HEADER TRANSFERASE 06-JUL-10 3NUB TITLE WBPE, AN AMINOTRANSFERASE FROM PSEUDOMONAS AERUGINOSA INVOLVED IN O- TITLE 2 ANTIGEN ASSEMBLY IN COMPLEX WITH PRODUCT AS THE EXTERNAL ALDIMINE COMPND MOL_ID: 1; COMPND 2 MOLECULE: AMINOTRANSFERASE WBPE; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PSEUDOMONAS AERUGINOSA; SOURCE 3 ORGANISM_TAXID: 287; SOURCE 4 STRAIN: PAO1-LAC; SOURCE 5 GENE: PA3155, WBPE; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)-RIL; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET32A KEYWDS DOMAIN-SWAPPED BETA HAIRPIN, AMINOTRANSFERASE, EXTERNAL ALDIMINE, KEYWDS 2 PLP, PMP, UDP-GLCNAC(3NH2)A, LIPOPOLYSACCHARIDE, PSEUDOMONAS KEYWDS 3 AERUGINOSA, O-ANTIGEN, B-BAND, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR A.LARKIN,N.B.OLIVIER,B.IMPERIALI REVDAT 4 06-SEP-23 3NUB 1 REMARK REVDAT 3 25-AUG-10 3NUB 1 JRNL REVDAT 2 04-AUG-10 3NUB 1 JRNL REVDAT 1 28-JUL-10 3NUB 0 JRNL AUTH A.LARKIN,N.B.OLIVIER,B.IMPERIALI JRNL TITL STRUCTURAL ANALYSIS OF WBPE FROM PSEUDOMONAS AERUGINOSA JRNL TITL 2 PAO1: A NUCLEOTIDE SUGAR AMINOTRANSFERASE INVOLVED IN JRNL TITL 3 O-ANTIGEN ASSEMBLY JRNL REF BIOCHEMISTRY V. 49 7227 2010 JRNL REFN ISSN 0006-2960 JRNL PMID 20604544 JRNL DOI 10.1021/BI100805B REMARK 2 REMARK 2 RESOLUTION. 1.90 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) : 1.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.90 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.7 REMARK 3 NUMBER OF REFLECTIONS : 46379 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) : 0.202 REMARK 3 R VALUE (WORKING SET) : 0.199 REMARK 3 FREE R VALUE : 0.243 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2470 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) : 1.90 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.95 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3247 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 95.65 REMARK 3 BIN R VALUE (WORKING SET) : 0.2800 REMARK 3 BIN FREE R VALUE SET COUNT : 160 REMARK 3 BIN FREE R VALUE : 0.3410 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5407 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 121 REMARK 3 SOLVENT ATOMS : 502 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 19.44 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.02000 REMARK 3 B22 (A**2) : 0.00000 REMARK 3 B33 (A**2) : 0.02000 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): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.171 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.116 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.908 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.937 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.914 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5640 ; 0.009 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7700 ; 1.284 ; 2.002 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 716 ; 5.642 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 227 ;35.591 ;24.802 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 898 ;14.912 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 28 ;19.426 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 907 ; 0.084 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4232 ; 0.005 ; 0.021 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): 3575 ; 0.495 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 5767 ; 0.866 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2065 ; 1.421 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1932 ; 2.323 ; 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 3NUB COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 13-JUL-10. REMARK 100 THE DEPOSITION ID IS D_1000060289. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 20-FEB-10 REMARK 200 TEMPERATURE (KELVIN) : 110 REMARK 200 PH : 5.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X6A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.978 REMARK 200 MONOCHROMATOR : SI(111) CHANNEL CUT REMARK 200 MONOCHROMATOR REMARK 200 OPTICS : TOROIDAL FOCUSING MIRROR REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 270 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 46379 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.900 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.6 REMARK 200 DATA REDUNDANCY : 7.300 REMARK 200 R MERGE (I) : 0.07100 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 36.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.93 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 6.70 REMARK 200 R MERGE FOR SHELL (I) : 0.49200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.000 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: PDB ENTRY 3NU7 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 38.19 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.99 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: CRYSTALLIZATION CONDITIONS: 0.1 M BIS REMARK 280 -TRIS, PH 5.5, 0.2 M AMMONIUM SULFATE, 25% PEG 3350 IN THE REMARK 280 RESERVOIR; PROTEIN SOLUTION CONTAINS 25 MM HEPES, PH 8.0, 100 MM REMARK 280 NACL, 0.5% GLYCEROL; PROTEIN INCUBATED WITH 50 UM PLP AND 20 MM REMARK 280 UDP-GLCNAC(3NH2)A FOR 1 HR PRIOR TO SETTING UP TRAY; DROP MADE REMARK 280 BY MIXING 1.5 UL OF PROTEIN AND RESERVOIR SOLUTIONS., VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 2 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 38.96200 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 74.33950 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 38.96200 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 74.33950 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4970 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 25770 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -31.0 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH B 471 LIES ON A SPECIAL POSITION. 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 ASN A 359 REMARK 465 ASN B 359 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 8 CG CD CE NZ REMARK 470 ARG A 13 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 218 NE CZ NH1 NH2 REMARK 470 LYS A 299 CE NZ REMARK 470 LYS A 351 CG CD CE NZ REMARK 470 ARG B 27 CZ NH1 NH2 REMARK 470 ARG B 218 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 254 CE NZ REMARK 470 GLU B 292 CG CD OE1 OE2 REMARK 470 GLU B 322 CG CD OE1 OE2 REMARK 470 LYS B 323 CE NZ REMARK 470 LYS B 325 CG CD CE NZ REMARK 470 LYS B 351 CG CD CE 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 O HOH A 399 O HOH A 452 1.85 REMARK 500 O HOH A 387 O HOH A 399 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 A 451 O HOH B 485 4546 1.53 REMARK 500 O HOH A 445 O HOH B 474 3456 2.01 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 ALA A 300 CB - CA - C ANGL. DEV. = -41.1 DEGREES REMARK 500 ALA A 300 N - CA - C ANGL. DEV. = 28.9 DEGREES REMARK 500 ALA A 301 N - CA - CB ANGL. DEV. = -20.0 DEGREES REMARK 500 ALA A 301 N - CA - C ANGL. DEV. = 40.5 DEGREES REMARK 500 ILE B 353 CB - CA - C ANGL. DEV. = -13.6 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 CYS A 171 -2.45 85.05 REMARK 500 CYS A 189 -166.63 -100.58 REMARK 500 TYR A 190 51.12 -106.91 REMARK 500 TYR A 219 -5.96 72.38 REMARK 500 ARG A 291 -81.97 49.99 REMARK 500 ALA A 301 -51.78 73.18 REMARK 500 CYS A 354 41.30 -94.18 REMARK 500 TYR B 133 14.73 54.99 REMARK 500 CYS B 171 1.47 84.99 REMARK 500 TYR B 190 48.25 -98.55 REMARK 500 TYR B 219 -9.37 77.55 REMARK 500 ASN B 290 54.81 -112.78 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 UD0 A 400 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 360 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 361 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE UD0 B 400 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3NU7 RELATED DB: PDB REMARK 900 WBPE AMINOTRANSFERASE IN COMPLEX WITH PMP REMARK 900 RELATED ID: 3NU8 RELATED DB: PDB REMARK 900 WBPE AMINOTRANSFERASE IN COMPLEX WITH PLP AS THE INTERNAL ALDIMINE DBREF 3NUB A 1 359 UNP Q9HZ76 Q9HZ76_PSEAE 1 359 DBREF 3NUB B 1 359 UNP Q9HZ76 Q9HZ76_PSEAE 1 359 SEQRES 1 A 359 MET ILE GLU PHE ILE ASP LEU LYS ASN GLN GLN ALA ARG SEQRES 2 A 359 ILE LYS ASP LYS ILE ASP ALA GLY ILE GLN ARG VAL LEU SEQRES 3 A 359 ARG HIS GLY GLN TYR ILE LEU GLY PRO GLU VAL THR GLU SEQRES 4 A 359 LEU GLU ASP ARG LEU ALA ASP PHE VAL GLY ALA LYS TYR SEQRES 5 A 359 CYS ILE SER CYS ALA ASN GLY THR ASP ALA LEU GLN ILE SEQRES 6 A 359 VAL GLN MET ALA LEU GLY VAL GLY PRO GLY ASP GLU VAL SEQRES 7 A 359 ILE THR PRO GLY PHE THR TYR VAL ALA THR ALA GLU THR SEQRES 8 A 359 VAL ALA LEU LEU GLY ALA LYS PRO VAL TYR VAL ASP ILE SEQRES 9 A 359 ASP PRO ARG THR TYR ASN LEU ASP PRO GLN LEU LEU GLU SEQRES 10 A 359 ALA ALA ILE THR PRO ARG THR LYS ALA ILE ILE PRO VAL SEQRES 11 A 359 SER LEU TYR GLY GLN CYS ALA ASP PHE ASP ALA ILE ASN SEQRES 12 A 359 ALA ILE ALA SER LYS TYR GLY ILE PRO VAL ILE GLU ASP SEQRES 13 A 359 ALA ALA GLN SER PHE GLY ALA SER TYR LYS GLY LYS ARG SEQRES 14 A 359 SER CYS ASN LEU SER THR VAL ALA CYS THR SER PHE PHE SEQRES 15 A 359 PRO SER LYS PRO LEU GLY CYS TYR GLY ASP GLY GLY ALA SEQRES 16 A 359 ILE PHE THR ASN ASP ASP GLU LEU ALA THR ALA ILE ARG SEQRES 17 A 359 GLN ILE ALA ARG HIS GLY GLN ASP ARG ARG TYR HIS HIS SEQRES 18 A 359 ILE ARG VAL GLY VAL ASN SER ARG LEU ASP THR LEU GLN SEQRES 19 A 359 ALA ALA ILE LEU LEU PRO LYS LEU GLU ILE PHE GLU GLU SEQRES 20 A 359 GLU ILE ALA LEU ARG GLN LYS VAL ALA ALA GLU TYR ASP SEQRES 21 A 359 LEU SER LEU LYS GLN VAL GLY ILE GLY THR PRO PHE ILE SEQRES 22 A 359 GLU VAL ASN ASN ILE SER VAL TYR ALA GLN TYR THR VAL SEQRES 23 A 359 ARG MET ASP ASN ARG GLU SER VAL GLN ALA SER LEU LYS SEQRES 24 A 359 ALA ALA GLY VAL PRO THR ALA VAL HIS TYR PRO ILE PRO SEQRES 25 A 359 LEU ASN LYS GLN PRO ALA VAL ALA ASP GLU LYS ALA LYS SEQRES 26 A 359 LEU PRO VAL GLY ASP LYS ALA ALA THR GLN VAL MET SER SEQRES 27 A 359 LEU PRO MET HIS PRO TYR LEU ASP THR ALA SER ILE LYS SEQRES 28 A 359 ILE ILE CYS ALA ALA LEU THR ASN SEQRES 1 B 359 MET ILE GLU PHE ILE ASP LEU LYS ASN GLN GLN ALA ARG SEQRES 2 B 359 ILE LYS ASP LYS ILE ASP ALA GLY ILE GLN ARG VAL LEU SEQRES 3 B 359 ARG HIS GLY GLN TYR ILE LEU GLY PRO GLU VAL THR GLU SEQRES 4 B 359 LEU GLU ASP ARG LEU ALA ASP PHE VAL GLY ALA LYS TYR SEQRES 5 B 359 CYS ILE SER CYS ALA ASN GLY THR ASP ALA LEU GLN ILE SEQRES 6 B 359 VAL GLN MET ALA LEU GLY VAL GLY PRO GLY ASP GLU VAL SEQRES 7 B 359 ILE THR PRO GLY PHE THR TYR VAL ALA THR ALA GLU THR SEQRES 8 B 359 VAL ALA LEU LEU GLY ALA LYS PRO VAL TYR VAL ASP ILE SEQRES 9 B 359 ASP PRO ARG THR TYR ASN LEU ASP PRO GLN LEU LEU GLU SEQRES 10 B 359 ALA ALA ILE THR PRO ARG THR LYS ALA ILE ILE PRO VAL SEQRES 11 B 359 SER LEU TYR GLY GLN CYS ALA ASP PHE ASP ALA ILE ASN SEQRES 12 B 359 ALA ILE ALA SER LYS TYR GLY ILE PRO VAL ILE GLU ASP SEQRES 13 B 359 ALA ALA GLN SER PHE GLY ALA SER TYR LYS GLY LYS ARG SEQRES 14 B 359 SER CYS ASN LEU SER THR VAL ALA CYS THR SER PHE PHE SEQRES 15 B 359 PRO SER LYS PRO LEU GLY CYS TYR GLY ASP GLY GLY ALA SEQRES 16 B 359 ILE PHE THR ASN ASP ASP GLU LEU ALA THR ALA ILE ARG SEQRES 17 B 359 GLN ILE ALA ARG HIS GLY GLN ASP ARG ARG TYR HIS HIS SEQRES 18 B 359 ILE ARG VAL GLY VAL ASN SER ARG LEU ASP THR LEU GLN SEQRES 19 B 359 ALA ALA ILE LEU LEU PRO LYS LEU GLU ILE PHE GLU GLU SEQRES 20 B 359 GLU ILE ALA LEU ARG GLN LYS VAL ALA ALA GLU TYR ASP SEQRES 21 B 359 LEU SER LEU LYS GLN VAL GLY ILE GLY THR PRO PHE ILE SEQRES 22 B 359 GLU VAL ASN ASN ILE SER VAL TYR ALA GLN TYR THR VAL SEQRES 23 B 359 ARG MET ASP ASN ARG GLU SER VAL GLN ALA SER LEU LYS SEQRES 24 B 359 ALA ALA GLY VAL PRO THR ALA VAL HIS TYR PRO ILE PRO SEQRES 25 B 359 LEU ASN LYS GLN PRO ALA VAL ALA ASP GLU LYS ALA LYS SEQRES 26 B 359 LEU PRO VAL GLY ASP LYS ALA ALA THR GLN VAL MET SER SEQRES 27 B 359 LEU PRO MET HIS PRO TYR LEU ASP THR ALA SER ILE LYS SEQRES 28 B 359 ILE ILE CYS ALA ALA LEU THR ASN HET UD0 A 400 55 HET GOL A 360 6 HET SO4 A 361 5 HET UD0 B 400 55 HETNAM UD0 (2S,3S,4R,5R,6R)-5-(ACETYLAMINO)-6-{[(S)-{[(S)-{[(2S, HETNAM 2 UD0 3R,4S,5R)-5-(2,4-DIOXO-3,4-DIHYDROPYRIMIDIN-1(2H)-YL)- HETNAM 3 UD0 3,4-DIHYDROXYTETRAHYDROFURAN-2-YL]METHOXY}(HYDROXY) HETNAM 4 UD0 PHOSPHORYL]OXY}(HYDROXY)PHOSPHORYL]OXY}-3-HYDROXY-4- HETNAM 5 UD0 {[(1E)-{3-HYDROXY-2-METHYL-5-[(PHOSPHONOOXY) HETNAM 6 UD0 METHYL]PYRIDIN-4-YL}METHYLIDENE]AMINO}TETRAHYDRO-2H- HETNAM 7 UD0 PYRAN-2-CARBOXYLIC ACID HETNAM GOL GLYCEROL HETNAM SO4 SULFATE ION HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 UD0 2(C25 H34 N5 O22 P3) FORMUL 4 GOL C3 H8 O3 FORMUL 5 SO4 O4 S 2- FORMUL 7 HOH *502(H2 O) HELIX 1 1 LEU A 7 GLY A 29 1 23 HELIX 2 2 GLY A 34 GLY A 49 1 16 HELIX 3 3 ASN A 58 LEU A 70 1 13 HELIX 4 4 VAL A 86 LEU A 95 1 10 HELIX 5 5 ASP A 112 GLU A 117 1 6 HELIX 6 6 ALA A 118 ILE A 120 5 3 HELIX 7 7 SER A 131 GLN A 135 5 5 HELIX 8 8 ASP A 138 LYS A 148 1 11 HELIX 9 9 ASP A 200 ALA A 211 1 12 HELIX 10 10 ASP A 231 ILE A 244 1 14 HELIX 11 11 ILE A 244 VAL A 266 1 23 HELIX 12 12 ARG A 291 ALA A 300 1 10 HELIX 13 13 PRO A 312 ALA A 320 5 9 HELIX 14 14 LEU A 326 GLN A 335 1 10 HELIX 15 15 ASP A 346 CYS A 354 1 9 HELIX 16 16 LYS B 8 GLY B 29 1 22 HELIX 17 17 GLY B 34 GLY B 49 1 16 HELIX 18 18 ASN B 58 LEU B 70 1 13 HELIX 19 19 VAL B 86 LEU B 95 1 10 HELIX 20 20 ASP B 112 ILE B 120 5 9 HELIX 21 21 SER B 131 GLN B 135 5 5 HELIX 22 22 ASP B 138 TYR B 149 1 12 HELIX 23 23 ASP B 200 ALA B 211 1 12 HELIX 24 24 ASP B 231 ILE B 244 1 14 HELIX 25 25 ILE B 244 VAL B 266 1 23 HELIX 26 26 ASN B 290 ALA B 301 1 12 HELIX 27 27 PRO B 312 ALA B 320 5 9 HELIX 28 28 LEU B 326 GLN B 335 1 10 HELIX 29 29 ASP B 346 ILE B 353 1 8 SHEET 1 A 4 TYR A 52 CYS A 56 0 SHEET 2 A 4 GLY A 194 THR A 198 -1 O ILE A 196 N ILE A 54 SHEET 3 A 4 VAL A 176 SER A 180 -1 N ALA A 177 O PHE A 197 SHEET 4 A 4 ILE A 154 ASP A 156 1 N GLU A 155 O CYS A 178 SHEET 1 B 3 LYS A 98 VAL A 102 0 SHEET 2 B 3 GLU A 77 PRO A 81 1 N VAL A 78 O VAL A 100 SHEET 3 B 3 THR A 124 ILE A 127 1 O LYS A 125 N GLU A 77 SHEET 1 C 3 LYS A 168 ARG A 169 0 SHEET 2 C 3 SER A 164 TYR A 165 -1 N TYR A 165 O LYS A 168 SHEET 3 C 3 ASN A 277 ILE A 278 -1 O ILE A 278 N SER A 164 SHEET 1 D 2 GLN A 215 ARG A 217 0 SHEET 2 D 2 HIS A 220 HIS A 221 -1 O HIS A 220 N ARG A 217 SHEET 1 E 2 TYR A 284 ARG A 287 0 SHEET 2 E 2 VAL A 336 LEU A 339 -1 O MET A 337 N VAL A 286 SHEET 1 F 4 TYR B 52 CYS B 56 0 SHEET 2 F 4 GLY B 194 THR B 198 -1 O ILE B 196 N ILE B 54 SHEET 3 F 4 VAL B 176 SER B 180 -1 N THR B 179 O ALA B 195 SHEET 4 F 4 ILE B 154 ASP B 156 1 N GLU B 155 O CYS B 178 SHEET 1 G 3 LYS B 98 VAL B 102 0 SHEET 2 G 3 GLU B 77 PRO B 81 1 N VAL B 78 O VAL B 100 SHEET 3 G 3 THR B 124 ILE B 127 1 O LYS B 125 N GLU B 77 SHEET 1 H 3 LYS B 168 ARG B 169 0 SHEET 2 H 3 SER B 164 TYR B 165 -1 N TYR B 165 O LYS B 168 SHEET 3 H 3 ASN B 277 ILE B 278 -1 O ILE B 278 N SER B 164 SHEET 1 I 2 GLN B 215 ARG B 217 0 SHEET 2 I 2 HIS B 220 HIS B 221 -1 O HIS B 220 N ARG B 217 SHEET 1 J 2 TYR B 284 ARG B 287 0 SHEET 2 J 2 VAL B 336 LEU B 339 -1 O LEU B 339 N TYR B 284 CISPEP 1 ALA A 300 ALA A 301 0 23.21 CISPEP 2 HIS A 308 TYR A 309 0 7.21 CISPEP 3 HIS B 308 TYR B 309 0 9.26 SITE 1 AC1 30 ILE A 5 LEU A 7 ASN A 58 GLY A 59 SITE 2 AC1 30 THR A 60 THR A 84 TYR A 85 VAL A 130 SITE 3 AC1 30 ASP A 156 ALA A 158 GLN A 159 SER A 180 SITE 4 AC1 30 PHE A 182 SER A 184 LYS A 185 HIS A 308 SITE 5 AC1 30 TYR A 309 HOH A 368 HOH A 486 HOH A 493 SITE 6 AC1 30 HOH A 495 HOH A 497 HOH A 499 HOH A 500 SITE 7 AC1 30 HOH A 501 GLY B 29 TYR B 31 ILE B 32 SITE 8 AC1 30 ASN B 227 ARG B 229 SITE 1 AC2 12 ALA A 57 ASP A 192 ASP A 231 HOH A 383 SITE 2 AC2 12 HOH A 391 HOH A 454 HOH A 509 ALA B 57 SITE 3 AC2 12 ASP B 192 ASP B 231 HOH B 494 HOH B 554 SITE 1 AC3 6 ARG A 24 ARG A 27 HIS A 28 HOH A 560 SITE 2 AC3 6 GLY B 75 ARG B 123 SITE 1 AC4 23 HIS A 213 ASN A 227 ARG A 229 PHE B 4 SITE 2 AC4 23 ASN B 58 GLY B 59 THR B 60 THR B 84 SITE 3 AC4 23 TYR B 85 ALA B 87 VAL B 130 ASP B 156 SITE 4 AC4 23 ALA B 158 GLN B 159 SER B 180 PHE B 182 SITE 5 AC4 23 SER B 184 LYS B 185 THR B 305 HIS B 308 SITE 6 AC4 23 TYR B 309 HOH B 419 HOH B 612 CRYST1 77.924 148.679 53.545 90.00 90.00 90.00 P 21 21 2 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 0.012833 0.000000 0.000000 0.00000 SCALE2 0.000000 0.006726 0.000000 0.00000 SCALE3 0.000000 0.000000 0.018676 0.00000