HEADER MEMBRANE PROTEIN 26-APR-08 3CYP TITLE THE CRYSTAL STRUCTURE OF THE C-TERMINAL DOMAIN OF HELICOBACTER PYLORI TITLE 2 MOTB (RESIDUES 125-256). COMPND MOL_ID: 1; COMPND 2 MOLECULE: CHEMOTAXIS PROTEIN MOTB; COMPND 3 CHAIN: B, C, D, E; COMPND 4 FRAGMENT: C-TERMINAL DOMAIN, UNP RESIDUES 126-257; COMPND 5 SYNONYM: MOTILITY PROTEIN B; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HELICOBACTER PYLORI; SOURCE 3 ORGANISM_COMMON: CAMPYLOBACTER PYLORI; SOURCE 4 STRAIN: 26695; SOURCE 5 GENE: MOTB; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PET151-D-TOPO KEYWDS HELICOBACTER PYLORI, BACTERIAL FLAGELLAR MOTOR, PEPTIDOGLYCAN KEYWDS 2 BINDING, BACTERIAL FLAGELLUM, CHEMOTAXIS, FLAGELLAR ROTATION, INNER KEYWDS 3 MEMBRANE, MEMBRANE, TRANSMEMBRANE, MEMBRANE PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR A.ROUJEINIKOVA REVDAT 3 21-FEB-24 3CYP 1 SEQADV REVDAT 2 24-FEB-09 3CYP 1 VERSN REVDAT 1 08-JUL-08 3CYP 0 JRNL AUTH A.ROUJEINIKOVA JRNL TITL CRYSTAL STRUCTURE OF THE CELL WALL ANCHOR DOMAIN OF MOTB, A JRNL TITL 2 STATOR COMPONENT OF THE BACTERIAL FLAGELLAR MOTOR: JRNL TITL 3 IMPLICATIONS FOR PEPTIDOGLYCAN RECOGNITION. JRNL REF PROC.NATL.ACAD.SCI.USA V. 105 10348 2008 JRNL REFN ISSN 0027-8424 JRNL PMID 18647830 JRNL DOI 10.1073/PNAS.0803039105 REMARK 2 REMARK 2 RESOLUTION. 1.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 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) : 1.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.57 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 71888 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) : 0.188 REMARK 3 R VALUE (WORKING SET) : 0.185 REMARK 3 FREE R VALUE : 0.227 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 3630 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) : 1.60 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.64 REMARK 3 REFLECTION IN BIN (WORKING SET) : 5071 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.2390 REMARK 3 BIN FREE R VALUE SET COUNT : 260 REMARK 3 BIN FREE R VALUE : 0.2740 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4250 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 611 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 17.90 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.30000 REMARK 3 B22 (A**2) : 0.46000 REMARK 3 B33 (A**2) : -0.21000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.07000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.097 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.100 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.069 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.932 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.959 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.940 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4458 ; 0.014 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 3029 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6056 ; 1.494 ; 1.945 REMARK 3 BOND ANGLES OTHERS (DEGREES): 7388 ; 0.963 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 552 ; 5.995 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 233 ;39.280 ;24.464 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 778 ;13.969 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 32 ;18.070 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 668 ; 0.093 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5036 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 916 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1078 ; 0.228 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 3398 ; 0.198 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2256 ; 0.185 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 2333 ; 0.088 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 453 ; 0.162 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 23 ; 0.185 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 38 ; 0.231 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 41 ; 0.186 ; 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): 3516 ; 1.448 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1067 ; 0.258 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4453 ; 1.576 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1977 ; 2.544 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1600 ; 3.673 ; 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 : 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: NULL REMARK 4 REMARK 4 3CYP COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 08-MAY-08. REMARK 100 THE DEPOSITION ID IS D_1000047375. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 13-MAY-07 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.4 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SLS REMARK 200 BEAMLINE : X06SA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9 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 : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA 3.2.25 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 71913 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.600 REMARK 200 RESOLUTION RANGE LOW (A) : 61.200 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 200 DATA REDUNDANCY : 3.800 REMARK 200 R MERGE (I) : 0.07100 REMARK 200 R SYM (I) : 0.07100 REMARK 200 FOR THE DATA SET : 5.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.69 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 3.70 REMARK 200 R MERGE FOR SHELL (I) : 0.39800 REMARK 200 R SYM FOR SHELL (I) : 0.39800 REMARK 200 FOR SHELL : 1.900 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL 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 (%): 43.68 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.18 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 100 MM TRIS/HCL, 16-18% PEG 3350, 200 REMARK 280 MM SODIUM TARTRATE, PH 6.4, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 293K 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 44.73950 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, 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 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: D, E 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5720 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 24040 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -24.8 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, C, D, E 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 VAL B 169 REMARK 465 LYS B 170 REMARK 465 THR B 171 REMARK 465 ARG B 172 REMARK 465 HIS B 252 REMARK 465 LYS B 253 REMARK 465 GLN B 254 REMARK 465 GLN B 255 REMARK 465 GLU B 256 REMARK 465 LYS C 253 REMARK 465 GLN C 254 REMARK 465 GLN C 255 REMARK 465 GLU C 256 REMARK 465 PRO D 251 REMARK 465 HIS D 252 REMARK 465 LYS D 253 REMARK 465 GLN D 254 REMARK 465 GLN D 255 REMARK 465 GLU D 256 REMARK 465 PRO E 251 REMARK 465 HIS E 252 REMARK 465 LYS E 253 REMARK 465 GLN E 254 REMARK 465 GLN E 255 REMARK 465 GLU E 256 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 C 170 CG CD CE NZ REMARK 470 LYS D 170 CG CD CE NZ REMARK 470 LYS E 170 CG CD CE NZ 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 OD1 ASN D 197 O HOH D 523 1.97 REMARK 500 CE MET D 222 O HOH D 524 2.01 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 ARG C 172 CA - C - N ANGL. DEV. = 13.5 DEGREES REMARK 500 PHE C 173 C - N - CA ANGL. DEV. = 19.4 DEGREES REMARK 500 PHE C 173 N - CA - CB ANGL. DEV. = 14.6 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 ASN B 215 49.82 -79.39 REMARK 500 PHE C 173 82.88 146.90 REMARK 500 ASN C 215 44.50 -87.17 REMARK 500 ASN C 250 59.84 -141.05 REMARK 500 ASN E 134 153.77 -39.94 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 ARG C 172 PHE C 173 -41.82 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3CYQ RELATED DB: PDB REMARK 900 THE CRYSTAL STRUCTURE OF THE COMPLEX OF THE C-TERMINAL DOMAIN OF REMARK 900 HELICOBACTER PYLORI MOTB (RESIDUES 125-256) WITH N-ACETYLMURAMIC REMARK 900 ACID DBREF 3CYP B 125 256 UNP P56427 MOTB_HELPY 126 257 DBREF 3CYP C 125 256 UNP P56427 MOTB_HELPY 126 257 DBREF 3CYP D 125 256 UNP P56427 MOTB_HELPY 126 257 DBREF 3CYP E 125 256 UNP P56427 MOTB_HELPY 126 257 SEQADV 3CYP GLY B 119 UNP P56427 EXPRESSION TAG SEQADV 3CYP ILE B 120 UNP P56427 EXPRESSION TAG SEQADV 3CYP ASP B 121 UNP P56427 EXPRESSION TAG SEQADV 3CYP PRO B 122 UNP P56427 EXPRESSION TAG SEQADV 3CYP PHE B 123 UNP P56427 EXPRESSION TAG SEQADV 3CYP THR B 124 UNP P56427 EXPRESSION TAG SEQADV 3CYP GLY C 119 UNP P56427 EXPRESSION TAG SEQADV 3CYP ILE C 120 UNP P56427 EXPRESSION TAG SEQADV 3CYP ASP C 121 UNP P56427 EXPRESSION TAG SEQADV 3CYP PRO C 122 UNP P56427 EXPRESSION TAG SEQADV 3CYP PHE C 123 UNP P56427 EXPRESSION TAG SEQADV 3CYP THR C 124 UNP P56427 EXPRESSION TAG SEQADV 3CYP GLY D 119 UNP P56427 EXPRESSION TAG SEQADV 3CYP ILE D 120 UNP P56427 EXPRESSION TAG SEQADV 3CYP ASP D 121 UNP P56427 EXPRESSION TAG SEQADV 3CYP PRO D 122 UNP P56427 EXPRESSION TAG SEQADV 3CYP PHE D 123 UNP P56427 EXPRESSION TAG SEQADV 3CYP THR D 124 UNP P56427 EXPRESSION TAG SEQADV 3CYP GLY E 119 UNP P56427 EXPRESSION TAG SEQADV 3CYP ILE E 120 UNP P56427 EXPRESSION TAG SEQADV 3CYP ASP E 121 UNP P56427 EXPRESSION TAG SEQADV 3CYP PRO E 122 UNP P56427 EXPRESSION TAG SEQADV 3CYP PHE E 123 UNP P56427 EXPRESSION TAG SEQADV 3CYP THR E 124 UNP P56427 EXPRESSION TAG SEQRES 1 B 138 GLY ILE ASP PRO PHE THR PHE GLU ASN ALA THR SER ASP SEQRES 2 B 138 ALA ILE ASN GLN ASP MET MET LEU TYR ILE GLU ARG ILE SEQRES 3 B 138 ALA LYS ILE ILE GLN LYS LEU PRO LYS ARG VAL HIS ILE SEQRES 4 B 138 ASN VAL ARG GLY PHE THR ASP ASP THR PRO LEU VAL LYS SEQRES 5 B 138 THR ARG PHE LYS SER HIS TYR GLU LEU ALA ALA ASN ARG SEQRES 6 B 138 ALA TYR ARG VAL MET LYS VAL LEU ILE GLN TYR GLY VAL SEQRES 7 B 138 ASN PRO ASN GLN LEU SER PHE SER SER TYR GLY SER THR SEQRES 8 B 138 ASN PRO ILE ALA PRO ASN ASP SER LEU GLU ASN ARG MET SEQRES 9 B 138 LYS ASN ASN ARG VAL GLU ILE PHE PHE SER THR ASP ALA SEQRES 10 B 138 ASN ASP LEU SER LYS ILE HIS SER ILE LEU ASP ASN GLU SEQRES 11 B 138 PHE ASN PRO HIS LYS GLN GLN GLU SEQRES 1 C 138 GLY ILE ASP PRO PHE THR PHE GLU ASN ALA THR SER ASP SEQRES 2 C 138 ALA ILE ASN GLN ASP MET MET LEU TYR ILE GLU ARG ILE SEQRES 3 C 138 ALA LYS ILE ILE GLN LYS LEU PRO LYS ARG VAL HIS ILE SEQRES 4 C 138 ASN VAL ARG GLY PHE THR ASP ASP THR PRO LEU VAL LYS SEQRES 5 C 138 THR ARG PHE LYS SER HIS TYR GLU LEU ALA ALA ASN ARG SEQRES 6 C 138 ALA TYR ARG VAL MET LYS VAL LEU ILE GLN TYR GLY VAL SEQRES 7 C 138 ASN PRO ASN GLN LEU SER PHE SER SER TYR GLY SER THR SEQRES 8 C 138 ASN PRO ILE ALA PRO ASN ASP SER LEU GLU ASN ARG MET SEQRES 9 C 138 LYS ASN ASN ARG VAL GLU ILE PHE PHE SER THR ASP ALA SEQRES 10 C 138 ASN ASP LEU SER LYS ILE HIS SER ILE LEU ASP ASN GLU SEQRES 11 C 138 PHE ASN PRO HIS LYS GLN GLN GLU SEQRES 1 D 138 GLY ILE ASP PRO PHE THR PHE GLU ASN ALA THR SER ASP SEQRES 2 D 138 ALA ILE ASN GLN ASP MET MET LEU TYR ILE GLU ARG ILE SEQRES 3 D 138 ALA LYS ILE ILE GLN LYS LEU PRO LYS ARG VAL HIS ILE SEQRES 4 D 138 ASN VAL ARG GLY PHE THR ASP ASP THR PRO LEU VAL LYS SEQRES 5 D 138 THR ARG PHE LYS SER HIS TYR GLU LEU ALA ALA ASN ARG SEQRES 6 D 138 ALA TYR ARG VAL MET LYS VAL LEU ILE GLN TYR GLY VAL SEQRES 7 D 138 ASN PRO ASN GLN LEU SER PHE SER SER TYR GLY SER THR SEQRES 8 D 138 ASN PRO ILE ALA PRO ASN ASP SER LEU GLU ASN ARG MET SEQRES 9 D 138 LYS ASN ASN ARG VAL GLU ILE PHE PHE SER THR ASP ALA SEQRES 10 D 138 ASN ASP LEU SER LYS ILE HIS SER ILE LEU ASP ASN GLU SEQRES 11 D 138 PHE ASN PRO HIS LYS GLN GLN GLU SEQRES 1 E 138 GLY ILE ASP PRO PHE THR PHE GLU ASN ALA THR SER ASP SEQRES 2 E 138 ALA ILE ASN GLN ASP MET MET LEU TYR ILE GLU ARG ILE SEQRES 3 E 138 ALA LYS ILE ILE GLN LYS LEU PRO LYS ARG VAL HIS ILE SEQRES 4 E 138 ASN VAL ARG GLY PHE THR ASP ASP THR PRO LEU VAL LYS SEQRES 5 E 138 THR ARG PHE LYS SER HIS TYR GLU LEU ALA ALA ASN ARG SEQRES 6 E 138 ALA TYR ARG VAL MET LYS VAL LEU ILE GLN TYR GLY VAL SEQRES 7 E 138 ASN PRO ASN GLN LEU SER PHE SER SER TYR GLY SER THR SEQRES 8 E 138 ASN PRO ILE ALA PRO ASN ASP SER LEU GLU ASN ARG MET SEQRES 9 E 138 LYS ASN ASN ARG VAL GLU ILE PHE PHE SER THR ASP ALA SEQRES 10 E 138 ASN ASP LEU SER LYS ILE HIS SER ILE LEU ASP ASN GLU SEQRES 11 E 138 PHE ASN PRO HIS LYS GLN GLN GLU FORMUL 5 HOH *611(H2 O) HELIX 1 1 ASN B 134 GLN B 149 1 16 HELIX 2 2 SER B 175 TYR B 194 1 20 HELIX 3 3 ASN B 197 ASN B 199 5 3 HELIX 4 4 SER B 217 ASN B 225 1 9 HELIX 5 5 ALA B 235 ASN B 250 1 16 HELIX 6 6 ASN C 134 GLN C 149 1 16 HELIX 7 7 SER C 175 TYR C 194 1 20 HELIX 8 8 ASN C 197 ASN C 199 5 3 HELIX 9 9 SER C 217 ASN C 224 1 8 HELIX 10 10 ALA C 235 ASN C 250 1 16 HELIX 11 11 ASN D 134 LEU D 151 1 18 HELIX 12 12 SER D 175 TYR D 194 1 20 HELIX 13 13 ASN D 197 ASN D 199 5 3 HELIX 14 14 SER D 217 ASN D 225 1 9 HELIX 15 15 ALA D 235 ASN D 250 1 16 HELIX 16 16 ASN E 134 GLN E 149 1 16 HELIX 17 17 SER E 175 TYR E 194 1 20 HELIX 18 18 ASN E 197 ASN E 199 5 3 HELIX 19 19 SER E 217 ASN E 225 1 9 HELIX 20 20 ALA E 235 ASN E 250 1 16 SHEET 1 A 4 PHE B 123 THR B 124 0 SHEET 2 A 4 ARG B 226 ASP B 234 -1 O VAL B 227 N PHE B 123 SHEET 3 A 4 ARG E 226 ASP E 234 -1 O PHE E 231 N THR B 233 SHEET 4 A 4 PHE E 123 THR E 124 -1 N PHE E 123 O VAL E 227 SHEET 1 B 6 LEU B 201 SER B 205 0 SHEET 2 B 6 HIS B 156 PHE B 162 1 N GLY B 161 O SER B 204 SHEET 3 B 6 ARG B 226 ASP B 234 -1 O GLU B 228 N ARG B 160 SHEET 4 B 6 ARG E 226 ASP E 234 -1 O PHE E 231 N THR B 233 SHEET 5 B 6 HIS E 156 PHE E 162 -1 N ASN E 158 O PHE E 230 SHEET 6 B 6 LEU E 201 SER E 205 1 O SER E 202 N VAL E 159 SHEET 1 C 4 PHE C 123 THR C 124 0 SHEET 2 C 4 ARG C 226 ASP C 234 -1 O VAL C 227 N PHE C 123 SHEET 3 C 4 ARG D 226 ASP D 234 -1 O THR D 233 N PHE C 231 SHEET 4 C 4 PHE D 123 THR D 124 -1 N PHE D 123 O VAL D 227 SHEET 1 D 6 LEU C 201 SER C 205 0 SHEET 2 D 6 HIS C 156 PHE C 162 1 N GLY C 161 O SER C 204 SHEET 3 D 6 ARG C 226 ASP C 234 -1 O SER C 232 N HIS C 156 SHEET 4 D 6 ARG D 226 ASP D 234 -1 O THR D 233 N PHE C 231 SHEET 5 D 6 HIS D 156 PHE D 162 -1 N HIS D 156 O SER D 232 SHEET 6 D 6 LEU D 201 SER D 205 1 O SER D 202 N VAL D 159 CRYST1 50.816 89.479 66.322 90.00 112.55 90.00 P 1 21 1 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 0.019679 0.000000 0.008173 0.00000 SCALE2 0.000000 0.011176 0.000000 0.00000 SCALE3 0.000000 0.000000 0.016327 0.00000