HEADER ISOMERASE 08-JUL-06 2IXL TITLE RMLC S. SUIS WITH DTDP-RHAMNOSE COMPND MOL_ID: 1; COMPND 2 MOLECULE: DTDP-4-DEHYDRORHAMNOSE 3,5-EPIMERASE; COMPND 3 CHAIN: A, B, C, D; COMPND 4 SYNONYM: RMLC; COMPND 5 EC: 5.1.3.13; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STREPTOCOCCUS SUIS; SOURCE 3 ORGANISM_TAXID: 1307; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS EPIMERISE, EPIMERASE, ISOMERASE, EPIMERIZE EXPDTA X-RAY DIFFRACTION AUTHOR C.DONG,J.H.NAISMITH REVDAT 3 24-FEB-09 2IXL 1 VERSN REVDAT 2 06-DEC-06 2IXL 1 JRNL REVDAT 1 26-OCT-06 2IXL 0 JRNL AUTH C.DONG,L.L.MAJOR,V.SRIKANNATHASAN,J.C.ERREY, JRNL AUTH 2 M.F.GIRAUD,J.S.LAM,M.GRANINGER,P.MESSNER, JRNL AUTH 3 M.R.MCNEIL,R.A.FIELD,C.WHITFIELD,J.H.NAISMITH JRNL TITL RMLC, A C3' AND C5' CARBOHYDRATE EPIMERASE, JRNL TITL 2 APPEARS TO OPERATE VIA AN INTERMEDIATE WITH AN JRNL TITL 3 UNUSUAL TWIST BOAT CONFORMATION. JRNL REF J.MOL.BIOL. V. 365 146 2007 JRNL REFN ISSN 0022-2836 JRNL PMID 17046787 JRNL DOI 10.1016/J.JMB.2006.09.063 REMARK 2 REMARK 2 RESOLUTION. 1.6 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) : 1.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 42.68 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.1 REMARK 3 NUMBER OF REFLECTIONS : 94560 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) : 0.169 REMARK 3 R VALUE (WORKING SET) : 0.167 REMARK 3 FREE R VALUE : 0.212 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 4973 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) : 6386 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 90.41 REMARK 3 BIN R VALUE (WORKING SET) : 0.1780 REMARK 3 BIN FREE R VALUE SET COUNT : 311 REMARK 3 BIN FREE R VALUE : 0.2740 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6337 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 142 REMARK 3 SOLVENT ATOMS : 1475 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 17.17 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.02000 REMARK 3 B22 (A**2) : -0.06000 REMARK 3 B33 (A**2) : 0.05000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.11000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.160 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.100 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.058 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.498 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.960 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): 6665 ; 0.012 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 9064 ; 1.300 ; 1.974 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 780 ; 6.248 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 336 ;34.575 ;24.762 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1066 ;12.608 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 28 ;18.563 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 951 ; 0.098 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5144 ; 0.005 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 2705 ; 0.207 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 4360 ; 0.304 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 928 ; 0.126 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 1 ; 0.006 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 81 ; 0.196 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 131 ; 0.127 ; 0.200 REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): 1 ; 0.726 ; 0.200 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): 4051 ; 0.856 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 6279 ; 1.222 ; 2.000 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 3092 ; 1.820 ; 3.000 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 2785 ; 2.524 ; 4.500 REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): 7143 ; 1.240 ; 3.000 REMARK 3 SPHERICITY; FREE ATOMS (A**2): 1477 ; 2.919 ; 3.000 REMARK 3 SPHERICITY; BONDED ATOMS (A**2): 6477 ; 1.511 ; 3.000 REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : 3 REMARK 3 REMARK 3 NCS GROUP NUMBER : 1 REMARK 3 CHAIN NAMES : A B REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 5 A 190 4 REMARK 3 1 B 5 B 190 4 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 MEDIUM POSITIONAL 1 A (A): 1500 ; 0.33 ; 0.50 REMARK 3 MEDIUM THERMAL 1 A (A**2): 1500 ; 0.67 ; 2.00 REMARK 3 REMARK 3 NCS GROUP NUMBER : 2 REMARK 3 CHAIN NAMES : A C REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 5 A 190 4 REMARK 3 1 C 5 C 190 4 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 MEDIUM POSITIONAL 2 A (A): 1500 ; 0.67 ; 0.50 REMARK 3 MEDIUM THERMAL 2 A (A**2): 1500 ; 0.69 ; 2.00 REMARK 3 REMARK 3 NCS GROUP NUMBER : 3 REMARK 3 CHAIN NAMES : A D REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 5 A 190 4 REMARK 3 1 D 5 D 190 4 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 MEDIUM POSITIONAL 3 A (A): 1500 ; 0.41 ; 0.50 REMARK 3 MEDIUM THERMAL 3 A (A**2): 1500 ; 0.71 ; 2.00 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: HYDROGENS HAVE BEEN ADDED IN THE REMARK 3 RIDING POSITIONS REMARK 4 REMARK 4 2IXL COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 10-JUL-06. REMARK 100 THE PDBE ID CODE IS EBI-29328. 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 : SRS REMARK 200 BEAMLINE : PX9.6 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.87 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : CCP4 (SCALA) REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 99569 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.600 REMARK 200 RESOLUTION RANGE LOW (A) : 43.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.0 REMARK 200 DATA REDUNDANCY : 4.900 REMARK 200 R MERGE (I) : 0.07000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 6.6000 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) : 1.70 REMARK 200 COMPLETENESS FOR SHELL (%) : 95.0 REMARK 200 DATA REDUNDANCY IN SHELL : 4.00 REMARK 200 R MERGE FOR SHELL (I) : 0.25000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.800 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): NULL REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA):NULL REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NULL 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 70.76300 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 GENERATING THE BIOMOLECULE 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PQS REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PQS REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, 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 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 MET B 1 REMARK 465 THR B 2 REMARK 465 MET D 1 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 MET C 1 - O HOH C 2001 2.13 REMARK 500 REMARK 500 REMARK: NULL 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 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 3 -81.87 106.63 REMARK 500 PHE A 5 -53.25 -137.43 REMARK 500 ASN A 70 -12.42 78.73 REMARK 500 ASP A 114 -169.42 -125.93 REMARK 500 ASN A 170 80.70 -150.06 REMARK 500 LYS A 194 89.10 -28.18 REMARK 500 GLU A 195 60.26 34.77 REMARK 500 ASP A 196 -12.39 60.65 REMARK 500 PHE B 5 -52.92 -124.31 REMARK 500 ASN B 70 -9.27 79.99 REMARK 500 PHE C 5 -60.58 -103.91 REMARK 500 ASN C 70 -8.76 81.07 REMARK 500 LEU C 171 -45.59 -26.05 REMARK 500 ASN D 70 -7.98 77.54 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 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 NI A1199 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 52 OE1 REMARK 620 2 HOH A2135 O 93.1 REMARK 620 3 HOH A2142 O 92.8 94.8 REMARK 620 4 GLU C 52 OE2 80.4 164.5 99.5 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NI C1199 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A2142 O REMARK 620 2 GLU A 52 OE1 82.9 REMARK 620 3 HOH A2135 O 79.3 93.9 REMARK 620 4 GLU C 52 OE2 87.9 86.3 167.1 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NI A1199 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NI C1199 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TRH A1198 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TRH B1198 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TRH C1198 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE TRH D1198 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1NXM RELATED DB: PDB REMARK 900 THE HIGH RESOLUTION STRUCTURES OF RMLC FROM REMARK 900 STREPTOCOCCUSSUIS REMARK 900 RELATED ID: 1NYW RELATED DB: PDB REMARK 900 THE HIGH RESOLUTION STRUCTURES OF RMLC FROM REMARK 900 STREPTOCCUSSUIS IN COMPLEX WITH DTDP-D- REMARK 900 GLUCOSE REMARK 900 RELATED ID: 1NZC RELATED DB: PDB REMARK 900 THE HIGH RESOLUTION STRUCTURES OF RMLC FROM REMARK 900 STREPTOCOCCUSSUIS IN COMPLEX WITH DTDP-D- REMARK 900 XYLOSE DBREF 2IXL A 1 197 UNP Q8GIQ0 Q8GIQ0_STRSU 1 197 DBREF 2IXL B 1 197 UNP Q8GIQ0 Q8GIQ0_STRSU 1 197 DBREF 2IXL C 1 197 UNP Q8GIQ0 Q8GIQ0_STRSU 1 197 DBREF 2IXL D 1 197 UNP Q8GIQ0 Q8GIQ0_STRSU 1 197 SEQRES 1 A 197 MET THR GLU ASN PHE PHE GLY LYS THR LEU ALA ALA ARG SEQRES 2 A 197 PRO VAL GLU ALA ILE PRO GLY MET LEU GLU PHE ASP ILE SEQRES 3 A 197 PRO VAL HIS GLY ASP ASN ARG GLY TRP PHE LYS GLU ASN SEQRES 4 A 197 PHE GLN LYS GLU LYS MET LEU PRO LEU GLY PHE PRO GLU SEQRES 5 A 197 SER PHE PHE ALA GLU GLY LYS LEU GLN ASN ASN VAL SER SEQRES 6 A 197 PHE SER ARG LYS ASN VAL LEU ARG GLY LEU HIS ALA GLU SEQRES 7 A 197 PRO TRP ASP LYS TYR ILE SER VAL ALA ASP GLY GLY LYS SEQRES 8 A 197 VAL LEU GLY THR TRP VAL ASP LEU ARG GLU GLY GLU THR SEQRES 9 A 197 PHE GLY ASN THR TYR GLN THR VAL ILE ASP ALA SER LYS SEQRES 10 A 197 SER ILE PHE VAL PRO ARG GLY VAL ALA ASN GLY PHE GLN SEQRES 11 A 197 VAL LEU SER ASP PHE VAL ALA TYR SER TYR LEU VAL ASN SEQRES 12 A 197 ASP TYR TRP ALA LEU GLU LEU LYS PRO LYS TYR ALA PHE SEQRES 13 A 197 VAL ASN TYR ALA ASP PRO SER LEU ASP ILE LYS TRP GLU SEQRES 14 A 197 ASN LEU GLU GLU ALA GLU VAL SER GLU ALA ASP GLU ASN SEQRES 15 A 197 HIS PRO PHE LEU LYS ASP VAL LYS PRO LEU ARG LYS GLU SEQRES 16 A 197 ASP LEU SEQRES 1 B 197 MET THR GLU ASN PHE PHE GLY LYS THR LEU ALA ALA ARG SEQRES 2 B 197 PRO VAL GLU ALA ILE PRO GLY MET LEU GLU PHE ASP ILE SEQRES 3 B 197 PRO VAL HIS GLY ASP ASN ARG GLY TRP PHE LYS GLU ASN SEQRES 4 B 197 PHE GLN LYS GLU LYS MET LEU PRO LEU GLY PHE PRO GLU SEQRES 5 B 197 SER PHE PHE ALA GLU GLY LYS LEU GLN ASN ASN VAL SER SEQRES 6 B 197 PHE SER ARG LYS ASN VAL LEU ARG GLY LEU HIS ALA GLU SEQRES 7 B 197 PRO TRP ASP LYS TYR ILE SER VAL ALA ASP GLY GLY LYS SEQRES 8 B 197 VAL LEU GLY THR TRP VAL ASP LEU ARG GLU GLY GLU THR SEQRES 9 B 197 PHE GLY ASN THR TYR GLN THR VAL ILE ASP ALA SER LYS SEQRES 10 B 197 SER ILE PHE VAL PRO ARG GLY VAL ALA ASN GLY PHE GLN SEQRES 11 B 197 VAL LEU SER ASP PHE VAL ALA TYR SER TYR LEU VAL ASN SEQRES 12 B 197 ASP TYR TRP ALA LEU GLU LEU LYS PRO LYS TYR ALA PHE SEQRES 13 B 197 VAL ASN TYR ALA ASP PRO SER LEU ASP ILE LYS TRP GLU SEQRES 14 B 197 ASN LEU GLU GLU ALA GLU VAL SER GLU ALA ASP GLU ASN SEQRES 15 B 197 HIS PRO PHE LEU LYS ASP VAL LYS PRO LEU ARG LYS GLU SEQRES 16 B 197 ASP LEU SEQRES 1 C 197 MET THR GLU ASN PHE PHE GLY LYS THR LEU ALA ALA ARG SEQRES 2 C 197 PRO VAL GLU ALA ILE PRO GLY MET LEU GLU PHE ASP ILE SEQRES 3 C 197 PRO VAL HIS GLY ASP ASN ARG GLY TRP PHE LYS GLU ASN SEQRES 4 C 197 PHE GLN LYS GLU LYS MET LEU PRO LEU GLY PHE PRO GLU SEQRES 5 C 197 SER PHE PHE ALA GLU GLY LYS LEU GLN ASN ASN VAL SER SEQRES 6 C 197 PHE SER ARG LYS ASN VAL LEU ARG GLY LEU HIS ALA GLU SEQRES 7 C 197 PRO TRP ASP LYS TYR ILE SER VAL ALA ASP GLY GLY LYS SEQRES 8 C 197 VAL LEU GLY THR TRP VAL ASP LEU ARG GLU GLY GLU THR SEQRES 9 C 197 PHE GLY ASN THR TYR GLN THR VAL ILE ASP ALA SER LYS SEQRES 10 C 197 SER ILE PHE VAL PRO ARG GLY VAL ALA ASN GLY PHE GLN SEQRES 11 C 197 VAL LEU SER ASP PHE VAL ALA TYR SER TYR LEU VAL ASN SEQRES 12 C 197 ASP TYR TRP ALA LEU GLU LEU LYS PRO LYS TYR ALA PHE SEQRES 13 C 197 VAL ASN TYR ALA ASP PRO SER LEU ASP ILE LYS TRP GLU SEQRES 14 C 197 ASN LEU GLU GLU ALA GLU VAL SER GLU ALA ASP GLU ASN SEQRES 15 C 197 HIS PRO PHE LEU LYS ASP VAL LYS PRO LEU ARG LYS GLU SEQRES 16 C 197 ASP LEU SEQRES 1 D 197 MET THR GLU ASN PHE PHE GLY LYS THR LEU ALA ALA ARG SEQRES 2 D 197 PRO VAL GLU ALA ILE PRO GLY MET LEU GLU PHE ASP ILE SEQRES 3 D 197 PRO VAL HIS GLY ASP ASN ARG GLY TRP PHE LYS GLU ASN SEQRES 4 D 197 PHE GLN LYS GLU LYS MET LEU PRO LEU GLY PHE PRO GLU SEQRES 5 D 197 SER PHE PHE ALA GLU GLY LYS LEU GLN ASN ASN VAL SER SEQRES 6 D 197 PHE SER ARG LYS ASN VAL LEU ARG GLY LEU HIS ALA GLU SEQRES 7 D 197 PRO TRP ASP LYS TYR ILE SER VAL ALA ASP GLY GLY LYS SEQRES 8 D 197 VAL LEU GLY THR TRP VAL ASP LEU ARG GLU GLY GLU THR SEQRES 9 D 197 PHE GLY ASN THR TYR GLN THR VAL ILE ASP ALA SER LYS SEQRES 10 D 197 SER ILE PHE VAL PRO ARG GLY VAL ALA ASN GLY PHE GLN SEQRES 11 D 197 VAL LEU SER ASP PHE VAL ALA TYR SER TYR LEU VAL ASN SEQRES 12 D 197 ASP TYR TRP ALA LEU GLU LEU LYS PRO LYS TYR ALA PHE SEQRES 13 D 197 VAL ASN TYR ALA ASP PRO SER LEU ASP ILE LYS TRP GLU SEQRES 14 D 197 ASN LEU GLU GLU ALA GLU VAL SER GLU ALA ASP GLU ASN SEQRES 15 D 197 HIS PRO PHE LEU LYS ASP VAL LYS PRO LEU ARG LYS GLU SEQRES 16 D 197 ASP LEU HET NI A1199 1 HET NI C1199 1 HET TRH A1198 35 HET TRH B1198 35 HET TRH C1198 35 HET TRH D1198 35 HETNAM NI NICKEL (II) ION HETNAM TRH 2'-DEOXY-THYMIDINE-BETA-L-RHAMNOSE FORMUL 5 NI 2(NI 2+) FORMUL 7 TRH 4(C16 H26 N2 O15 P2) FORMUL 11 HOH *1475(H2 O1) HELIX 1 1 LYS A 42 LEU A 46 1 5 HELIX 2 2 PRO A 47 GLY A 49 5 3 HELIX 3 3 PRO A 51 ALA A 56 5 6 HELIX 4 4 ALA A 147 TYR A 154 5 8 HELIX 5 5 SER A 177 HIS A 183 1 7 HELIX 6 6 PHE A 185 VAL A 189 5 5 HELIX 7 7 ARG A 193 LEU A 197 5 5 HELIX 8 8 LYS B 42 LEU B 46 1 5 HELIX 9 9 PRO B 47 GLY B 49 5 3 HELIX 10 10 PRO B 51 ALA B 56 5 6 HELIX 11 11 ALA B 147 TYR B 154 5 8 HELIX 12 12 SER B 177 ASN B 182 1 6 HELIX 13 13 PHE B 185 VAL B 189 5 5 HELIX 14 14 ARG B 193 LEU B 197 5 5 HELIX 15 15 LYS C 42 LEU C 46 1 5 HELIX 16 16 PRO C 47 GLY C 49 5 3 HELIX 17 17 PRO C 51 ALA C 56 5 6 HELIX 18 18 ALA C 147 TYR C 154 5 8 HELIX 19 19 ASN C 170 ALA C 174 5 5 HELIX 20 20 SER C 177 ASN C 182 1 6 HELIX 21 21 PHE C 185 VAL C 189 5 5 HELIX 22 22 LYS D 42 LEU D 46 1 5 HELIX 23 23 PRO D 47 GLY D 49 5 3 HELIX 24 24 PRO D 51 ALA D 56 5 6 HELIX 25 25 ALA D 147 TYR D 154 5 8 HELIX 26 26 SER D 177 HIS D 183 1 7 HELIX 27 27 PHE D 185 VAL D 189 5 5 HELIX 28 28 ARG D 193 LEU D 197 5 5 SHEET 1 AA 8 ALA A 11 PRO A 14 0 SHEET 2 AA 8 LEU A 22 ASP A 25 -1 O GLU A 23 N ARG A 13 SHEET 3 AA 8 LYS A 117 VAL A 121 -1 O SER A 118 N PHE A 24 SHEET 4 AA 8 LYS A 82 VAL A 86 -1 O LYS A 82 N VAL A 121 SHEET 5 AA 8 PHE A 135 VAL A 142 -1 O SER A 139 N SER A 85 SHEET 6 AA 8 GLN A 61 ARG A 68 -1 O GLN A 61 N VAL A 142 SHEET 7 AA 8 GLY B 34 GLN B 41 -1 O TRP B 35 N PHE A 66 SHEET 8 AA 8 VAL B 28 ASP B 31 -1 O HIS B 29 N PHE B 36 SHEET 1 AB 8 VAL A 28 ASP A 31 0 SHEET 2 AB 8 GLY A 34 GLN A 41 -1 O GLY A 34 N ASP A 31 SHEET 3 AB 8 GLN B 61 ARG B 68 -1 O ASN B 62 N PHE A 40 SHEET 4 AB 8 PHE B 135 VAL B 142 -1 O VAL B 136 N SER B 67 SHEET 5 AB 8 LYS B 82 VAL B 86 -1 O TYR B 83 N LEU B 141 SHEET 6 AB 8 LYS B 117 VAL B 121 -1 O LYS B 117 N VAL B 86 SHEET 7 AB 8 LEU B 22 ASP B 25 -1 O LEU B 22 N PHE B 120 SHEET 8 AB 8 ALA B 11 PRO B 14 -1 O ALA B 11 N ASP B 25 SHEET 1 AC 5 THR A 108 ILE A 113 0 SHEET 2 AC 5 VAL A 92 ASP A 98 -1 O VAL A 92 N ILE A 113 SHEET 3 AC 5 VAL A 125 VAL A 131 -1 O ALA A 126 N VAL A 97 SHEET 4 AC 5 LEU A 72 ALA A 77 -1 O ARG A 73 N PHE A 129 SHEET 5 AC 5 ALA A 155 PHE A 156 -1 O ALA A 155 N ALA A 77 SHEET 1 BA 5 THR B 108 ILE B 113 0 SHEET 2 BA 5 VAL B 92 ASP B 98 -1 O VAL B 92 N ILE B 113 SHEET 3 BA 5 VAL B 125 VAL B 131 -1 O ALA B 126 N VAL B 97 SHEET 4 BA 5 LEU B 72 ALA B 77 -1 O ARG B 73 N PHE B 129 SHEET 5 BA 5 ALA B 155 PHE B 156 -1 O ALA B 155 N ALA B 77 SHEET 1 CA 8 ALA C 11 PRO C 14 0 SHEET 2 CA 8 LEU C 22 ASP C 25 -1 O GLU C 23 N ARG C 13 SHEET 3 CA 8 LYS C 117 VAL C 121 -1 O SER C 118 N PHE C 24 SHEET 4 CA 8 LYS C 82 VAL C 86 -1 O LYS C 82 N VAL C 121 SHEET 5 CA 8 PHE C 135 VAL C 142 -1 O SER C 139 N SER C 85 SHEET 6 CA 8 GLN C 61 ARG C 68 -1 O GLN C 61 N VAL C 142 SHEET 7 CA 8 GLY D 34 GLN D 41 -1 O TRP D 35 N PHE C 66 SHEET 8 CA 8 VAL D 28 ASP D 31 -1 O HIS D 29 N PHE D 36 SHEET 1 CB 8 VAL C 28 ASP C 31 0 SHEET 2 CB 8 GLY C 34 GLN C 41 -1 O GLY C 34 N ASP C 31 SHEET 3 CB 8 GLN D 61 ARG D 68 -1 O ASN D 62 N PHE C 40 SHEET 4 CB 8 PHE D 135 VAL D 142 -1 O VAL D 136 N SER D 67 SHEET 5 CB 8 LYS D 82 VAL D 86 -1 O TYR D 83 N LEU D 141 SHEET 6 CB 8 LYS D 117 VAL D 121 -1 O ILE D 119 N ILE D 84 SHEET 7 CB 8 LEU D 22 ASP D 25 -1 O LEU D 22 N PHE D 120 SHEET 8 CB 8 ALA D 11 PRO D 14 -1 O ALA D 11 N ASP D 25 SHEET 1 CC 5 THR C 108 ILE C 113 0 SHEET 2 CC 5 VAL C 92 ASP C 98 -1 O VAL C 92 N ILE C 113 SHEET 3 CC 5 VAL C 125 VAL C 131 -1 O ALA C 126 N VAL C 97 SHEET 4 CC 5 LEU C 72 ALA C 77 -1 O ARG C 73 N PHE C 129 SHEET 5 CC 5 ALA C 155 PHE C 156 -1 O ALA C 155 N ALA C 77 SHEET 1 DA 5 THR D 108 ILE D 113 0 SHEET 2 DA 5 VAL D 92 ASP D 98 -1 O VAL D 92 N ILE D 113 SHEET 3 DA 5 VAL D 125 VAL D 131 -1 O ALA D 126 N VAL D 97 SHEET 4 DA 5 LEU D 72 ALA D 77 -1 O ARG D 73 N PHE D 129 SHEET 5 DA 5 ALA D 155 PHE D 156 -1 O ALA D 155 N ALA D 77 LINK NI NI A1199 OE1 GLU A 52 1555 1555 2.18 LINK NI NI A1199 O HOH A2135 1555 1555 2.09 LINK NI NI A1199 O HOH A2142 1555 1555 1.90 LINK NI NI A1199 OE2 GLU C 52 1555 1554 2.15 LINK NI NI C1199 OE1 GLU A 52 1555 1556 2.04 LINK NI NI C1199 O HOH A2135 1555 1556 2.19 LINK NI NI C1199 OE2 GLU C 52 1555 1555 2.04 LINK NI NI C1199 O HOH A2142 1555 1556 2.41 CISPEP 1 GLY A 74 LEU A 75 0 -4.13 CISPEP 2 GLY B 74 LEU B 75 0 0.97 CISPEP 3 GLY C 74 LEU C 75 0 -1.20 CISPEP 4 GLY D 74 LEU D 75 0 -3.32 SITE 1 AC1 4 GLU A 52 HOH A2135 HOH A2142 GLU C 52 SITE 1 AC2 4 GLU A 52 HOH A2135 HOH A2142 GLU C 52 SITE 1 AC3 22 GLN A 61 ARG A 73 HIS A 76 GLU A 78 SITE 2 AC3 22 LYS A 82 ASN A 127 TYR A 140 TRP A 146 SITE 3 AC3 22 HOH A2179 HOH A2320 HOH A2356 HOH A2357 SITE 4 AC3 22 HOH A2358 HOH A2359 HOH A2360 HOH A2361 SITE 5 AC3 22 HOH A2363 HOH A2364 HOH A2365 ARG B 33 SITE 6 AC3 22 PHE B 36 GLU B 38 SITE 1 AC4 21 ARG A 33 PHE A 36 GLU A 38 GLN B 61 SITE 2 AC4 21 ARG B 73 HIS B 76 GLU B 78 LYS B 82 SITE 3 AC4 21 ASN B 127 TYR B 140 TRP B 146 HOH B2197 SITE 4 AC4 21 HOH B2361 HOH B2362 HOH B2363 HOH B2364 SITE 5 AC4 21 HOH B2365 HOH B2366 HOH B2367 HOH B2369 SITE 6 AC4 21 HOH B2370 SITE 1 AC5 16 GLN C 61 HIS C 76 GLU C 78 LYS C 82 SITE 2 AC5 16 ASN C 127 TRP C 146 HOH C2352 HOH C2353 SITE 3 AC5 16 HOH C2354 HOH C2355 HOH C2357 HOH C2358 SITE 4 AC5 16 HOH C2359 GLU D 38 GLU D 178 HOH D2344 SITE 1 AC6 23 HIS C 29 ARG C 33 PHE C 36 GLU C 38 SITE 2 AC6 23 GLN D 61 ARG D 73 HIS D 76 GLU D 78 SITE 3 AC6 23 LYS D 82 ASN D 127 TYR D 140 TRP D 146 SITE 4 AC6 23 HOH D2195 HOH D2265 HOH D2336 HOH D2372 SITE 5 AC6 23 HOH D2373 HOH D2374 HOH D2375 HOH D2376 SITE 6 AC6 23 HOH D2378 HOH D2379 HOH D2381 CRYST1 51.408 141.526 53.586 90.00 92.57 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 0.019452 0.000000 0.000873 0.00000 SCALE2 0.000000 0.007066 0.000000 0.00000 SCALE3 0.000000 0.000000 0.018681 0.00000