HEADER TRANSFERASE 18-JUN-07 2QBT TITLE STRUCTURAL STUDIES REVEAL THE INACTIVATION OF E. COLI L-ASPARTATE TITLE 2 AMINOTRANSFERASE BY (S)-4,5-AMINO-DIHYDRO-2-THIOPHENECARBOXYLIC ACID TITLE 3 (SADTA) VIA TWO MECHANISMS (AT PH 8.0) COMPND MOL_ID: 1; COMPND 2 MOLECULE: ASPARTATE AMINOTRANSFERASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: TRANSAMINASE A, ASPAT; COMPND 5 EC: 2.6.1.1; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 GENE: ASPC; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: DH5ALPHA KEYWDS MECHANISM-BASED INACTIVATOR, PH DEPENDENCE, ASPARTATE KEYWDS 2 AMINOTRANSFERASE, SADTA, PLP, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR D.LIU,E.POZHARSKI,B.LEPORE,M.FU,R.B.SILVERMAN,G.A.PETSKO,D.RINGE REVDAT 5 30-AUG-23 2QBT 1 REMARK SEQADV LINK REVDAT 4 13-JUL-11 2QBT 1 VERSN REVDAT 3 24-FEB-09 2QBT 1 VERSN REVDAT 2 09-OCT-07 2QBT 1 JRNL REVDAT 1 04-SEP-07 2QBT 0 JRNL AUTH D.LIU,E.POZHARSKI,B.W.LEPORE,M.FU,R.B.SILVERMAN,G.A.PETSKO, JRNL AUTH 2 D.RINGE JRNL TITL INACTIVATION OF ESCHERICHIA COLI L-ASPARTATE JRNL TITL 2 AMINOTRANSFERASE BY JRNL TITL 3 (S)-4-AMINO-4,5-DIHYDRO-2-THIOPHENECARBOXYLIC ACID REVEALS JRNL TITL 4 "A TALE OF TWO MECHANISMS". JRNL REF BIOCHEMISTRY V. 46 10517 2007 JRNL REFN ISSN 0006-2960 JRNL PMID 17713924 JRNL DOI 10.1021/BI700663N REMARK 2 REMARK 2 RESOLUTION. 1.75 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 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) : 1.75 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 24.80 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.2 REMARK 3 NUMBER OF REFLECTIONS : 48869 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) : 0.151 REMARK 3 R VALUE (WORKING SET) : 0.149 REMARK 3 FREE R VALUE : 0.190 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2612 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) : 1.75 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.80 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3597 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.65 REMARK 3 BIN R VALUE (WORKING SET) : 0.2050 REMARK 3 BIN FREE R VALUE SET COUNT : 203 REMARK 3 BIN FREE R VALUE : 0.3120 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3077 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 103 REMARK 3 SOLVENT ATOMS : 410 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 24.36 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.04000 REMARK 3 B22 (A**2) : 1.07000 REMARK 3 B33 (A**2) : -0.03000 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): 0.145 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.097 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.063 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.349 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.970 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.958 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3653 ; 0.012 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5020 ; 1.486 ; 1.987 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 494 ; 6.514 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 181 ;33.679 ;24.254 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 631 ;14.028 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 29 ;18.663 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 550 ; 0.194 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2844 ; 0.005 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1986 ; 0.224 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2519 ; 0.308 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 364 ; 0.169 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 141 ; 0.229 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 56 ; 0.152 ; 0.200 REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 2237 ; 1.052 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3546 ; 1.639 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1596 ; 2.623 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1424 ; 3.834 ; 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 2QBT COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 19-JUN-07. REMARK 100 THE DEPOSITION ID IS D_1000043401. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 20-FEB-05 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 14-BM-C REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 48869 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.750 REMARK 200 RESOLUTION RANGE LOW (A) : 24.800 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.2 REMARK 200 DATA REDUNDANCY : 4.700 REMARK 200 R MERGE (I) : 0.06500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 12.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.75 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.81 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.5 REMARK 200 DATA REDUNDANCY IN SHELL : 4.60 REMARK 200 R MERGE FOR SHELL (I) : 0.58900 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.300 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 1AMQ REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 58.26 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.95 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 25 MM POTASSIUM PHOSPHATE, 43% REMARK 280 SATURATED AMMONIUM SULFATE, 20 MM SADTA, PH 8.0, EVAPORATION, REMARK 280 TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 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 39.47550 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 39.47550 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 77.07450 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 42.38000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 77.07450 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 42.38000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 39.47550 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 77.07450 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 42.38000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 39.47550 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 77.07450 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 42.38000 REMARK 290 SMTRY3 8 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 300 REMARK: THE SECOND COPY OF THE BIOLOGICAL ASSEMBLY IS GENERATED BY REMARK 300 THE 2 FOLD AXIS: X, -Y, -Z 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,PQS REMARK 350 TOTAL BURIED SURFACE AREA: 13680 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 29130 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -119.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 2 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 0.00000 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 OD1 ASN A 4 O HOH A 827 1.52 REMARK 500 OE2 GLU A 60 O HOH A 1025 2.13 REMARK 500 OG SER A 372 O HOH A 938 2.18 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 KST A 246 C ASN A 247 N 0.144 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 LEU A 16 -90.73 54.79 REMARK 500 THR A 43 70.79 -116.08 REMARK 500 TYR A 149 -57.95 -149.09 REMARK 500 ALA A 218 -73.80 -90.47 REMARK 500 TYR A 251 -62.49 -29.42 REMARK 500 ARG A 254 73.91 66.16 REMARK 500 ASN A 282 -73.48 -109.32 REMARK 500 SER A 284 -58.21 77.04 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 LEU A 14 GLY A 15 61.83 REMARK 500 GLY A 15 LEU A 16 42.31 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 SO4 A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PSZ A 600 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PMP A 700 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 801 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 802 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 803 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 804 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 805 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 806 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 807 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 808 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2Q7W RELATED DB: PDB REMARK 900 THE SAME PROTEIN-INHIBITOR COMPLEX AT PH 6.0 REMARK 900 RELATED ID: 2QA3 RELATED DB: PDB REMARK 900 THE SAME PROTEIN-INHIBITOR COMPLEX AT PH 6.5 REMARK 900 RELATED ID: 2QB2 RELATED DB: PDB REMARK 900 THE SAME PROTEIN-INHIBITOR COMPLEX AT PH 7.0 REMARK 900 RELATED ID: 2QB3 RELATED DB: PDB REMARK 900 THE SAME PROTEIN-INHIBITOR COMPLEX AT PH 7.5 DBREF 2QBT A 1 396 UNP P00509 AAT_ECOLI 1 396 SEQADV 2QBT KST A 246 UNP P00509 LYS 246 MODIFIED RESIDUE SEQRES 1 A 396 MET PHE GLU ASN ILE THR ALA ALA PRO ALA ASP PRO ILE SEQRES 2 A 396 LEU GLY LEU ALA ASP LEU PHE ARG ALA ASP GLU ARG PRO SEQRES 3 A 396 GLY LYS ILE ASN LEU GLY ILE GLY VAL TYR LYS ASP GLU SEQRES 4 A 396 THR GLY LYS THR PRO VAL LEU THR SER VAL LYS LYS ALA SEQRES 5 A 396 GLU GLN TYR LEU LEU GLU ASN GLU THR THR LYS ASN TYR SEQRES 6 A 396 LEU GLY ILE ASP GLY ILE PRO GLU PHE GLY ARG CYS THR SEQRES 7 A 396 GLN GLU LEU LEU PHE GLY LYS GLY SER ALA LEU ILE ASN SEQRES 8 A 396 ASP LYS ARG ALA ARG THR ALA GLN THR PRO GLY GLY THR SEQRES 9 A 396 GLY ALA LEU ARG VAL ALA ALA ASP PHE LEU ALA LYS ASN SEQRES 10 A 396 THR SER VAL LYS ARG VAL TRP VAL SER ASN PRO SER TRP SEQRES 11 A 396 PRO ASN HIS LYS SER VAL PHE ASN SER ALA GLY LEU GLU SEQRES 12 A 396 VAL ARG GLU TYR ALA TYR TYR ASP ALA GLU ASN HIS THR SEQRES 13 A 396 LEU ASP PHE ASP ALA LEU ILE ASN SER LEU ASN GLU ALA SEQRES 14 A 396 GLN ALA GLY ASP VAL VAL LEU PHE HIS GLY CYS CYS HIS SEQRES 15 A 396 ASN PRO THR GLY ILE ASP PRO THR LEU GLU GLN TRP GLN SEQRES 16 A 396 THR LEU ALA GLN LEU SER VAL GLU LYS GLY TRP LEU PRO SEQRES 17 A 396 LEU PHE ASP PHE ALA TYR GLN GLY PHE ALA ARG GLY LEU SEQRES 18 A 396 GLU GLU ASP ALA GLU GLY LEU ARG ALA PHE ALA ALA MET SEQRES 19 A 396 HIS LYS GLU LEU ILE VAL ALA SER SER TYR SER KST ASN SEQRES 20 A 396 PHE GLY LEU TYR ASN GLU ARG VAL GLY ALA CYS THR LEU SEQRES 21 A 396 VAL ALA ALA ASP SER GLU THR VAL ASP ARG ALA PHE SER SEQRES 22 A 396 GLN MET LYS ALA ALA ILE ARG ALA ASN TYR SER ASN PRO SEQRES 23 A 396 PRO ALA HIS GLY ALA SER VAL VAL ALA THR ILE LEU SER SEQRES 24 A 396 ASN ASP ALA LEU ARG ALA ILE TRP GLU GLN GLU LEU THR SEQRES 25 A 396 ASP MET ARG GLN ARG ILE GLN ARG MET ARG GLN LEU PHE SEQRES 26 A 396 VAL ASN THR LEU GLN GLU LYS GLY ALA ASN ARG ASP PHE SEQRES 27 A 396 SER PHE ILE ILE LYS GLN ASN GLY MET PHE SER PHE SER SEQRES 28 A 396 GLY LEU THR LYS GLU GLN VAL LEU ARG LEU ARG GLU GLU SEQRES 29 A 396 PHE GLY VAL TYR ALA VAL ALA SER GLY ARG VAL ASN VAL SEQRES 30 A 396 ALA GLY MET THR PRO ASP ASN MET ALA PRO LEU CYS GLU SEQRES 31 A 396 ALA ILE VAL ALA VAL LEU MODRES 2QBT KST A 246 LYS N~6~-(5-CARBOXY-3-THIENYL)-L-LYSINE HET KST A 246 22 HET SO4 A 501 5 HET SO4 A 502 5 HET SO4 A 503 5 HET PSZ A 600 24 HET PMP A 700 16 HET GOL A 801 6 HET GOL A 802 6 HET GOL A 803 6 HET GOL A 804 6 HET GOL A 805 6 HET GOL A 806 6 HET GOL A 807 6 HET GOL A 808 6 HETNAM KST N~6~-(5-CARBOXY-3-THIENYL)-L-LYSINE HETNAM SO4 SULFATE ION HETNAM PSZ 4-[({3-HYDROXY-2-METHYL-5-[(PHOSPHONOOXY) HETNAM 2 PSZ METHYL]PYRIDIN-4-YL}METHYL)AMINO]THIOPHENE-2- HETNAM 3 PSZ CARBOXYLIC ACID HETNAM PMP 4'-DEOXY-4'-AMINOPYRIDOXAL-5'-PHOSPHATE HETNAM GOL GLYCEROL HETSYN PMP PYRIDOXAMINE-5'-PHOSPHATE HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 1 KST C11 H16 N2 O4 S FORMUL 2 SO4 3(O4 S 2-) FORMUL 5 PSZ C13 H15 N2 O7 P S FORMUL 6 PMP C8 H13 N2 O5 P FORMUL 7 GOL 8(C3 H8 O3) FORMUL 15 HOH *410(H2 O) HELIX 1 1 ASP A 11 ASP A 23 1 13 HELIX 2 2 LEU A 46 GLU A 60 1 15 HELIX 3 3 ILE A 71 GLY A 84 1 14 HELIX 4 4 SER A 87 ASP A 92 1 6 HELIX 5 5 PRO A 101 THR A 118 1 18 HELIX 6 6 PRO A 131 ALA A 140 1 10 HELIX 7 7 ASP A 158 ASN A 167 1 10 HELIX 8 8 THR A 190 GLY A 205 1 16 HELIX 9 9 GLY A 220 ALA A 225 1 6 HELIX 10 10 ALA A 225 HIS A 235 1 11 HELIX 11 11 LEU A 250 ARG A 254 5 5 HELIX 12 12 ASP A 264 ALA A 281 1 18 HELIX 13 13 PRO A 287 SER A 299 1 13 HELIX 14 14 ASN A 300 LYS A 332 1 33 HELIX 15 15 SER A 339 GLN A 344 1 6 HELIX 16 16 THR A 354 GLY A 366 1 13 HELIX 17 17 ALA A 378 MET A 380 5 3 HELIX 18 18 THR A 381 LEU A 396 1 16 SHEET 1 A 2 ILE A 29 ASN A 30 0 SHEET 2 A 2 VAL A 367 TYR A 368 1 O TYR A 368 N ILE A 29 SHEET 1 B 7 ALA A 95 THR A 100 0 SHEET 2 B 7 GLY A 256 VAL A 261 -1 O LEU A 260 N ARG A 96 SHEET 3 B 7 LEU A 238 SER A 243 -1 N VAL A 240 O THR A 259 SHEET 4 B 7 LEU A 207 PHE A 212 1 N PHE A 210 O ALA A 241 SHEET 5 B 7 VAL A 174 HIS A 178 1 N PHE A 177 O ASP A 211 SHEET 6 B 7 ARG A 122 ASN A 127 1 N TRP A 124 O LEU A 176 SHEET 7 B 7 GLU A 143 ALA A 148 1 O ARG A 145 N VAL A 125 SHEET 1 C 2 TYR A 150 ASP A 151 0 SHEET 2 C 2 THR A 156 LEU A 157 -1 O THR A 156 N ASP A 151 SHEET 1 D 2 PHE A 348 PHE A 350 0 SHEET 2 D 2 ARG A 374 ASN A 376 -1 O VAL A 375 N SER A 349 LINK C SER A 245 N KST A 246 1555 1555 1.47 LINK C KST A 246 N ASN A 247 1555 1555 1.48 CISPEP 1 PRO A 26 GLY A 27 0 -13.92 CISPEP 2 ASN A 127 PRO A 128 0 2.77 CISPEP 3 ASN A 183 PRO A 184 0 16.23 SITE 1 AC1 7 LYS A 134 ASN A 138 GLU A 143 VAL A 144 SITE 2 AC1 7 ARG A 145 GOL A 806 HOH A1121 SITE 1 AC2 3 PRO A 72 ARG A 76 HOH A 894 SITE 1 AC3 5 THR A 312 ARG A 315 GLN A 316 GOL A 804 SITE 2 AC3 5 HOH A 941 SITE 1 AC4 18 GLY A 34 TYR A 65 GLY A 102 GLY A 103 SITE 2 AC4 18 THR A 104 TRP A 130 ASN A 183 ASP A 211 SITE 3 AC4 18 TYR A 214 SER A 243 SER A 245 KST A 246 SITE 4 AC4 18 ARG A 254 PHE A 348 ARG A 374 GOL A 808 SITE 5 AC4 18 HOH A1021 HOH A1206 SITE 1 AC5 12 TYR A 65 GLY A 103 THR A 104 TRP A 130 SITE 2 AC5 12 ASN A 183 ASP A 211 TYR A 214 SER A 243 SITE 3 AC5 12 SER A 245 KST A 246 ARG A 254 HOH A 814 SITE 1 AC6 8 GLY A 216 GLY A 220 LEU A 221 GLU A 308 SITE 2 AC6 8 THR A 312 ARG A 315 HOH A1085 HOH A1199 SITE 1 AC7 9 TYR A 36 THR A 43 PRO A 44 LEU A 46 SITE 2 AC7 9 KST A 246 GLY A 249 TYR A 251 MET A 314 SITE 3 AC7 9 HOH A1192 SITE 1 AC8 10 PRO A 72 GLY A 75 ARG A 76 GLN A 79 SITE 2 AC8 10 ALA A 95 ARG A 96 THR A 97 HOH A 809 SITE 3 AC8 10 HOH A1103 HOH A1140 SITE 1 AC9 4 ARG A 315 GLN A 316 GLN A 319 SO4 A 503 SITE 1 BC1 4 TYR A 55 ASN A 300 LEU A 303 HOH A 966 SITE 1 BC2 4 ASN A 138 GLY A 141 LEU A 142 SO4 A 501 SITE 1 BC3 9 PRO A 189 THR A 190 LEU A 191 ARG A 219 SITE 2 BC3 9 ASN A 345 HOH A 833 HOH A 855 HOH A 918 SITE 3 BC3 9 HOH A1001 SITE 1 BC4 7 TYR A 65 KST A 246 ARG A 280 PSZ A 600 SITE 2 BC4 7 HOH A1024 HOH A1163 HOH A1190 CRYST1 154.149 84.760 78.951 90.00 90.00 90.00 C 2 2 21 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 0.006487 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011798 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012666 0.00000