PDB Short entry for 2GEJ HEADER TRANSFERASE 20-MAR-06 2GEJ TITLE CRYSTAL STRUCTURE OF PHOSPHATIDYLINOSITOL MANNOSYLTRANSFERASE (PIMA) TITLE 2 FROM MYCOBACTERIUM SMEGMATIS IN COMPLEX WITH GDP-MAN COMPND MOL_ID: 1; COMPND 2 MOLECULE: PHOSPHATIDYLINOSITOL MANNOSYLTRANSFERASE (PIMA); COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MYCOBACTERIUM SMEGMATIS; SOURCE 3 ORGANISM_TAXID: 246196; SOURCE 4 STRAIN: MC2 155; SOURCE 5 GENE: PIMA; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21 (DE3) PLYSS; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET14B KEYWDS GT4 GLYCOSYLTRANSFERASE, MANNOSYLTRANSFERASE, ROSSMANN FOLD, BINARY KEYWDS 2 COMPLEX, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR M.E.GUERIN,A.BUSCHIAZZO,J.KORDULAKOVA,M.JACKSON,P.M.ALZARI REVDAT 5 14-FEB-24 2GEJ 1 REMARK REVDAT 4 13-JUL-11 2GEJ 1 VERSN REVDAT 3 31-MAR-10 2GEJ 1 JRNL REVDAT 2 24-FEB-09 2GEJ 1 VERSN REVDAT 1 03-APR-07 2GEJ 0 JRNL AUTH M.E.GUERIN,J.KORDULAKOVA,F.SCHAEFFER,Z.SVETLIKOVA, JRNL AUTH 2 A.BUSCHIAZZO,D.GIGANTI,B.GICQUEL,K.MIKUSOVA,M.JACKSON, JRNL AUTH 3 P.M.ALZARI JRNL TITL MOLECULAR RECOGNITION AND INTERFACIAL CATALYSIS BY THE JRNL TITL 2 ESSENTIAL PHOSPHATIDYLINOSITOL MANNOSYLTRANSFERASE PIMA FROM JRNL TITL 3 MYCOBACTERIA. JRNL REF J.BIOL.CHEM. V. 282 20705 2007 JRNL REFN ISSN 0021-9258 JRNL PMID 17510062 JRNL DOI 10.1074/JBC.M702087200 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH M.E.GUERIN,A.BUSCHIAZZO,J.KORDULAKOVA,M.JACKSON,P.M.ALZARI REMARK 1 TITL CRYSTALLIZATION AND PRELIMINARY CRYSTALLOGRAPHIC ANALYSIS OF REMARK 1 TITL 2 PIMA, AN ESSENTIAL MANNOSYLTRANSFERASE FROM MYCOBACTERIUM REMARK 1 TITL 3 SMEGMATIS REMARK 1 REF ACTA CRYSTALLOGR.,SECT.F V. 61 518 2005 REMARK 1 REFN ESSN 1744-3091 REMARK 1 PMID 16511084 REMARK 1 REFERENCE 2 REMARK 1 AUTH J.KORDULAKOVA,M.GILLERON,K.MIKUSOVA,G.PUZO,P.J.BRENNAN, REMARK 1 AUTH 2 B.GICQUEL,M.JACKSON REMARK 1 TITL DEFINITION OF THE FIRST MANNOSYLATION STEP IN REMARK 1 TITL 2 PHOSPHATIDYLINOSITOL MANNOSIDE SYNTHESIS REMARK 1 REF J.BIOL.CHEM. V. 277 31335 2002 REMARK 1 REFN ISSN 0021-9258 REMARK 1 PMID 12068013 REMARK 1 DOI 10.1074/JBC.M204060200 REMARK 1 REFERENCE 3 REMARK 1 AUTH V.BRIKEN,S.A.PORCELLI,G.S.BESRA,L.KREMER REMARK 1 TITL MYCBACTERIAL LIPOARABINOMANNAN AND RELATED LIPOGLYCANS: FROM REMARK 1 TITL 2 BIOGENESIS TO MODULATION OF THE IMMUNE RESPONSE REMARK 1 REF MOL.MICROBIOL. V. 53 391 2004 REMARK 1 REFN ISSN 0950-382X REMARK 1 PMID 15228522 REMARK 1 DOI 10.1111/J.1365-2958.2004.04183.X REMARK 1 REFERENCE 4 REMARK 1 AUTH J.NIGOU,M.GILLERON,G.PUZO REMARK 1 TITL LIPOARABINOMANNANS: FROM STRUCTURE TO BIOSYNTHESIS REMARK 1 REF BIOCHIMIE V. 85 153 2003 REMARK 1 REFN ISSN 0300-9084 REMARK 1 PMID 12765785 REMARK 1 DOI 10.1016/S0300-9084(03)00048-8 REMARK 1 REFERENCE 5 REMARK 1 AUTH P.M.COUTINHO,E.DELEURY,G.J.DAVIES,B.HENRISSAT REMARK 1 TITL AN EVOLVING HIERARCHICAL FAMILY CLASSIFICATION FOR REMARK 1 TITL 2 GLYCOSYLTRANSFERASES REMARK 1 REF J.MOL.BIOL. V. 328 307 2003 REMARK 1 REFN ISSN 0022-2836 REMARK 1 PMID 12691742 REMARK 1 DOI 10.1016/S0022-2836(03)00307-3 REMARK 2 REMARK 2 RESOLUTION. 2.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 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) : 2.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 49.90 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 12013 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) : 0.196 REMARK 3 R VALUE (WORKING SET) : 0.192 REMARK 3 FREE R VALUE : 0.245 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 7.400 REMARK 3 FREE R VALUE TEST SET COUNT : 894 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) : 2.60 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.67 REMARK 3 REFLECTION IN BIN (WORKING SET) : 805 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.2910 REMARK 3 BIN FREE R VALUE SET COUNT : 64 REMARK 3 BIN FREE R VALUE : 0.3730 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2679 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 39 REMARK 3 SOLVENT ATOMS : 23 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 48.63 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 2.40000 REMARK 3 B22 (A**2) : -2.56000 REMARK 3 B33 (A**2) : 0.15000 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): 2.151 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.324 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.242 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 21.978 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.950 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.919 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2773 ; 0.018 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3780 ; 1.829 ; 1.985 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 359 ; 6.828 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 112 ;38.977 ;22.946 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 417 ;19.970 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 23 ;22.085 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 439 ; 0.115 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2098 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1294 ; 0.244 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1873 ; 0.319 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 114 ; 0.173 ; 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): 21 ; 0.189 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 6 ; 0.115 ; 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): 1835 ; 0.742 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2846 ; 1.192 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1064 ; 2.025 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 934 ; 3.166 ; 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: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 2GEJ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 12-APR-06. REMARK 100 THE DEPOSITION ID IS D_1000037020. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 13-JUN-04 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID14-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.934000 REMARK 200 MONOCHROMATOR : DIAMOND (111), GE (220) REMARK 200 OPTICS : NULL 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, CCP4 (SCALA) REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 12054 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.600 REMARK 200 RESOLUTION RANGE LOW (A) : 49.903 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 3.500 REMARK 200 R MERGE (I) : 0.04700 REMARK 200 R SYM (I) : 0.04700 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 11.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.74 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 3.60 REMARK 200 R MERGE FOR SHELL (I) : 0.34900 REMARK 200 R SYM FOR SHELL (I) : 0.34900 REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.200 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45.08 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.24 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1 MM GDP, 10-18% PEG 8000, 200 MM REMARK 280 CALCIUM ACETATE, 50 MM HEPES PH 7.5, VAPOR DIFFUSION, HANGING REMARK 280 DROP, TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 18.53550 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 68.58300 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 36.37350 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 68.58300 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 18.53550 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 36.37350 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 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 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 -19 REMARK 465 GLY A -18 REMARK 465 SER A -17 REMARK 465 SER A -16 REMARK 465 HIS A -15 REMARK 465 HIS A -14 REMARK 465 HIS A -13 REMARK 465 HIS A -12 REMARK 465 HIS A -11 REMARK 465 HIS A -10 REMARK 465 SER A -9 REMARK 465 SER A -8 REMARK 465 GLY A -7 REMARK 465 LEU A -6 REMARK 465 VAL A -5 REMARK 465 PRO A -4 REMARK 465 ARG A -3 REMARK 465 GLY A -2 REMARK 465 SER A -1 REMARK 465 HIS A 0 REMARK 465 PRO A 59 REMARK 465 ILE A 60 REMARK 465 PRO A 61 REMARK 465 TYR A 62 REMARK 465 ASN A 63 REMARK 465 GLY A 64 REMARK 465 SER A 65 REMARK 465 VAL A 66 REMARK 465 ALA A 67 REMARK 465 ARG A 68 REMARK 465 LEU A 69 REMARK 465 ARG A 70 REMARK 465 GLY A 374 REMARK 465 ALA A 375 REMARK 465 ALA A 376 REMARK 465 ASN A 377 REMARK 465 ARG A 378 REMARK 465 ASP A 379 REMARK 465 GLU A 380 REMARK 465 THR A 381 REMARK 465 ALA A 382 REMARK 465 GLY A 383 REMARK 465 GLU A 384 REMARK 465 SER A 385 REMARK 465 VAL A 386 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 LYS A 56 CG CD CE NZ REMARK 470 VAL A 58 CG1 CG2 REMARK 470 LYS A 123 CG CD CE NZ REMARK 470 LEU A 125 CG CD1 CD2 REMARK 470 GLU A 187 CG CD OE1 OE2 REMARK 470 ARG A 189 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 213 CG CD CE NZ REMARK 470 GLU A 233 CG CD OE1 OE2 REMARK 470 GLU A 236 CG CD OE1 OE2 REMARK 470 HIS A 345 CG ND1 CD2 CE1 NE2 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 GLU A 328 CB GLU A 328 CG 0.122 REMARK 500 GLU A 328 CG GLU A 328 CD 0.171 REMARK 500 GLU A 328 CD GLU A 328 OE1 0.136 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 GLY A 277 C - N - CA ANGL. DEV. = -13.7 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 ALA A 41 131.11 -37.74 REMARK 500 SER A 100 158.85 172.69 REMARK 500 PRO A 112 96.27 -69.38 REMARK 500 ASP A 162 133.03 -27.12 REMARK 500 ASP A 182 132.07 -33.69 REMARK 500 ARG A 189 149.42 68.02 REMARK 500 ALA A 238 -2.55 -53.81 REMARK 500 ASP A 294 40.60 77.15 REMARK 500 ASP A 304 17.43 58.41 REMARK 500 ASP A 314 41.64 -101.05 REMARK 500 ALA A 366 131.24 -36.95 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 GDD A 2567 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2GEK RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF PHOSPHATIDYLINOSITOL MANNOSYLTRANSFERASE (PIMA) REMARK 900 FROM MYCOBACTERIUM SMEGMATIS IN COMPLEX WITH GDP REMARK 999 REMARK 999 SEQUENCE REMARK 999 NO SUITABLE SEQUENCE DATABASE REFERENCE WAS AVAILABLE AT REMARK 999 THE TIME OF PROCESSING THIS ENTRY. DBREF 2GEJ A 1 386 UNP A0QWG6 A0QWG6_MYCS2 1 386 SEQRES 1 A 406 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 406 LEU VAL PRO ARG GLY SER HIS MET ARG ILE GLY MET VAL SEQRES 3 A 406 CYS PRO TYR SER PHE ASP VAL PRO GLY GLY VAL GLN SER SEQRES 4 A 406 HIS VAL LEU GLN LEU ALA GLU VAL LEU ARG ASP ALA GLY SEQRES 5 A 406 HIS GLU VAL SER VAL LEU ALA PRO ALA SER PRO HIS VAL SEQRES 6 A 406 LYS LEU PRO ASP TYR VAL VAL SER GLY GLY LYS ALA VAL SEQRES 7 A 406 PRO ILE PRO TYR ASN GLY SER VAL ALA ARG LEU ARG PHE SEQRES 8 A 406 GLY PRO ALA THR HIS ARG LYS VAL LYS LYS TRP ILE ALA SEQRES 9 A 406 GLU GLY ASP PHE ASP VAL LEU HIS ILE HIS GLU PRO ASN SEQRES 10 A 406 ALA PRO SER LEU SER MET LEU ALA LEU GLN ALA ALA GLU SEQRES 11 A 406 GLY PRO ILE VAL ALA THR PHE HIS THR SER THR THR LYS SEQRES 12 A 406 SER LEU THR LEU SER VAL PHE GLN GLY ILE LEU ARG PRO SEQRES 13 A 406 TYR HIS GLU LYS ILE ILE GLY ARG ILE ALA VAL SER ASP SEQRES 14 A 406 LEU ALA ARG ARG TRP GLN MET GLU ALA LEU GLY SER ASP SEQRES 15 A 406 ALA VAL GLU ILE PRO ASN GLY VAL ASP VAL ALA SER PHE SEQRES 16 A 406 ALA ASP ALA PRO LEU LEU ASP GLY TYR PRO ARG GLU GLY SEQRES 17 A 406 ARG THR VAL LEU PHE LEU GLY ARG TYR ASP GLU PRO ARG SEQRES 18 A 406 LYS GLY MET ALA VAL LEU LEU ALA ALA LEU PRO LYS LEU SEQRES 19 A 406 VAL ALA ARG PHE PRO ASP VAL GLU ILE LEU ILE VAL GLY SEQRES 20 A 406 ARG GLY ASP GLU ASP GLU LEU ARG GLU GLN ALA GLY ASP SEQRES 21 A 406 LEU ALA GLY HIS LEU ARG PHE LEU GLY GLN VAL ASP ASP SEQRES 22 A 406 ALA THR LYS ALA SER ALA MET ARG SER ALA ASP VAL TYR SEQRES 23 A 406 CYS ALA PRO HIS LEU GLY GLY GLU SER PHE GLY ILE VAL SEQRES 24 A 406 LEU VAL GLU ALA MET ALA ALA GLY THR ALA VAL VAL ALA SEQRES 25 A 406 SER ASP LEU ASP ALA PHE ARG ARG VAL LEU ALA ASP GLY SEQRES 26 A 406 ASP ALA GLY ARG LEU VAL PRO VAL ASP ASP ALA ASP GLY SEQRES 27 A 406 MET ALA ALA ALA LEU ILE GLY ILE LEU GLU ASP ASP GLN SEQRES 28 A 406 LEU ARG ALA GLY TYR VAL ALA ARG ALA SER GLU ARG VAL SEQRES 29 A 406 HIS ARG TYR ASP TRP SER VAL VAL SER ALA GLN ILE MET SEQRES 30 A 406 ARG VAL TYR GLU THR VAL SER GLY ALA GLY ILE LYS VAL SEQRES 31 A 406 GLN VAL SER GLY ALA ALA ASN ARG ASP GLU THR ALA GLY SEQRES 32 A 406 GLU SER VAL HET GDD A2567 39 HETNAM GDD GUANOSINE-5'-DIPHOSPHATE-ALPHA-D-MANNOSE FORMUL 2 GDD C16 H25 N5 O16 P2 FORMUL 3 HOH *23(H2 O) HELIX 1 1 GLY A 15 ALA A 31 1 17 HELIX 2 2 GLY A 72 ASP A 87 1 16 HELIX 3 3 SER A 100 ALA A 108 1 9 HELIX 4 4 THR A 122 GLY A 132 1 11 HELIX 5 5 LEU A 134 LYS A 140 1 7 HELIX 6 6 SER A 148 GLY A 160 1 13 HELIX 7 7 ASP A 171 ASP A 177 1 7 HELIX 8 8 GLU A 199 LYS A 202 5 4 HELIX 9 9 GLY A 203 PHE A 218 1 16 HELIX 10 10 ASP A 230 ALA A 238 1 9 HELIX 11 11 GLY A 239 GLY A 243 5 5 HELIX 12 12 ASP A 252 SER A 262 1 11 HELIX 13 13 GLY A 277 GLY A 287 1 11 HELIX 14 14 LEU A 295 ALA A 303 1 9 HELIX 15 15 ASP A 304 ASP A 306 5 3 HELIX 16 16 ASP A 315 ASP A 329 1 15 HELIX 17 17 ASP A 329 VAL A 344 1 16 HELIX 18 18 HIS A 345 TYR A 347 5 3 HELIX 19 19 ASP A 348 SER A 364 1 17 SHEET 1 A 7 VAL A 51 SER A 53 0 SHEET 2 A 7 GLU A 34 ALA A 39 1 N VAL A 37 O VAL A 52 SHEET 3 A 7 ARG A 2 VAL A 6 1 N MET A 5 O SER A 36 SHEET 4 A 7 VAL A 90 HIS A 94 1 O HIS A 92 N GLY A 4 SHEET 5 A 7 ILE A 113 PHE A 117 1 O VAL A 114 N ILE A 93 SHEET 6 A 7 GLY A 143 ALA A 146 1 O ILE A 145 N ALA A 115 SHEET 7 A 7 VAL A 164 GLU A 165 1 O VAL A 164 N ALA A 146 SHEET 1 B 2 ALA A 109 GLU A 110 0 SHEET 2 B 2 GLN A 371 VAL A 372 -1 O GLN A 371 N GLU A 110 SHEET 1 C 6 LEU A 245 PHE A 247 0 SHEET 2 C 6 GLU A 222 VAL A 226 1 N ILE A 225 O ARG A 246 SHEET 3 C 6 THR A 190 LEU A 194 1 N VAL A 191 O GLU A 222 SHEET 4 C 6 VAL A 265 ALA A 268 1 O CYS A 267 N LEU A 192 SHEET 5 C 6 ALA A 289 ALA A 292 1 O VAL A 291 N TYR A 266 SHEET 6 C 6 ARG A 309 LEU A 310 1 O ARG A 309 N ALA A 292 CISPEP 1 ALA A 98 PRO A 99 0 -6.46 CISPEP 2 TYR A 184 PRO A 185 0 7.56 SITE 1 AC1 19 PRO A 14 GLY A 15 GLY A 16 LEU A 194 SITE 2 AC1 19 ARG A 196 LYS A 202 GLY A 227 GLN A 250 SITE 3 AC1 19 VAL A 251 ASP A 252 ASP A 253 LYS A 256 SITE 4 AC1 19 GLU A 274 SER A 275 PHE A 276 ILE A 278 SITE 5 AC1 19 GLU A 282 HOH A2568 HOH A2574 CRYST1 37.071 72.747 137.166 90.00 90.00 90.00 P 21 21 21 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 0.026980 0.000000 0.000000 0.00000 SCALE2 0.000000 0.013750 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007290 0.00000