HEADER LYASE 06-AUG-09 3A5F TITLE HIGH-RESOLUTION STRUCTURE OF DHDPS FROM CLOSTRIDIUM BOTULINUM IN TITLE 2 COMPLEX WITH PYRUVATE COMPND MOL_ID: 1; COMPND 2 MOLECULE: DIHYDRODIPICOLINATE SYNTHASE; COMPND 3 CHAIN: A, B; COMPND 4 EC: 4.2.1.52; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CLOSTRIDIUM BOTULINUM A; SOURCE 3 ORGANISM_TAXID: 441770; SOURCE 4 GENE: DAPA; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID KEYWDS TIM BARREL, ENZYME, AMINO-ACID BIOSYNTHESIS, DIAMINOPIMELATE KEYWDS 2 BIOSYNTHESIS, LYASE, LYSINE BIOSYNTHESIS, SCHIFF BASE EXPDTA X-RAY DIFFRACTION AUTHOR S.C.ATKINSON,R.C.J.DOBSON,M.A.PERUGINI REVDAT 4 29-NOV-23 3A5F 1 REMARK REVDAT 3 01-NOV-23 3A5F 1 REMARK LINK REVDAT 2 26-DEC-12 3A5F 1 AUTHOR REMARK TITLE VERSN REVDAT 1 30-JUN-10 3A5F 0 JRNL AUTH R.C.J.DOBSON,S.C.ATKINSON JRNL TITL THE HIGH RESOLUTION STRUCTURE OF DHDPS FROM CLOSTRIDIUM JRNL TITL 2 BOTULINUM JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.19 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0102 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) : 1.19 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 25.79 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 184727 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) : 0.113 REMARK 3 R VALUE (WORKING SET) : 0.112 REMARK 3 FREE R VALUE : 0.140 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 2.000 REMARK 3 FREE R VALUE TEST SET COUNT : 3773 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) : 1.19 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.22 REMARK 3 REFLECTION IN BIN (WORKING SET) : 13605 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.1660 REMARK 3 BIN FREE R VALUE SET COUNT : 246 REMARK 3 BIN FREE R VALUE : 0.2080 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4403 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 12 REMARK 3 SOLVENT ATOMS : 1007 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 10.72 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.22000 REMARK 3 B22 (A**2) : 0.24000 REMARK 3 B33 (A**2) : -0.19000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.14000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.028 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.029 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.018 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 0.887 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.984 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.977 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4689 ; 0.024 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 3095 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6404 ; 2.076 ; 1.986 REMARK 3 BOND ANGLES OTHERS (DEGREES): 7747 ; 1.425 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 639 ; 6.166 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 180 ;40.308 ;26.667 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 874 ;10.996 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 11 ;16.706 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 785 ; 0.148 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5180 ; 0.012 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 797 ; 0.005 ; 0.020 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): 2985 ; 2.265 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1211 ; 1.003 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4894 ; 3.084 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1704 ; 5.271 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1479 ; 7.719 ; 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): 7784 ; 2.190 ; 3.000 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 : BABINET MODEL WITH 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 3A5F COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 07-AUG-09. REMARK 100 THE DEPOSITION ID IS D_1000028833. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 04-APR-09 REMARK 200 TEMPERATURE (KELVIN) : 110 REMARK 200 PH : 8 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : AUSTRALIAN SYNCHROTRON REMARK 200 BEAMLINE : MX1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9536 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 210R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 188454 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.190 REMARK 200 RESOLUTION RANGE LOW (A) : 25.790 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 5.100 REMARK 200 R MERGE (I) : 0.06900 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 13.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.19 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.25 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : 5.00 REMARK 200 R MERGE FOR SHELL (I) : 0.51200 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: PHASES REMARK 200 STARTING MODEL: 3BI8 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.93 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.36 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 200MM NACL, 20%(W/V) PEG 3350, PH 8, REMARK 280 VAPOR DIFFUSION, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z 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 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 71.67900 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 27.41800 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 71.67900 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 27.41800 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 9130 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 38500 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -70.0 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 BIOMT1 2 -1.000000 0.000000 0.000000 -87.54205 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 -76.01200 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 5 NZ REMARK 470 LYS A 34 CE NZ REMARK 470 LYS A 36 NZ REMARK 470 LYS A 121 CE NZ REMARK 470 LYS A 156 CE NZ REMARK 470 LYS A 181 CE NZ REMARK 470 LYS A 226 CE NZ REMARK 470 LYS A 284 NZ REMARK 470 LYS B 5 NZ REMARK 470 LYS B 121 NZ REMARK 470 LYS B 156 CD CE NZ REMARK 470 LYS B 181 CE NZ REMARK 470 LYS B 287 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 OE2 GLU A 229 O HOH A 464 1.74 REMARK 500 ND2 ASN A 17 O HOH A 863 1.79 REMARK 500 ND2 ASN B 242 O HOH B 677 1.89 REMARK 500 O HOH B 890 O HOH B 995 1.90 REMARK 500 OH TYR A 134 O HOH A 471 2.00 REMARK 500 O HOH B 601 O HOH B 991 2.03 REMARK 500 OE1 GLU A 213 O HOH A 839 2.07 REMARK 500 O HOH A 635 O HOH A 804 2.09 REMARK 500 O HOH A 1003 O HOH A 1010 2.13 REMARK 500 OG SER A 80 O HOH A 505 2.13 REMARK 500 OE1 GLU B 220 O HOH B 467 2.13 REMARK 500 OD1 ASN B 81 O HOH B 1004 2.14 REMARK 500 O LYS A 70 O HOH A 909 2.16 REMARK 500 O HOH B 456 O HOH B 656 2.17 REMARK 500 OD2 ASP B 125 O HOH B 986 2.19 REMARK 500 O HOH B 319 O HOH B 741 2.19 REMARK 500 OD1 ASP A 23 O HOH A 649 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH B 628 O HOH B 628 2455 2.17 REMARK 500 REMARK 500 REMARK: NULL 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 LYS A 110 CD LYS A 110 CE -0.155 REMARK 500 GLU A 229 CB GLU A 229 CG 0.123 REMARK 500 GLU A 229 CD GLU A 229 OE2 0.089 REMARK 500 PHE A 245 CZ PHE A 245 CE2 -0.149 REMARK 500 GLU A 280 CG GLU A 280 CD 0.116 REMARK 500 GLU A 280 CG GLU A 280 CD 0.090 REMARK 500 SER B 80 CB SER B 80 OG -0.124 REMARK 500 LYS B 150 CE LYS B 150 NZ 0.223 REMARK 500 GLU B 273 CB GLU B 273 CG -0.120 REMARK 500 GLU B 280 CG GLU B 280 CD 0.148 REMARK 500 GLU B 280 CD GLU B 280 OE1 0.115 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 GLU A 229 OE1 - CD - OE2 ANGL. DEV. = -8.0 DEGREES REMARK 500 GLU A 229 CG - CD - OE2 ANGL. DEV. = 15.3 DEGREES REMARK 500 LYS B 150 CD - CE - NZ ANGL. DEV. = 21.4 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 TYR A 108 -69.21 72.05 REMARK 500 LYS A 110 -169.56 61.42 REMARK 500 THR A 111 -178.82 -172.39 REMARK 500 TYR B 108 -70.55 73.36 REMARK 500 LYS B 110 -168.84 58.78 REMARK 500 THR B 111 -177.41 -172.04 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 GOL A 293 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 1 REMARK 999 REMARK 999 SEQUENCE REMARK 999 KPI IS LYS MODIFIED WITH PYRUVIC ACID. DBREF 3A5F A 2 292 UNP A7FYA1 A7FYA1_CLOB1 2 292 DBREF 3A5F B 2 292 UNP A7FYA1 A7FYA1_CLOB1 2 292 SEQRES 1 A 291 SER ILE PHE LYS GLY SER GLY VAL ALA ILE ILE THR PRO SEQRES 2 A 291 PHE THR ASN THR GLY VAL ASP PHE ASP LYS LEU SER GLU SEQRES 3 A 291 LEU ILE GLU TRP HIS ILE LYS SER LYS THR ASP ALA ILE SEQRES 4 A 291 ILE VAL CYS GLY THR THR GLY GLU ALA THR THR MET THR SEQRES 5 A 291 GLU THR GLU ARG LYS GLU THR ILE LYS PHE VAL ILE ASP SEQRES 6 A 291 LYS VAL ASN LYS ARG ILE PRO VAL ILE ALA GLY THR GLY SEQRES 7 A 291 SER ASN ASN THR ALA ALA SER ILE ALA MET SER LYS TRP SEQRES 8 A 291 ALA GLU SER ILE GLY VAL ASP GLY LEU LEU VAL ILE THR SEQRES 9 A 291 PRO TYR TYR ASN LYS THR THR GLN LYS GLY LEU VAL LYS SEQRES 10 A 291 HIS PHE LYS ALA VAL SER ASP ALA VAL SER THR PRO ILE SEQRES 11 A 291 ILE ILE TYR ASN VAL PRO GLY ARG THR GLY LEU ASN ILE SEQRES 12 A 291 THR PRO GLY THR LEU LYS GLU LEU CYS GLU ASP LYS ASN SEQRES 13 A 291 ILE VAL ALA VAL KPI GLU ALA SER GLY ASN ILE SER GLN SEQRES 14 A 291 ILE ALA GLN ILE LYS ALA LEU CYS GLY ASP LYS LEU ASP SEQRES 15 A 291 ILE TYR SER GLY ASN ASP ASP GLN ILE ILE PRO ILE LEU SEQRES 16 A 291 ALA LEU GLY GLY ILE GLY VAL ILE SER VAL LEU ALA ASN SEQRES 17 A 291 VAL ILE PRO GLU ASP VAL HIS ASN MET CYS GLU LEU TYR SEQRES 18 A 291 LEU ASN GLY LYS VAL ASN GLU ALA LEU LYS ILE GLN LEU SEQRES 19 A 291 ASP SER LEU ALA LEU THR ASN ALA LEU PHE ILE GLU THR SEQRES 20 A 291 ASN PRO ILE PRO VAL LYS THR ALA MET ASN LEU MET ASN SEQRES 21 A 291 MET LYS VAL GLY ASP LEU ARG LEU PRO LEU CYS GLU MET SEQRES 22 A 291 ASN GLU ASN ASN LEU GLU ILE LEU LYS LYS GLU LEU LYS SEQRES 23 A 291 ALA TYR ASN LEU MET SEQRES 1 B 291 SER ILE PHE LYS GLY SER GLY VAL ALA ILE ILE THR PRO SEQRES 2 B 291 PHE THR ASN THR GLY VAL ASP PHE ASP LYS LEU SER GLU SEQRES 3 B 291 LEU ILE GLU TRP HIS ILE LYS SER LYS THR ASP ALA ILE SEQRES 4 B 291 ILE VAL CYS GLY THR THR GLY GLU ALA THR THR MET THR SEQRES 5 B 291 GLU THR GLU ARG LYS GLU THR ILE LYS PHE VAL ILE ASP SEQRES 6 B 291 LYS VAL ASN LYS ARG ILE PRO VAL ILE ALA GLY THR GLY SEQRES 7 B 291 SER ASN ASN THR ALA ALA SER ILE ALA MET SER LYS TRP SEQRES 8 B 291 ALA GLU SER ILE GLY VAL ASP GLY LEU LEU VAL ILE THR SEQRES 9 B 291 PRO TYR TYR ASN LYS THR THR GLN LYS GLY LEU VAL LYS SEQRES 10 B 291 HIS PHE LYS ALA VAL SER ASP ALA VAL SER THR PRO ILE SEQRES 11 B 291 ILE ILE TYR ASN VAL PRO GLY ARG THR GLY LEU ASN ILE SEQRES 12 B 291 THR PRO GLY THR LEU LYS GLU LEU CYS GLU ASP LYS ASN SEQRES 13 B 291 ILE VAL ALA VAL KPI GLU ALA SER GLY ASN ILE SER GLN SEQRES 14 B 291 ILE ALA GLN ILE LYS ALA LEU CYS GLY ASP LYS LEU ASP SEQRES 15 B 291 ILE TYR SER GLY ASN ASP ASP GLN ILE ILE PRO ILE LEU SEQRES 16 B 291 ALA LEU GLY GLY ILE GLY VAL ILE SER VAL LEU ALA ASN SEQRES 17 B 291 VAL ILE PRO GLU ASP VAL HIS ASN MET CYS GLU LEU TYR SEQRES 18 B 291 LEU ASN GLY LYS VAL ASN GLU ALA LEU LYS ILE GLN LEU SEQRES 19 B 291 ASP SER LEU ALA LEU THR ASN ALA LEU PHE ILE GLU THR SEQRES 20 B 291 ASN PRO ILE PRO VAL LYS THR ALA MET ASN LEU MET ASN SEQRES 21 B 291 MET LYS VAL GLY ASP LEU ARG LEU PRO LEU CYS GLU MET SEQRES 22 B 291 ASN GLU ASN ASN LEU GLU ILE LEU LYS LYS GLU LEU LYS SEQRES 23 B 291 ALA TYR ASN LEU MET MODRES 3A5F KPI A 162 LYS MODRES 3A5F KPI B 162 LYS HET KPI A 162 14 HET KPI B 162 14 HET GOL A 293 6 HET GOL B 1 6 HETNAM KPI (2S)-2-AMINO-6-[(1-HYDROXY-1-OXO-PROPAN-2-YLIDENE) HETNAM 2 KPI AMINO]HEXANOIC ACID HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 1 KPI 2(C9 H16 N2 O4) FORMUL 3 GOL 2(C3 H8 O3) FORMUL 5 HOH *1007(H2 O) HELIX 1 1 ASP A 21 SER A 35 1 15 HELIX 2 2 GLY A 44 MET A 52 5 9 HELIX 3 3 THR A 53 ASN A 69 1 17 HELIX 4 4 ASN A 82 ILE A 96 1 15 HELIX 5 5 THR A 112 ALA A 126 1 15 HELIX 6 6 VAL A 136 GLY A 141 1 6 HELIX 7 7 THR A 145 CYS A 153 1 9 HELIX 8 8 ASN A 167 GLY A 179 1 13 HELIX 9 9 ASP A 180 LEU A 182 5 3 HELIX 10 10 ASN A 188 ASP A 190 5 3 HELIX 11 11 GLN A 191 LEU A 198 1 8 HELIX 12 12 VAL A 206 VAL A 210 5 5 HELIX 13 13 ILE A 211 ASN A 224 1 14 HELIX 14 14 LYS A 226 SER A 237 1 12 HELIX 15 15 SER A 237 LEU A 244 1 8 HELIX 16 16 PRO A 250 MET A 260 1 11 HELIX 17 17 ASN A 275 TYR A 289 1 15 HELIX 18 18 ASP B 21 SER B 35 1 15 HELIX 19 19 GLY B 44 MET B 52 5 9 HELIX 20 20 THR B 53 ASN B 69 1 17 HELIX 21 21 ASN B 82 ILE B 96 1 15 HELIX 22 22 THR B 112 ALA B 126 1 15 HELIX 23 23 VAL B 136 GLY B 141 1 6 HELIX 24 24 THR B 145 CYS B 153 1 9 HELIX 25 25 ASN B 167 GLY B 179 1 13 HELIX 26 26 ASP B 180 LEU B 182 5 3 HELIX 27 27 ASN B 188 ASP B 190 5 3 HELIX 28 28 GLN B 191 LEU B 198 1 8 HELIX 29 29 VAL B 206 VAL B 210 5 5 HELIX 30 30 ILE B 211 ASN B 224 1 14 HELIX 31 31 LYS B 226 SER B 237 1 12 HELIX 32 32 SER B 237 LEU B 244 1 8 HELIX 33 33 PRO B 250 MET B 260 1 11 HELIX 34 34 ASN B 275 TYR B 289 1 15 SHEET 1 A 9 GLY A 6 ALA A 10 0 SHEET 2 A 9 ALA A 39 VAL A 42 1 O ILE A 41 N VAL A 9 SHEET 3 A 9 VAL A 74 GLY A 77 1 O ILE A 75 N VAL A 42 SHEET 4 A 9 GLY A 100 ILE A 104 1 O LEU A 102 N ALA A 76 SHEET 5 A 9 ILE A 131 ASN A 135 1 O ILE A 132 N LEU A 101 SHEET 6 A 9 ILE A 158 GLU A 163 1 O KPI A 162 N ILE A 133 SHEET 7 A 9 ASP A 183 SER A 186 1 O TYR A 185 N VAL A 161 SHEET 8 A 9 GLY A 202 SER A 205 1 O GLY A 202 N SER A 186 SHEET 9 A 9 GLY A 6 ALA A 10 1 N GLY A 8 O VAL A 203 SHEET 1 B 9 GLY B 6 ALA B 10 0 SHEET 2 B 9 ALA B 39 VAL B 42 1 O ILE B 41 N VAL B 9 SHEET 3 B 9 VAL B 74 GLY B 77 1 O ILE B 75 N VAL B 42 SHEET 4 B 9 GLY B 100 ILE B 104 1 O LEU B 102 N ALA B 76 SHEET 5 B 9 ILE B 131 ASN B 135 1 O ILE B 132 N LEU B 101 SHEET 6 B 9 ILE B 158 GLU B 163 1 O KPI B 162 N ILE B 133 SHEET 7 B 9 ASP B 183 SER B 186 1 O TYR B 185 N VAL B 161 SHEET 8 B 9 GLY B 202 SER B 205 1 O GLY B 202 N SER B 186 SHEET 9 B 9 GLY B 6 ALA B 10 1 N GLY B 8 O VAL B 203 SHEET 1 C 2 PHE B 15 THR B 16 0 SHEET 2 C 2 GLY B 19 VAL B 20 -1 O GLY B 19 N THR B 16 LINK C VAL A 161 N KPI A 162 1555 1555 1.33 LINK C KPI A 162 N GLU A 163 1555 1555 1.32 LINK C VAL B 161 N KPI B 162 1555 1555 1.33 LINK C KPI B 162 N GLU B 163 1555 1555 1.33 CISPEP 1 ASN A 249 PRO A 250 0 10.05 CISPEP 2 LEU A 269 PRO A 270 0 24.24 CISPEP 3 ASN B 249 PRO B 250 0 10.10 CISPEP 4 LEU B 269 PRO B 270 0 21.75 SITE 1 AC1 6 ASN A 258 ASP A 266 LEU A 267 HOH A 329 SITE 2 AC1 6 HOH A 366 HOH A 911 SITE 1 AC2 6 ASN B 258 ASP B 266 LEU B 267 HOH B 341 SITE 2 AC2 6 HOH B 353 HOH B 747 CRYST1 143.358 54.836 94.304 90.00 126.29 90.00 C 1 2 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 0.006976 0.000000 0.005122 0.00000 SCALE2 0.000000 0.018236 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013156 0.00000