HEADER TRANSFERASE 19-APR-24 9BGP TITLE X-RAY STRUCTURE OF THE AMINOTRANSFERASE FROM VIBRIO VULNIFICUS TITLE 2 RESPONSIBLE FOR THE BIOSYNTHESIS OF 2,3-DIACETAMIDO-4-AMINO-2,3,4- TITLE 3 TRIDEOXY-ARABINOSE IN THE PRESENCE OF ITS INTERNAL ALDIMINE COMPND MOL_ID: 1; COMPND 2 MOLECULE: AMINOTRANSFERASE; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: VIBRIO VULNIFICUS; SOURCE 3 ORGANISM_TAXID: 672; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 5 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 6 EXPRESSION_SYSTEM_VARIANT: ROSETTA2 KEYWDS AMINOTRANSFERASE, LIPOPOLYSACCHARIDE, PYRIDOXAL 5'-PHOSPHATE, 2, 3, KEYWDS 2 4-TRIACETAMIDO-2, 4-TRIDEOXY-L-ARABINOSE, VIBRIO VULNIFICUS, KEYWDS 3 TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR D.J.FAIT,J.B.THODEN,H.M.HOLDEN REVDAT 1 03-JUL-24 9BGP 0 JRNL AUTH D.J.FAIT,N.B.BOCKHAUS,M.M.DUNSIRN,J.B.THODEN,H.M.HOLDEN JRNL TITL BIOCHEMICAL INVESTIGATION OF AN AMINOTRANSFERASE REQUIRED JRNL TITL 2 FOR THE PRODUCTION OF JRNL TITL 3 2,3,4-TRIACETAMIDO-2,3,4-TRIDEOXY-L-ARABINOSE JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.25 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0405 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) : 1.25 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 33.45 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.6 REMARK 3 NUMBER OF REFLECTIONS : 189368 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) : 0.168 REMARK 3 R VALUE (WORKING SET) : 0.167 REMARK 3 FREE R VALUE : 0.188 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 10023 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) : 1.25 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.28 REMARK 3 REFLECTION IN BIN (WORKING SET) : 13308 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 93.58 REMARK 3 BIN R VALUE (WORKING SET) : 0.3160 REMARK 3 BIN FREE R VALUE SET COUNT : 680 REMARK 3 BIN FREE R VALUE : 0.3060 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5673 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 58 REMARK 3 SOLVENT ATOMS : 881 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 8.38 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00000 REMARK 3 B22 (A**2) : 0.00000 REMARK 3 B33 (A**2) : 0.00000 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): 0.043 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.045 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.032 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 0.776 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.963 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.953 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5901 ; 0.007 ; 0.012 REMARK 3 BOND LENGTHS OTHERS (A): 5678 ; 0.001 ; 0.016 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7989 ; 1.520 ; 1.649 REMARK 3 BOND ANGLES OTHERS (DEGREES): 13056 ; 0.511 ; 1.566 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 751 ; 6.475 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 29 ;11.688 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 976 ;14.093 ;10.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 920 ; 0.079 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 6874 ; 0.009 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1284 ; 0.001 ; 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): 2977 ; 1.003 ; 0.697 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 2977 ; 0.990 ; 0.696 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3719 ; 1.569 ; 1.246 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 3720 ; 1.571 ; 1.247 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2924 ; 2.396 ; 0.965 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 2925 ; 2.397 ; 0.966 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 4265 ; 3.679 ; 1.634 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 7040 ; 4.988 ;11.230 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 6754 ; 4.626 ; 8.650 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 9BGP COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 22-APR-24. REMARK 100 THE DEPOSITION ID IS D_1000283359. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 22-JUL-23 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : SEALED TUBE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : BRUKER D8 QUEST REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : BRUKER PHOTON II REMARK 200 INTENSITY-INTEGRATION SOFTWARE : SAINT REMARK 200 DATA SCALING SOFTWARE : SADABS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 199391 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.250 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.6 REMARK 200 DATA REDUNDANCY : 4.900 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.07300 REMARK 200 FOR THE DATA SET : 10.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.25 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.35 REMARK 200 COMPLETENESS FOR SHELL (%) : 95.6 REMARK 200 DATA REDUNDANCY IN SHELL : 2.90 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.37700 REMARK 200 FOR SHELL : 2.800 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: FOURIER SYNTHESIS REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.98 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.24 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 8-12% (W/V) POLY(ETHYLENE GLYCOL) REMARK 280 8000, 200 MM LICL, AND 100 MM HOMO-PIPES (PH 5.0), VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,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 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 6770 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 26300 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -20.0 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 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 THR A 217 REMARK 465 GLU A 218 REMARK 465 THR A 219 REMARK 465 ALA A 373 REMARK 465 ARG A 374 REMARK 465 LEU A 375 REMARK 465 GLU A 376 REMARK 465 HIS A 377 REMARK 465 HIS A 378 REMARK 465 HIS A 379 REMARK 465 HIS A 380 REMARK 465 HIS A 381 REMARK 465 HIS A 382 REMARK 465 ARG B 216 REMARK 465 THR B 217 REMARK 465 GLU B 218 REMARK 465 THR B 219 REMARK 465 ALA B 373 REMARK 465 ARG B 374 REMARK 465 LEU B 375 REMARK 465 GLU B 376 REMARK 465 HIS B 377 REMARK 465 HIS B 378 REMARK 465 HIS B 379 REMARK 465 HIS B 380 REMARK 465 HIS B 381 REMARK 465 HIS B 382 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 ARG A 216 CG CD NE CZ NH1 NH2 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 HOH B 539 O HOH B 682 1.71 REMARK 500 O HOH B 648 O HOH B 789 1.73 REMARK 500 O HOH A 763 O HOH A 855 1.80 REMARK 500 OD2 ASP B 100 O HOH B 501 1.84 REMARK 500 O HOH A 715 O HOH A 776 1.84 REMARK 500 O HOH B 629 O HOH B 688 1.85 REMARK 500 O HOH B 822 O HOH B 847 1.93 REMARK 500 O HOH A 504 O HOH A 824 1.98 REMARK 500 NH2 ARG B 231 O2 EDO B 401 1.98 REMARK 500 O2 EDO A 401 O HOH A 501 2.00 REMARK 500 OE1 GLU B 281 O HOH B 502 2.01 REMARK 500 O1 EDO A 401 O HOH A 501 2.03 REMARK 500 NE2 GLN A 37 O HOH A 502 2.05 REMARK 500 O HOH B 669 O HOH B 769 2.05 REMARK 500 O HOH B 784 O HOH B 826 2.08 REMARK 500 O HOH A 519 O HOH A 803 2.11 REMARK 500 O HOH B 506 O HOH B 892 2.13 REMARK 500 O HOH A 935 O HOH B 944 2.13 REMARK 500 O1 EDO A 406 O HOH A 503 2.15 REMARK 500 NH2 ARG A 255 O HOH A 504 2.15 REMARK 500 O HOH B 523 O HOH B 884 2.15 REMARK 500 O HOH B 504 O HOH B 791 2.16 REMARK 500 O HOH A 841 O HOH A 923 2.17 REMARK 500 O HOH B 803 O HOH B 852 2.18 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 A 903 O HOH B 940 1654 1.90 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 GLU B 281 CD GLU B 281 OE2 0.074 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 ASP B 100 CB - CA - C ANGL. DEV. = -15.3 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 GLN A 6 72.77 -161.53 REMARK 500 HIS A 28 118.78 -35.56 REMARK 500 LEU A 106 125.92 -37.67 REMARK 500 GLN A 119 27.64 -145.18 REMARK 500 HIS A 138 2.36 82.56 REMARK 500 ALA A 174 -141.06 -149.47 REMARK 500 THR A 186 -64.84 77.59 REMARK 500 GLN B 6 70.51 -158.17 REMARK 500 HIS B 28 116.93 -34.70 REMARK 500 GLN B 119 28.35 -144.31 REMARK 500 HIS B 138 0.26 84.86 REMARK 500 ALA B 174 -141.67 -147.13 REMARK 500 THR B 186 -65.10 81.55 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 ARG A 143 0.09 SIDE CHAIN REMARK 500 ARG A 306 0.10 SIDE CHAIN REMARK 500 ARG B 262 0.11 SIDE CHAIN REMARK 500 ARG B 306 0.08 SIDE CHAIN 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 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 935 DISTANCE = 5.83 ANGSTROMS REMARK 525 HOH B 945 DISTANCE = 6.52 ANGSTROMS REMARK 525 HOH B 946 DISTANCE = 6.91 ANGSTROMS DBREF 9BGP A 1 382 PDB 9BGP 9BGP 1 382 DBREF 9BGP B 1 382 PDB 9BGP 9BGP 1 382 SEQRES 1 A 382 MET ILE LYS LEU SER GLN PRO GLN ILE PRO GLU PHE ALA SEQRES 2 A 382 ILE GLU LYS VAL ALA ASP ILE LEU ARG GLY GLY GLN LEU SEQRES 3 A 382 VAL HIS GLY ASP GLU CYS ASN LEU PHE GLU GLN GLU LEU SEQRES 4 A 382 ALA GLU TYR LEU GLY VAL LYS HIS ALA LEU VAL VAL SER SEQRES 5 A 382 ASN GLY THR ALA ALA LEU HIS LEU ALA LEU LEU ALA LEU SEQRES 6 A 382 ASN ILE GLY PRO GLY ASP ALA VAL ILE VAL PRO ASP PHE SEQRES 7 A 382 THR PHE THR ALA THR ALA ASN ILE VAL GLU MET VAL GLY SEQRES 8 A 382 ALA LYS ALA ILE ILE VAL ASP VAL ASP LYS THR SER TYR SEQRES 9 A 382 ASN LEU ASP PRO GLN LYS LEU GLN ALA CYS ILE ASN GLU SEQRES 10 A 382 TRP GLN GLY PRO GLU THR LEU LYS ALA ILE MET PRO VAL SEQRES 11 A 382 LEU GLU PHE GLY ASN PRO THR HIS LEU ASN ALA TYR ARG SEQRES 12 A 382 ASP ILE ALA LYS GLN HIS GLY LEU PHE MET ILE GLU ASP SEQRES 13 A 382 ALA ALA CYS ALA LEU GLY ALA SER GLU GLN GLY THR MET SEQRES 14 A 382 VAL GLY THR ALA ALA GLU PHE GLY CYS PHE SER PHE HIS SEQRES 15 A 382 PRO ARG LLP THR LEU THR THR GLY GLU GLY GLY ALA VAL SEQRES 16 A 382 VAL THR ASN ASP THR GLU LEU TYR ASN LYS VAL ALA LEU SEQRES 17 A 382 LEU ARG SER HIS GLY MET GLN ARG THR GLU THR GLY VAL SEQRES 18 A 382 VAL PHE LYS CYS VAL GLY LEU ASN TYR ARG LEU THR ASN SEQRES 19 A 382 PHE GLN GLY ALA ILE GLY ARG ALA ILE LEU PRO GLU LEU SEQRES 20 A 382 ASN GLN TRP ILE ALA LYS ARG ARG GLU LEU ALA ASN GLN SEQRES 21 A 382 TYR ARG GLU LEU LEU ALA PRO LEU VAL GLU VAL GLY LYS SEQRES 22 A 382 LEU THR LEU PRO SER ILE VAL GLU GLY HIS SER VAL GLN SEQRES 23 A 382 THR TYR MET THR VAL LEU ALA ASP ASN PHE GLU ARG SER SEQRES 24 A 382 ASP VAL ILE GLU ALA LEU ARG SER LYS GLN VAL GLU SER SEQRES 25 A 382 ASN LEU GLY ALA GLN SER MET SER SER LEU GLY LEU PHE SEQRES 26 A 382 ASN HIS LYS TYR ASN THR GLU GLN GLN TYR PRO GLU GLY SEQRES 27 A 382 THR ARG LEU TYR THR HIS GLY LEU ALA LEU PRO LEU HIS SEQRES 28 A 382 GLU GLY MET ASN ALA GLU ASP VAL ALA THR VAL VAL SER SEQRES 29 A 382 ALA LEU THR GLU VAL LEU GLU HIS ALA ARG LEU GLU HIS SEQRES 30 A 382 HIS HIS HIS HIS HIS SEQRES 1 B 382 MET ILE LYS LEU SER GLN PRO GLN ILE PRO GLU PHE ALA SEQRES 2 B 382 ILE GLU LYS VAL ALA ASP ILE LEU ARG GLY GLY GLN LEU SEQRES 3 B 382 VAL HIS GLY ASP GLU CYS ASN LEU PHE GLU GLN GLU LEU SEQRES 4 B 382 ALA GLU TYR LEU GLY VAL LYS HIS ALA LEU VAL VAL SER SEQRES 5 B 382 ASN GLY THR ALA ALA LEU HIS LEU ALA LEU LEU ALA LEU SEQRES 6 B 382 ASN ILE GLY PRO GLY ASP ALA VAL ILE VAL PRO ASP PHE SEQRES 7 B 382 THR PHE THR ALA THR ALA ASN ILE VAL GLU MET VAL GLY SEQRES 8 B 382 ALA LYS ALA ILE ILE VAL ASP VAL ASP LYS THR SER TYR SEQRES 9 B 382 ASN LEU ASP PRO GLN LYS LEU GLN ALA CYS ILE ASN GLU SEQRES 10 B 382 TRP GLN GLY PRO GLU THR LEU LYS ALA ILE MET PRO VAL SEQRES 11 B 382 LEU GLU PHE GLY ASN PRO THR HIS LEU ASN ALA TYR ARG SEQRES 12 B 382 ASP ILE ALA LYS GLN HIS GLY LEU PHE MET ILE GLU ASP SEQRES 13 B 382 ALA ALA CYS ALA LEU GLY ALA SER GLU GLN GLY THR MET SEQRES 14 B 382 VAL GLY THR ALA ALA GLU PHE GLY CYS PHE SER PHE HIS SEQRES 15 B 382 PRO ARG LLP THR LEU THR THR GLY GLU GLY GLY ALA VAL SEQRES 16 B 382 VAL THR ASN ASP THR GLU LEU TYR ASN LYS VAL ALA LEU SEQRES 17 B 382 LEU ARG SER HIS GLY MET GLN ARG THR GLU THR GLY VAL SEQRES 18 B 382 VAL PHE LYS CYS VAL GLY LEU ASN TYR ARG LEU THR ASN SEQRES 19 B 382 PHE GLN GLY ALA ILE GLY ARG ALA ILE LEU PRO GLU LEU SEQRES 20 B 382 ASN GLN TRP ILE ALA LYS ARG ARG GLU LEU ALA ASN GLN SEQRES 21 B 382 TYR ARG GLU LEU LEU ALA PRO LEU VAL GLU VAL GLY LYS SEQRES 22 B 382 LEU THR LEU PRO SER ILE VAL GLU GLY HIS SER VAL GLN SEQRES 23 B 382 THR TYR MET THR VAL LEU ALA ASP ASN PHE GLU ARG SER SEQRES 24 B 382 ASP VAL ILE GLU ALA LEU ARG SER LYS GLN VAL GLU SER SEQRES 25 B 382 ASN LEU GLY ALA GLN SER MET SER SER LEU GLY LEU PHE SEQRES 26 B 382 ASN HIS LYS TYR ASN THR GLU GLN GLN TYR PRO GLU GLY SEQRES 27 B 382 THR ARG LEU TYR THR HIS GLY LEU ALA LEU PRO LEU HIS SEQRES 28 B 382 GLU GLY MET ASN ALA GLU ASP VAL ALA THR VAL VAL SER SEQRES 29 B 382 ALA LEU THR GLU VAL LEU GLU HIS ALA ARG LEU GLU HIS SEQRES 30 B 382 HIS HIS HIS HIS HIS HET LLP A 185 24 HET LLP B 185 24 HET EDO A 401 8 HET EDO A 402 4 HET EDO A 403 4 HET EDO A 404 4 HET EDO A 405 8 HET EDO A 406 4 HET EDO A 407 4 HET CL A 408 1 HET EDO B 401 8 HET EDO B 402 4 HET EDO B 403 4 HET EDO B 404 4 HET EDO B 405 4 HET EDO B 406 4 HET EDO B 407 4 HET CL B 408 1 HETNAM LLP (2S)-2-AMINO-6-[[3-HYDROXY-2-METHYL-5- HETNAM 2 LLP (PHOSPHONOOXYMETHYL)PYRIDIN-4- HETNAM 3 LLP YL]METHYLIDENEAMINO]HEXANOIC ACID HETNAM EDO 1,2-ETHANEDIOL HETNAM CL CHLORIDE ION HETSYN LLP N'-PYRIDOXYL-LYSINE-5'-MONOPHOSPHATE HETSYN EDO ETHYLENE GLYCOL FORMUL 1 LLP 2(C14 H22 N3 O7 P) FORMUL 3 EDO 14(C2 H6 O2) FORMUL 10 CL 2(CL 1-) FORMUL 19 HOH *881(H2 O) HELIX 1 AA1 PRO A 10 GLY A 24 1 15 HELIX 2 AA2 GLY A 29 GLY A 44 1 16 HELIX 3 AA3 ASN A 53 LEU A 65 1 13 HELIX 4 AA4 THR A 81 VAL A 90 1 10 HELIX 5 AA5 ASP A 107 TRP A 118 1 12 HELIX 6 AA6 LEU A 131 ASN A 135 5 5 HELIX 7 AA7 HIS A 138 HIS A 149 1 12 HELIX 8 AA8 ASP A 199 SER A 211 1 13 HELIX 9 AA9 THR A 233 LEU A 244 1 12 HELIX 10 AB1 GLU A 246 LEU A 265 1 20 HELIX 11 AB2 LEU A 265 VAL A 271 1 7 HELIX 12 AB3 GLU A 297 LYS A 308 1 12 HELIX 13 AB4 SER A 320 LEU A 322 5 3 HELIX 14 AB5 HIS A 327 GLN A 333 1 7 HELIX 15 AB6 TYR A 335 HIS A 344 1 10 HELIX 16 AB7 ASN A 355 HIS A 372 1 18 HELIX 17 AB8 PRO B 10 GLY B 24 1 15 HELIX 18 AB9 GLY B 29 GLY B 44 1 16 HELIX 19 AC1 ASN B 53 LEU B 65 1 13 HELIX 20 AC2 THR B 81 VAL B 90 1 10 HELIX 21 AC3 ASP B 107 TRP B 118 1 12 HELIX 22 AC4 LEU B 131 ASN B 135 5 5 HELIX 23 AC5 HIS B 138 HIS B 149 1 12 HELIX 24 AC6 ASP B 199 SER B 211 1 13 HELIX 25 AC7 THR B 233 LEU B 244 1 12 HELIX 26 AC8 GLU B 246 VAL B 271 1 26 HELIX 27 AC9 GLU B 297 LYS B 308 1 12 HELIX 28 AD1 SER B 320 LEU B 322 5 3 HELIX 29 AD2 HIS B 327 GLN B 333 1 7 HELIX 30 AD3 TYR B 335 HIS B 344 1 10 HELIX 31 AD4 ASN B 355 HIS B 372 1 18 SHEET 1 AA1 7 HIS A 47 VAL A 51 0 SHEET 2 AA1 7 GLY A 193 THR A 197 -1 O VAL A 195 N LEU A 49 SHEET 3 AA1 7 PHE A 176 SER A 180 -1 N GLY A 177 O VAL A 196 SHEET 4 AA1 7 PHE A 152 ASP A 156 1 N GLU A 155 O PHE A 176 SHEET 5 AA1 7 THR A 123 ILE A 127 1 N LYS A 125 O PHE A 152 SHEET 6 AA1 7 ASP A 71 PRO A 76 1 N ALA A 72 O LYS A 125 SHEET 7 AA1 7 LYS A 93 VAL A 97 1 O ILE A 95 N VAL A 73 SHEET 1 AA2 2 PHE A 78 THR A 79 0 SHEET 2 AA2 2 GLN A 317 SER A 318 -1 O GLN A 317 N THR A 79 SHEET 1 AA3 2 SER A 164 GLU A 165 0 SHEET 2 AA3 2 THR A 168 MET A 169 -1 O THR A 168 N GLU A 165 SHEET 1 AA4 2 MET A 214 GLN A 215 0 SHEET 2 AA4 2 VAL A 222 PHE A 223 -1 O VAL A 222 N GLN A 215 SHEET 1 AA5 3 LEU A 274 THR A 275 0 SHEET 2 AA5 3 TYR A 288 LEU A 292 -1 O VAL A 291 N THR A 275 SHEET 3 AA5 3 GLY A 345 LEU A 348 -1 O LEU A 346 N THR A 290 SHEET 1 AA6 7 HIS B 47 VAL B 51 0 SHEET 2 AA6 7 GLY B 193 THR B 197 -1 O VAL B 195 N LEU B 49 SHEET 3 AA6 7 PHE B 176 SER B 180 -1 N GLY B 177 O VAL B 196 SHEET 4 AA6 7 PHE B 152 ASP B 156 1 N GLU B 155 O PHE B 176 SHEET 5 AA6 7 THR B 123 ILE B 127 1 N LYS B 125 O PHE B 152 SHEET 6 AA6 7 ASP B 71 PRO B 76 1 N ALA B 72 O LYS B 125 SHEET 7 AA6 7 LYS B 93 VAL B 97 1 O ILE B 95 N VAL B 73 SHEET 1 AA7 2 PHE B 78 THR B 79 0 SHEET 2 AA7 2 GLN B 317 SER B 318 -1 O GLN B 317 N THR B 79 SHEET 1 AA8 2 SER B 164 GLU B 165 0 SHEET 2 AA8 2 THR B 168 MET B 169 -1 O THR B 168 N GLU B 165 SHEET 1 AA9 2 MET B 214 GLN B 215 0 SHEET 2 AA9 2 VAL B 222 PHE B 223 -1 O VAL B 222 N GLN B 215 SHEET 1 AB1 3 LEU B 274 THR B 275 0 SHEET 2 AB1 3 TYR B 288 LEU B 292 -1 O VAL B 291 N THR B 275 SHEET 3 AB1 3 GLY B 345 LEU B 348 -1 O LEU B 346 N THR B 290 LINK C ARG A 184 N LLP A 185 1555 1555 1.40 LINK C LLP A 185 N THR A 186 1555 1555 1.33 LINK C ARG B 184 N LLP B 185 1555 1555 1.38 LINK C LLP B 185 N THR B 186 1555 1555 1.35 CISPEP 1 GLY A 120 PRO A 121 0 8.35 CISPEP 2 GLY B 120 PRO B 121 0 10.39 CRYST1 53.110 53.116 70.322 82.59 82.56 74.40 P 1 2 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 0.018829 -0.005258 -0.001948 0.00000 SCALE2 0.000000 0.019547 -0.001938 0.00000 SCALE3 0.000000 0.000000 0.014411 0.00000