10 20 30 40 50 60 70 80 4OIT - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER SUGAR BINDING PROTEIN 20-JAN-14 4OIT
TITLE STRUCTURE, INTERACTIONS AND EVOLUTIONARY IMPLICATIONS OF A DOMAIN- TITLE 2 SWAPPED LECTIN DIMER FROM MYCOBACTERIUM SMEGMATIS
COMPND MOL_ID: 1; COMPND 2 MOLECULE: LYSM DOMAIN PROTEIN; COMPND 3 CHAIN: A, B, C, D; COMPND 4 FRAGMENT: MANNOSE-BINDING LECTIN DOMAIN, UNP RESIDUES 1-105; COMPND 5 SYNONYM: MANNOSE-BINDING LECTIN; COMPND 6 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: MSMEG_3662; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET21B
KEYWDS BETA-PRISM II FOLD, BACTERIAL LECTIN, PROTEIN-CARBOHYDRATE KEYWDS 2 INTERACTIONS, BETA-PRISM II, CARBOHYDRATE BINDING, KEYWDS 3 CARBOHYDRATE/SUGAR, SUGAR BINDING PROTEIN
EXPDTA X-RAY DIFFRACTION
AUTHOR D.PATRA,P.MISHRA,A.SUROLIA,M.VIJAYAN
REVDAT 1 23-JUL-14 4OIT 0
JRNL AUTH D.PATRA,P.MISHRA,A.SUROLIA,M.VIJAYAN JRNL TITL STRUCTURE, INTERACTIONS AND EVOLUTIONARY IMPLICATIONS OF A JRNL TITL 2 DOMAIN-SWAPPED LECTIN DIMER FROM MYCOBACTERIUM SMEGMATIS JRNL REF GLYCOBIOLOGY 2014 JRNL REFN ESSN 1460-2423 JRNL PMID 24957055 JRNL DOI 10.1093/GLYCOB/CWU059
REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH D.PATRA,A.SHARMA,D.CHANDRAN,M.VIJAYAN REMARK 1 TITL CLONING, EXPRESSION, PURIFICATION, CRYSTALLIZATION AND REMARK 1 TITL 2 PRELIMINARY X-RAY STUDIES OF THE MANNOSE-BINDING LECTIN REMARK 1 TITL 3 DOMAIN OF MSMEG_3662 FROM MYCOBACTERIUM SMEGMATIS REMARK 1 REF ACTA CRYSTALLOGR.,SECT.F V. 67 596 2011 REMARK 1 REFN ISSN 1744-3091 REMARK 1 PMID 21543870 REMARK 1 DOI 10.1107/S1744309111009547 REMARK 1 REFERENCE 2 REMARK 1 AUTH A.SHARMA,D.CHANDRAN,D.D.SINGH,M.VIJAYAN REMARK 1 TITL MULTIPLICITY OF CARBOHYDRATE-BINDING SITES IN BETA-PRISM REMARK 1 TITL 2 FOLD LECTINS: OCCURRENCE AND POSSIBLE EVOLUTIONARY REMARK 1 TITL 3 IMPLICATIONS REMARK 1 REF J.BIOSCI. V. 32 1089 2007 REMARK 1 REFN ISSN 0250-4774 REMARK 1 PMID 17954971 REMARK 1 REFERENCE 3 REMARK 1 AUTH K.V.ABHINAV,A.SHARMA,M.VIJAYAN REMARK 1 TITL IDENTIFICATION OF MYCOBACTERIAL LECTINS FROM GENOMIC DATA REMARK 1 REF PROTEINS V. 81 644 2013 REMARK 1 REFN ISSN 0887-3585 REMARK 1 PMID 23180653 REMARK 1 DOI 10.1002/PROT.24219
REMARK 2 REMARK 2 RESOLUTION. 2.24 ANGSTROMS.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0109 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.24 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 40.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.7 REMARK 3 NUMBER OF REFLECTIONS : 18340 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) : 0.222 REMARK 3 R VALUE (WORKING SET) : 0.220 REMARK 3 FREE R VALUE : 0.261 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 993 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) : 2.24 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.30 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1297 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 96.61 REMARK 3 BIN R VALUE (WORKING SET) : 0.2570 REMARK 3 BIN FREE R VALUE SET COUNT : 72 REMARK 3 BIN FREE R VALUE : 0.3040 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3188 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 132 REMARK 3 SOLVENT ATOMS : 130 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 22.83 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 2.73000 REMARK 3 B22 (A**2) : -1.91000 REMARK 3 B33 (A**2) : -0.40000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.75000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.440 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.259 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.197 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 7.790 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.915 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.882 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3376 ; 0.006 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4609 ; 1.116 ; 1.990 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 421 ; 6.752 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 145 ;33.670 ;25.586 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 504 ;14.465 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 14 ;14.406 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 563 ; 0.072 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2482 ; 0.003 ; 0.020 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): 2084 ; 0.318 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3301 ; 0.590 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1292 ; 0.785 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1308 ; 1.302 ; 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 : 1.40 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
REMARK 4 REMARK 4 4OIT COMPLIES WITH FORMAT V. 3.30, 13-JUL-11
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 23-JAN-14. REMARK 100 THE RCSB ID CODE IS RCSB084546.
REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 11-MAR-12 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : BRUKER AXS MICROSTAR REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.54179 REMARK 200 MONOCHROMATOR : MIRRORS REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MAR SCANNER 345 MM PLATE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 19379 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.240 REMARK 200 RESOLUTION RANGE LOW (A) : 40.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.7 REMARK 200 DATA REDUNDANCY : 2.700 REMARK 200 R MERGE (I) : 0.11200 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 6.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.24 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.36 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.2 REMARK 200 DATA REDUNDANCY IN SHELL : 2.30 REMARK 200 R MERGE FOR SHELL (I) : 0.38000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: NATIVE STRUCTURE REMARK 200 REMARK 200 REMARK: NULL
REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 40.11 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.05 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.2M TRI-SODIUM CITRATE, 0.1M NA REMARK 280 HEPES, 6% GLYCEROL, 30%(W/V) 1,5 DIAMMINO PENTANE REMARK 280 DIHYDROCHLORIDE, 60MM MANNOSE, PH 7.5, VAPOR DIFFUSION, HANGING REMARK 280 DROP, TEMPERATURE 298K
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 40.04000 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 6480 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 10520 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -22.0 KCAL/MOL 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 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 6440 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 10150 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -24.0 KCAL/MOL 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 HIS A 108 REMARK 465 HIS A 109 REMARK 465 HIS A 110 REMARK 465 HIS A 111 REMARK 465 HIS A 112 REMARK 465 HIS A 113 REMARK 465 MET B 1 REMARK 465 HIS B 109 REMARK 465 HIS B 110 REMARK 465 HIS B 111 REMARK 465 HIS B 112 REMARK 465 HIS B 113 REMARK 465 MET C 1 REMARK 465 HIS C 108 REMARK 465 HIS C 109 REMARK 465 HIS C 110 REMARK 465 HIS C 111 REMARK 465 HIS C 112 REMARK 465 HIS C 113 REMARK 465 MET D 1 REMARK 465 HIS D 108 REMARK 465 HIS D 109 REMARK 465 HIS D 110 REMARK 465 HIS D 111 REMARK 465 HIS D 112 REMARK 465 HIS D 113
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 41 CG CD CE NZ REMARK 470 GLU A 70 CG CD OE1 OE2 REMARK 470 LYS A 82 CG CD CE NZ REMARK 470 LYS A 99 CG CD CE NZ REMARK 470 ASP A 100 CG OD1 OD2 REMARK 470 GLU A 107 CG CD OE1 OE2 REMARK 470 ARG B 39 CB CG CD NE CZ NH1 NH2 REMARK 470 LYS B 41 CG CD CE NZ REMARK 470 LYS B 82 CG CD CE NZ REMARK 470 HIS B 108 CG ND1 CD2 CE1 NE2 REMARK 470 ASP C 30 CG OD1 OD2 REMARK 470 ARG C 39 CG CD NE CZ NH1 NH2 REMARK 470 ASP C 40 CG OD1 OD2 REMARK 470 LYS C 41 CG CD CE NZ REMARK 470 GLU C 70 CG CD OE1 OE2 REMARK 470 LYS C 82 CG CD CE NZ REMARK 470 GLU C 107 CG CD OE1 OE2 REMARK 470 GLU D 12 CG CD OE1 OE2 REMARK 470 ASP D 40 CG OD1 OD2 REMARK 470 LYS D 41 CG CD CE NZ REMARK 470 LYS D 82 CG CD CE NZ
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 ARG A 39 -125.16 63.95 REMARK 500 ARG A 92 -12.72 82.12 REMARK 500 ASP A 100 50.74 -106.74 REMARK 500 ARG B 39 -122.00 74.24 REMARK 500 ARG B 92 -7.59 87.03 REMARK 500 ARG C 39 75.24 55.98 REMARK 500 ASP C 40 -24.20 75.97 REMARK 500 ASP C 100 30.78 -99.43 REMARK 500 ARG D 39 -106.77 56.34 REMARK 500 GLU D 83 72.53 30.97 REMARK 500 ARG D 92 1.20 80.09 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 MAN A 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MAN A 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MAN A 203 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MAN B 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BMA B 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MAN C 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MAN C 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MAN C 203 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MAN D 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MAN D 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MAN D 203
REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4OIZ RELATED DB: PDB
DBREF 4OIT A 1 105 UNP A0QYH7 A0QYH7_MYCS2 1 105 DBREF 4OIT B 1 105 UNP A0QYH7 A0QYH7_MYCS2 1 105 DBREF 4OIT C 1 105 UNP A0QYH7 A0QYH7_MYCS2 1 105 DBREF 4OIT D 1 105 UNP A0QYH7 A0QYH7_MYCS2 1 105
SEQADV 4OIT LEU A 106 UNP A0QYH7 EXPRESSION TAG SEQADV 4OIT GLU A 107 UNP A0QYH7 EXPRESSION TAG SEQADV 4OIT HIS A 108 UNP A0QYH7 EXPRESSION TAG SEQADV 4OIT HIS A 109 UNP A0QYH7 EXPRESSION TAG SEQADV 4OIT HIS A 110 UNP A0QYH7 EXPRESSION TAG SEQADV 4OIT HIS A 111 UNP A0QYH7 EXPRESSION TAG SEQADV 4OIT HIS A 112 UNP A0QYH7 EXPRESSION TAG SEQADV 4OIT HIS A 113 UNP A0QYH7 EXPRESSION TAG SEQADV 4OIT LEU B 106 UNP A0QYH7 EXPRESSION TAG SEQADV 4OIT GLU B 107 UNP A0QYH7 EXPRESSION TAG SEQADV 4OIT HIS B 108 UNP A0QYH7 EXPRESSION TAG SEQADV 4OIT HIS B 109 UNP A0QYH7 EXPRESSION TAG SEQADV 4OIT HIS B 110 UNP A0QYH7 EXPRESSION TAG SEQADV 4OIT HIS B 111 UNP A0QYH7 EXPRESSION TAG SEQADV 4OIT HIS B 112 UNP A0QYH7 EXPRESSION TAG SEQADV 4OIT HIS B 113 UNP A0QYH7 EXPRESSION TAG SEQADV 4OIT LEU C 106 UNP A0QYH7 EXPRESSION TAG SEQADV 4OIT GLU C 107 UNP A0QYH7 EXPRESSION TAG SEQADV 4OIT HIS C 108 UNP A0QYH7 EXPRESSION TAG SEQADV 4OIT HIS C 109 UNP A0QYH7 EXPRESSION TAG SEQADV 4OIT HIS C 110 UNP A0QYH7 EXPRESSION TAG SEQADV 4OIT HIS C 111 UNP A0QYH7 EXPRESSION TAG SEQADV 4OIT HIS C 112 UNP A0QYH7 EXPRESSION TAG SEQADV 4OIT HIS C 113 UNP A0QYH7 EXPRESSION TAG SEQADV 4OIT LEU D 106 UNP A0QYH7 EXPRESSION TAG SEQADV 4OIT GLU D 107 UNP A0QYH7 EXPRESSION TAG SEQADV 4OIT HIS D 108 UNP A0QYH7 EXPRESSION TAG SEQADV 4OIT HIS D 109 UNP A0QYH7 EXPRESSION TAG SEQADV 4OIT HIS D 110 UNP A0QYH7 EXPRESSION TAG SEQADV 4OIT HIS D 111 UNP A0QYH7 EXPRESSION TAG SEQADV 4OIT HIS D 112 UNP A0QYH7 EXPRESSION TAG SEQADV 4OIT HIS D 113 UNP A0QYH7 EXPRESSION TAG
SEQRES 1 A 113 MET GLY ASP THR LEU THR ALA GLY GLN LYS LEU GLU ARG SEQRES 2 A 113 GLY GLY SER LEU GLN SER GLY ASN GLY ALA TYR THR LEU SEQRES 3 A 113 THR LEU GLN ASP ASP GLY ASN LEU VAL LEU TYR ALA ARG SEQRES 4 A 113 ASP LYS ALA VAL TRP SER THR GLY THR ASN GLY GLN ASP SEQRES 5 A 113 VAL VAL ARG ALA GLU VAL GLN THR ASP GLY ASN PHE VAL SEQRES 6 A 113 LEU TYR THR ALA GLU LYS PRO VAL TRP HIS THR ASP THR SEQRES 7 A 113 LYS GLY LYS LYS GLU VAL LYS LEU VAL LEU GLN ASP ASP SEQRES 8 A 113 ARG ASN LEU VAL LEU TYR ALA LYS ASP GLY PRO ALA TRP SEQRES 9 A 113 SER LEU GLU HIS HIS HIS HIS HIS HIS SEQRES 1 B 113 MET GLY ASP THR LEU THR ALA GLY GLN LYS LEU GLU ARG SEQRES 2 B 113 GLY GLY SER LEU GLN SER GLY ASN GLY ALA TYR THR LEU SEQRES 3 B 113 THR LEU GLN ASP ASP GLY ASN LEU VAL LEU TYR ALA ARG SEQRES 4 B 113 ASP LYS ALA VAL TRP SER THR GLY THR ASN GLY GLN ASP SEQRES 5 B 113 VAL VAL ARG ALA GLU VAL GLN THR ASP GLY ASN PHE VAL SEQRES 6 B 113 LEU TYR THR ALA GLU LYS PRO VAL TRP HIS THR ASP THR SEQRES 7 B 113 LYS GLY LYS LYS GLU VAL LYS LEU VAL LEU GLN ASP ASP SEQRES 8 B 113 ARG ASN LEU VAL LEU TYR ALA LYS ASP GLY PRO ALA TRP SEQRES 9 B 113 SER LEU GLU HIS HIS HIS HIS HIS HIS SEQRES 1 C 113 MET GLY ASP THR LEU THR ALA GLY GLN LYS LEU GLU ARG SEQRES 2 C 113 GLY GLY SER LEU GLN SER GLY ASN GLY ALA TYR THR LEU SEQRES 3 C 113 THR LEU GLN ASP ASP GLY ASN LEU VAL LEU TYR ALA ARG SEQRES 4 C 113 ASP LYS ALA VAL TRP SER THR GLY THR ASN GLY GLN ASP SEQRES 5 C 113 VAL VAL ARG ALA GLU VAL GLN THR ASP GLY ASN PHE VAL SEQRES 6 C 113 LEU TYR THR ALA GLU LYS PRO VAL TRP HIS THR ASP THR SEQRES 7 C 113 LYS GLY LYS LYS GLU VAL LYS LEU VAL LEU GLN ASP ASP SEQRES 8 C 113 ARG ASN LEU VAL LEU TYR ALA LYS ASP GLY PRO ALA TRP SEQRES 9 C 113 SER LEU GLU HIS HIS HIS HIS HIS HIS SEQRES 1 D 113 MET GLY ASP THR LEU THR ALA GLY GLN LYS LEU GLU ARG SEQRES 2 D 113 GLY GLY SER LEU GLN SER GLY ASN GLY ALA TYR THR LEU SEQRES 3 D 113 THR LEU GLN ASP ASP GLY ASN LEU VAL LEU TYR ALA ARG SEQRES 4 D 113 ASP LYS ALA VAL TRP SER THR GLY THR ASN GLY GLN ASP SEQRES 5 D 113 VAL VAL ARG ALA GLU VAL GLN THR ASP GLY ASN PHE VAL SEQRES 6 D 113 LEU TYR THR ALA GLU LYS PRO VAL TRP HIS THR ASP THR SEQRES 7 D 113 LYS GLY LYS LYS GLU VAL LYS LEU VAL LEU GLN ASP ASP SEQRES 8 D 113 ARG ASN LEU VAL LEU TYR ALA LYS ASP GLY PRO ALA TRP SEQRES 9 D 113 SER LEU GLU HIS HIS HIS HIS HIS HIS
HET MAN A 201 12 HET MAN A 202 12 HET MAN A 203 12 HET MAN B 201 12 HET BMA B 202 12 HET MAN C 201 12 HET MAN C 202 12 HET MAN C 203 12 HET MAN D 201 12 HET MAN D 202 12 HET MAN D 203 12
HETNAM MAN ALPHA-D-MANNOSE HETNAM BMA BETA-D-MANNOSE
FORMUL 5 MAN 10(C6 H12 O6) FORMUL 9 BMA C6 H12 O6 FORMUL 16 HOH *130(H2 O)
SHEET 1 A 4 THR A 4 THR A 6 0 SHEET 2 A 4 LYS B 85 LEU B 88 -1 O LEU B 86 N LEU A 5 SHEET 3 A 4 LEU B 94 ALA B 98 -1 O TYR B 97 N LYS B 85 SHEET 4 A 4 GLY B 101 SER B 105 -1 O TRP B 104 N LEU B 96 SHEET 1 B 4 LYS A 10 GLU A 12 0 SHEET 2 B 4 VAL A 53 VAL A 58 -1 O ALA A 56 N LEU A 11 SHEET 3 B 4 PHE A 64 THR A 68 -1 O TYR A 67 N VAL A 54 SHEET 4 B 4 PRO B 72 HIS B 75 -1 O TRP B 74 N LEU A 66 SHEET 1 C 4 SER A 16 SER A 19 0 SHEET 2 C 4 TYR A 24 LEU A 28 -1 O LEU A 26 N LEU A 17 SHEET 3 C 4 LEU A 34 ALA A 38 -1 O TYR A 37 N THR A 25 SHEET 4 C 4 LYS A 41 SER A 45 -1 O TRP A 44 N LEU A 36 SHEET 1 D 4 PRO A 72 HIS A 75 0 SHEET 2 D 4 PHE B 64 THR B 68 -1 O LEU B 66 N TRP A 74 SHEET 3 D 4 VAL B 53 VAL B 58 -1 N ARG B 55 O TYR B 67 SHEET 4 D 4 LYS B 10 GLU B 12 -1 N LEU B 11 O ALA B 56 SHEET 1 E 4 GLY A 101 SER A 105 0 SHEET 2 E 4 LEU A 94 ALA A 98 -1 N LEU A 96 O TRP A 104 SHEET 3 E 4 LYS A 85 LEU A 88 -1 N LYS A 85 O TYR A 97 SHEET 4 E 4 THR B 4 THR B 6 -1 O LEU B 5 N LEU A 86 SHEET 1 F 4 SER B 16 GLN B 18 0 SHEET 2 F 4 TYR B 24 LEU B 28 -1 O LEU B 26 N LEU B 17 SHEET 3 F 4 LEU B 34 ALA B 38 -1 O TYR B 37 N THR B 25 SHEET 4 F 4 LYS B 41 SER B 45 -1 O TRP B 44 N LEU B 36 SHEET 1 G 4 THR C 4 THR C 6 0 SHEET 2 G 4 LYS D 85 LEU D 88 -1 O LEU D 86 N LEU C 5 SHEET 3 G 4 LEU D 94 ALA D 98 -1 O VAL D 95 N VAL D 87 SHEET 4 G 4 GLY D 101 SER D 105 -1 O TRP D 104 N LEU D 96 SHEET 1 H 4 LYS C 10 GLU C 12 0 SHEET 2 H 4 VAL C 53 VAL C 58 -1 O ALA C 56 N LEU C 11 SHEET 3 H 4 PHE C 64 THR C 68 -1 O VAL C 65 N GLU C 57 SHEET 4 H 4 LYS D 71 HIS D 75 -1 O LYS D 71 N THR C 68 SHEET 1 I 4 SER C 16 GLN C 18 0 SHEET 2 I 4 TYR C 24 LEU C 28 -1 O LEU C 26 N LEU C 17 SHEET 3 I 4 LEU C 34 ALA C 38 -1 O TYR C 37 N THR C 25 SHEET 4 I 4 LYS C 41 SER C 45 -1 O TRP C 44 N LEU C 36 SHEET 1 J 4 PRO C 72 HIS C 75 0 SHEET 2 J 4 PHE D 64 THR D 68 -1 O LEU D 66 N TRP C 74 SHEET 3 J 4 VAL D 53 VAL D 58 -1 N GLU D 57 O VAL D 65 SHEET 4 J 4 LYS D 10 GLU D 12 -1 N LEU D 11 O ALA D 56 SHEET 1 K 4 GLY C 101 SER C 105 0 SHEET 2 K 4 LEU C 94 ALA C 98 -1 N LEU C 96 O ALA C 103 SHEET 3 K 4 LYS C 85 LEU C 88 -1 N VAL C 87 O VAL C 95 SHEET 4 K 4 THR D 4 THR D 6 -1 O LEU D 5 N LEU C 86 SHEET 1 L 4 SER D 16 GLN D 18 0 SHEET 2 L 4 TYR D 24 LEU D 28 -1 O LEU D 26 N LEU D 17 SHEET 3 L 4 LEU D 34 ALA D 38 -1 O TYR D 37 N THR D 25 SHEET 4 L 4 LYS D 41 SER D 45 -1 O LYS D 41 N ALA D 38
SITE 1 AC1 7 GLN A 29 ASP A 31 ASN A 33 TYR A 37 SITE 2 AC1 7 ASN A 49 HOH A 317 VAL C 73 SITE 1 AC2 5 GLN A 59 ASP A 61 ASN A 63 TYR A 67 SITE 2 AC2 5 PRO B 72 SITE 1 AC3 5 GLN A 89 ASP A 91 ASN A 93 TYR A 97 SITE 2 AC3 5 SER A 105 SITE 1 AC4 5 GLN B 89 ASP B 91 ASN B 93 TYR B 97 SITE 2 AC4 5 SER B 105 SITE 1 AC5 8 PRO A 72 HIS A 75 LYS A 79 GLN B 59 SITE 2 AC5 8 ASP B 61 ASN B 63 TYR B 67 MAN C 201 SITE 1 AC6 10 VAL A 73 HOH A 335 BMA B 202 GLN C 29 SITE 2 AC6 10 ASP C 31 ASN C 33 TYR C 37 ALA C 42 SITE 3 AC6 10 SER C 45 ASN C 49 SITE 1 AC7 6 GLN C 89 ASP C 91 ASN C 93 TYR C 97 SITE 2 AC7 6 SER C 105 HOH C 307 SITE 1 AC8 5 GLN C 59 ASP C 61 ASN C 63 TYR C 67 SITE 2 AC8 5 LYS D 79 SITE 1 AC9 4 GLN D 29 ASP D 31 ASN D 33 TYR D 37 SITE 1 BC1 8 GLN D 89 ASP D 91 ASN D 93 TYR D 97 SITE 2 BC1 8 SER D 105 HOH D 309 HOH D 310 HOH D 311 SITE 1 BC2 7 ASP B 40 HIS C 75 GLN D 59 ASP D 61 SITE 2 BC2 7 ASN D 63 TYR D 67 HOH D 332
CRYST1 47.030 80.080 56.910 90.00 105.98 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 0.021263 0.000000 0.006089 0.00000
SCALE2 0.000000 0.012488 0.000000 0.00000
SCALE3 0.000000 0.000000 0.018278 0.00000