 LEU B 23 REMARK 465 LEU B 24 REMARK 465 SER B 25 REMARK 465 ALA B 26 REMARK 465 ASP B 27 REMARK 465 LYS B 28 REMARK 465 GLU B 29 REMARK 465 GLY B 62 REMARK 465 GLN B 63 REMARK 465 GLY B 64 REMARK 465 ARG B 65 REMARK 465 GLY B 66 REMARK 465 GLU B 67 REMARK 465 PRO B 68 REMARK 465 GLY B 69 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 GLU A 70 CG CD OE1 OE2 REMARK 470 GLU A 76 CG CD OE1 OE2 REMARK 470 ASP A 97 CG OD1 OD2 REMARK 470 GLU A 142 CG CD OE1 OE2 REMARK 470 PHE A 263 CG CD1 CD2 CE1 CE2 CZ REMARK 470 GLU B 70 CG CD OE1 OE2 REMARK 470 GLU B 72 CG CD OE1 OE2 REMARK 470 GLU B 76 CG CD OE1 OE2 REMARK 470 GLU B 262 CG CD OE1 OE2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (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: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 CYS B 92 CB CYS B 92 SG 0.124 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (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: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 MET A 190 CG - SD - CE ANGL. DEV. = -18.7 DEGREES REMARK 500 MET B 113 CA - CB - CG ANGL. DEV. = -13.3 DEGREES REMARK 500 ARG B 141 NE - CZ - NH2 ANGL. DEV. = -3.0 DEGREES REMARK 500 MET B 190 CG - SD - CE ANGL. DEV. = -12.4 DEGREES 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 ASP A 132 -67.11 46.01 REMARK 500 GLU A 167 -76.36 -53.48 REMARK 500 PRO A 196 -19.77 -49.17 REMARK 500 HIS A 198 126.85 -38.20 REMARK 500 ASN A 219 45.43 -154.77 REMARK 500 GLN A 238 55.18 38.90 REMARK 500 MET B 34 119.11 -31.46 REMARK 500 ASN B 74 76.92 -110.07 REMARK 500 ASP B 132 -47.27 -12.24 REMARK 500 PRO B 196 -35.90 -39.66 REMARK 500 HIS B 198 130.73 -33.68 REMARK 500 PHE B 263 -7.24 -147.51 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 SER A 131 ASP A 132 148.16 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5CQ9 RELATED DB: PDB DBREF 5CPC A 1 317 UNP P40722 SOPD_SALTY 1 317 DBREF 5CPC B 1 317 UNP P40722 SOPD_SALTY 1 317 SEQRES 1 A 317 MET PRO VAL THR LEU SER PHE GLY ASN HIS GLN ASN TYR SEQRES 2 A 317 THR LEU ASN GLU SER ARG LEU ALA HIS LEU LEU SER ALA SEQRES 3 A 317 ASP LYS GLU LYS ALA ILE HIS MET GLY GLY TRP ASP LYS SEQRES 4 A 317 VAL GLN ASP HIS PHE ARG ALA GLU LYS LYS ASP HIS ALA SEQRES 5 A 317 LEU GLU VAL LEU HIS SER ILE ILE HIS GLY GLN GLY ARG SEQRES 6 A 317 GLY GLU PRO GLY GLU MET GLU VAL ASN VAL GLU ASP ILE SEQRES 7 A 317 ASN LYS ILE TYR ALA PHE LYS ARG LEU GLN HIS LEU ALA SEQRES 8 A 317 CYS PRO ALA HIS GLN ASP LEU PHE THR ILE LYS MET ASP SEQRES 9 A 317 ALA SER GLN THR GLN PHE LEU LEU MET VAL GLY ASP THR SEQRES 10 A 317 VAL ILE SER GLN SER ASN ILE LYS ASP ILE LEU ASN ILE SEQRES 11 A 317 SER ASP ASP ALA VAL ILE GLU SER MET SER ARG GLU GLU SEQRES 12 A 317 ARG GLN LEU PHE LEU GLN ILE CYS GLU VAL ILE GLY SER SEQRES 13 A 317 LYS MET THR TRP HIS PRO GLU LEU LEU GLN GLU SER ILE SEQRES 14 A 317 SER THR LEU ARG LYS GLU VAL THR GLY ASN ALA GLN ILE SEQRES 15 A 317 LYS THR ALA VAL TYR GLU MET MET ARG PRO ALA GLU ALA SEQRES 16 A 317 PRO ASP HIS PRO LEU VAL GLU TRP GLN ASP SER LEU THR SEQRES 17 A 317 ALA ASP GLU LYS SER MET LEU ALA CYS ILE ASN ALA GLY SEQRES 18 A 317 ASN PHE GLU PRO THR THR GLN PHE CYS LYS ILE GLY TYR SEQRES 19 A 317 GLN GLU VAL GLN GLY GLU VAL ALA PHE SER MET MET HIS SEQRES 20 A 317 PRO CYS ILE SER TYR LEU LEU HIS SER TYR SER PRO PHE SEQRES 21 A 317 SER GLU PHE LYS PRO THR ASN SER GLY PHE LEU LYS LYS SEQRES 22 A 317 LEU ASN GLN ASP TYR ASN ASP TYR HIS ALA LYS LYS MET SEQRES 23 A 317 PHE ILE ASP VAL ILE LEU GLU LYS LEU TYR LEU THR HIS SEQRES 24 A 317 GLU ARG SER LEU HIS ILE GLY LYS ASP GLY CYS SER ARG SEQRES 25 A 317 ASN ILE LEU LEU THR SEQRES 1 B 317 MET PRO VAL THR LEU SER PHE GLY ASN HIS GLN ASN TYR SEQRES 2 B 317 THR LEU ASN GLU SER ARG LEU ALA HIS LEU LEU SER ALA SEQRES 3 B 317 ASP LYS GLU LYS ALA ILE HIS MET GLY GLY TRP ASP LYS SEQRES 4 B 317 VAL GLN ASP HIS PHE ARG ALA GLU LYS LYS ASP HIS ALA SEQRES 5 B 317 LEU GLU VAL LEU HIS SER ILE ILE HIS GLY GLN GLY ARG SEQRES 6 B 317 GLY GLU PRO GLY GLU MET GLU VAL ASN VAL GLU ASP ILE SEQRES 7 B 317 ASN LYS ILE TYR ALA PHE LYS ARG LEU GLN HIS LEU ALA SEQRES 8 B 317 CYS PRO ALA HIS GLN ASP LEU PHE THR ILE LYS MET ASP SEQRES 9 B 317 ALA SER GLN THR GLN PHE LEU LEU MET VAL GLY ASP THR SEQRES 10 B 317 VAL ILE SER GLN SER ASN ILE LYS ASP ILE LEU ASN ILE SEQRES 11 B 317 SER ASP ASP ALA VAL ILE GLU SER MET SER ARG GLU GLU SEQRES 12 B 317 ARG GLN LEU PHE LEU GLN ILE CYS GLU VAL ILE GLY SER SEQRES 13 B 317 LYS MET THR TRP HIS PRO GLU LEU LEU GLN GLU SER ILE SEQRES 14 B 317 SER THR LEU ARG LYS GLU VAL THR GLY ASN ALA GLN ILE SEQRES 15 B 317 LYS THR ALA VAL TYR GLU MET MET ARG PRO ALA GLU ALA SEQRES 16 B 317 PRO ASP HIS PRO LEU VAL GLU TRP GLN ASP SER LEU THR SEQRES 17 B 317 ALA ASP GLU LYS SER MET LEU ALA CYS ILE ASN ALA GLY SEQRES 18 B 317 ASN PHE GLU PRO THR THR GLN PHE CYS LYS ILE GLY TYR SEQRES 19 B 317 GLN GLU VAL GLN GLY GLU VAL ALA PHE SER MET MET HIS SEQRES 20 B 317 PRO CYS ILE SER TYR LEU LEU HIS SER TYR SER PRO PHE SEQRES 21 B 317 SER GLU PHE LYS PRO THR ASN SER GLY PHE LEU LYS LYS SEQRES 22 B 317 LEU ASN GLN ASP TYR ASN ASP TYR HIS ALA LYS LYS MET SEQRES 23 B 317 PHE ILE ASP VAL ILE LEU GLU LYS LEU TYR LEU THR HIS SEQRES 24 B 317 GLU ARG SER LEU HIS ILE GLY LYS ASP GLY CYS SER ARG SEQRES 25 B 317 ASN ILE LEU LEU THR FORMUL 3 HOH *109(H2 O) HELIX 1 AA1 HIS A 33 GLY A 35 5 3 HELIX 2 AA2 GLY A 36 GLN A 41 1 6 HELIX 3 AA3 ASP A 42 PHE A 44 5 3 HELIX 4 AA4 ARG A 45 GLU A 47 5 3 HELIX 5 AA5 LYS A 48 HIS A 61 1 14 HELIX 6 AA6 VAL A 75 ALA A 91 1 17 HELIX 7 AA7 CYS A 92 ASP A 97 5 6 HELIX 8 AA8 ILE A 124 LEU A 128 1 5 HELIX 9 AA9 SER A 140 HIS A 161 1 22 HELIX 10 AB1 PRO A 162 SER A 168 1 7 HELIX 11 AB2 SER A 168 GLY A 178 1 11 HELIX 12 AB3 ASN A 179 ARG A 191 1 13 HELIX 13 AB4 THR A 208 ALA A 216 1 9 HELIX 14 AB5 CYS A 217 ALA A 220 5 4 HELIX 15 AB6 HIS A 247 SER A 256 1 10 HELIX 16 AB7 PHE A 263 LYS A 284 1 22 HELIX 17 AB8 LYS A 284 HIS A 299 1 16 HELIX 18 AB9 HIS B 33 GLY B 35 5 3 HELIX 19 AC1 GLY B 36 GLN B 41 1 6 HELIX 20 AC2 ASP B 42 PHE B 44 5 3 HELIX 21 AC3 ARG B 45 GLU B 47 5 3 HELIX 22 AC4 LYS B 48 HIS B 61 1 14 HELIX 23 AC5 VAL B 75 ALA B 91 1 17 HELIX 24 AC6 CYS B 92 ASP B 97 5 6 HELIX 25 AC7 ILE B 124 LEU B 128 1 5 HELIX 26 AC8 SER B 140 HIS B 161 1 22 HELIX 27 AC9 HIS B 161 SER B 168 1 8 HELIX 28 AD1 SER B 168 GLY B 178 1 11 HELIX 29 AD2 ASN B 179 ARG B 191 1 13 HELIX 30 AD3 THR B 208 ALA B 216 1 9 HELIX 31 AD4 CYS B 217 ALA B 220 5 4 HELIX 32 AD5 HIS B 247 SER B 256 1 10 HELIX 33 AD6 PHE B 263 LYS B 284 1 22 HELIX 34 AD7 LYS B 284 HIS B 299 1 16 SHEET 1 AA1 3 PHE A 99 MET A 103 0 SHEET 2 AA1 3 GLN A 109 VAL A 114 -1 O LEU A 111 N LYS A 102 SHEET 3 AA1 3 THR A 117 ASN A 123 -1 O THR A 117 N VAL A 114 SHEET 1 AA2 2 VAL A 201 GLU A 202 0 SHEET 2 AA2 2 ILE A 305 GLY A 306 1 O GLY A 306 N VAL A 201 SHEET 1 AA3 2 ILE A 232 VAL A 237 0 SHEET 2 AA3 2 GLU A 240 MET A 245 -1 O GLU A 240 N VAL A 237 SHEET 1 AA4 3 PHE B 99 MET B 103 0 SHEET 2 AA4 3 GLN B 109 VAL B 114 -1 O MET B 113 N THR B 100 SHEET 3 AA4 3 THR B 117 ASN B 123 -1 O SER B 122 N PHE B 110 SHEET 1 AA5 2 VAL B 201 GLU B 202 0 SHEET 2 AA5 2 ILE B 305 GLY B 306 1 O GLY B 306 N VAL B 201 SHEET 1 AA6 2 ILE B 232 VAL B 237 0 SHEET 2 AA6 2 GLU B 240 MET B 245 -1 O SER B 244 N GLY B 233 CRYST1 46.525 102.743 76.018 90.00 105.53 90.00 P 1 21 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 0.021494 0.000000 0.005974 0.00000 SCALE2 0.000000 0.009733 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013653 0.00000