HEADER LIGASE 05-MAY-11 3RV3 TITLE CRYSTAL STRUCTURE OF E.COLI BIOTIN CARBOXYLASE IN COMPLEX WITH TWO ADP TITLE 2 AND ONE MG ION COMPND MOL_ID: 1; COMPND 2 MOLECULE: BIOTIN CARBOXYLASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: ACETYL-COA CARBOXYLASE SUBUNIT A, ACC; COMPND 5 EC: 6.3.4.14, 6.4.1.2; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 83333; SOURCE 4 STRAIN: K12; SOURCE 5 GENE: ACCC, FABG, B3256, JW3224; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET28 KEYWDS LIGASE EXPDTA X-RAY DIFFRACTION AUTHOR C.Y.CHOU,L.TONG REVDAT 5 28-FEB-24 3RV3 1 REMARK SEQADV LINK REVDAT 4 25-OCT-17 3RV3 1 REMARK REVDAT 3 20-JUL-11 3RV3 1 JRNL REVDAT 2 01-JUN-11 3RV3 1 JRNL REVDAT 1 18-MAY-11 3RV3 0 JRNL AUTH C.Y.CHOU,L.TONG JRNL TITL STRUCTURAL AND BIOCHEMICAL STUDIES ON THE REGULATION OF JRNL TITL 2 BIOTIN CARBOXYLASE BY SUBSTRATE INHIBITION AND DIMERIZATION. JRNL REF J.BIOL.CHEM. V. 286 24417 2011 JRNL REFN ISSN 0021-9258 JRNL PMID 21592965 JRNL DOI 10.1074/JBC.M111.220517 REMARK 2 REMARK 2 RESOLUTION. 1.91 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 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) : 1.91 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 3 NUMBER OF REFLECTIONS : 64727 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) : 0.211 REMARK 3 R VALUE (WORKING SET) : 0.208 REMARK 3 FREE R VALUE : 0.263 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 3281 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 10 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.91 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.01 REMARK 3 REFLECTION IN BIN (WORKING SET) : 8608 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 96.17 REMARK 3 BIN R VALUE (WORKING SET) : 0.2310 REMARK 3 BIN FREE R VALUE SET COUNT : 454 REMARK 3 BIN FREE R VALUE : 0.3180 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6883 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 110 REMARK 3 SOLVENT ATOMS : 747 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 19.30 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.09000 REMARK 3 B22 (A**2) : 0.25000 REMARK 3 B33 (A**2) : -1.24000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.66000 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): 0.181 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.132 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.386 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.924 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.885 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 7126 ; 0.011 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 9640 ; 1.351 ; 1.983 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 892 ; 5.640 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 316 ;36.371 ;23.639 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1228 ;13.923 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 58 ;16.128 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 1055 ; 0.088 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5368 ; 0.004 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 3770 ; 0.201 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 4861 ; 0.296 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 727 ; 0.172 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 3 ; 0.109 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 77 ; 0.272 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 25 ; 0.150 ; 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): 4587 ; 0.636 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 7100 ; 0.993 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2887 ; 1.653 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 2540 ; 2.579 ; 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 : 1 REMARK 3 REMARK 3 NCS GROUP NUMBER : 1 REMARK 3 CHAIN NAMES : A B REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 1 A 440 6 REMARK 3 1 B 1 B 440 6 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 LOOSE POSITIONAL 1 A (A): 3386 ; 0.450 ; 5.000 REMARK 3 LOOSE THERMAL 1 A (A**2): 3386 ; 2.200 ;10.000 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 3RV3 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 10-MAY-11. REMARK 100 THE DEPOSITION ID IS D_1000065413. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : NULL REMARK 200 PH : 6.2 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X4A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : NULL REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 64727 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.900 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 6.000 REMARK 200 R MERGE (I) : 0.11700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 7.2000 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) : 1.97 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.7 REMARK 200 DATA REDUNDANCY IN SHELL : 5.80 REMARK 200 R MERGE FOR SHELL (I) : 0.37100 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 42.13 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.13 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: BIS-TRIS, PEG3350, NH4CL, N-OCTYL-BETA REMARK 280 -D-GLUCOSE, PH 6.2, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE REMARK 280 295K 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 85.67850 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 29.00450 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 85.67850 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 29.00450 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 300 REMARK: AUTHORS STATE THAT SOLUTION LIGHT SCATTERING AND AUC REMARK 300 EXPERIMENTS INDICATED THE PROTEIN IS DIMERIC. 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 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 GLY A 445 REMARK 465 LEU A 446 REMARK 465 GLN A 447 REMARK 465 GLU A 448 REMARK 465 LYS A 449 REMARK 465 GLY B 1C REMARK 465 SER B 1B REMARK 465 HIS B 1A REMARK 465 GLU B 448 REMARK 465 LYS B 449 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 523 O HOH A 748 1.93 REMARK 500 O2B ADP B 1003 O HOH B 771 2.07 REMARK 500 O2A ADP A 1002 O HOH A 684 2.11 REMARK 500 N ASN B 394 O HOH B 820 2.17 REMARK 500 NH2 ARG B 234 O HOH B 591 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 CB SER A 98 OE2 GLU B 251 4546 1.95 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 PRO A 155 C - N - CA ANGL. DEV. = -10.9 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 ASN A 9 -166.57 -162.13 REMARK 500 SER A 59 -80.35 -125.05 REMARK 500 PHE A 84 -115.20 39.36 REMARK 500 ALA A 226 -156.83 53.21 REMARK 500 THR A 291 55.93 -94.20 REMARK 500 PHE A 347 18.41 58.77 REMARK 500 ASN B 9 -165.47 -165.52 REMARK 500 PRO B 53 -177.46 -68.49 REMARK 500 SER B 59 -83.85 -140.46 REMARK 500 PHE B 84 -115.45 42.38 REMARK 500 SER B 194 -119.09 67.52 REMARK 500 ASN B 195 109.92 10.75 REMARK 500 LEU B 225 71.06 -111.13 REMARK 500 ALA B 226 -145.40 43.95 REMARK 500 SER B 369 144.76 -175.52 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 TYR A 154 PRO A 155 132.85 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A1004 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 276 OE1 REMARK 620 2 GLU A 288 OE2 84.7 REMARK 620 3 HOH A 547 O 88.9 84.9 REMARK 620 4 HOH A 804 O 93.8 174.6 89.9 REMARK 620 5 ADP A1002 O2A 92.6 94.3 178.2 91.0 REMARK 620 6 ADP A1002 O3B 177.4 93.3 89.3 88.1 89.2 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B1005 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B 276 OE1 REMARK 620 2 GLU B 288 OE1 86.0 REMARK 620 3 HOH B 545 O 94.5 171.3 REMARK 620 4 HOH B 732 O 88.0 77.3 94.1 REMARK 620 5 ADP B1001 O2A 95.8 90.7 97.9 167.1 REMARK 620 6 ADP B1001 O2B 174.0 90.9 87.8 86.3 89.4 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ADP A 1000 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ADP A 1002 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 1004 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ADP B 1001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ADP B 1003 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 1005 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3RUP RELATED DB: PDB REMARK 900 RELATED ID: 3RV4 RELATED DB: PDB DBREF 3RV3 A 1 449 UNP P24182 ACCC_ECOLI 1 449 DBREF 3RV3 B 1 449 UNP P24182 ACCC_ECOLI 1 449 SEQADV 3RV3 GLY A 1C UNP P24182 EXPRESSION TAG SEQADV 3RV3 SER A 1B UNP P24182 EXPRESSION TAG SEQADV 3RV3 HIS A 1A UNP P24182 EXPRESSION TAG SEQADV 3RV3 GLY B 1C UNP P24182 EXPRESSION TAG SEQADV 3RV3 SER B 1B UNP P24182 EXPRESSION TAG SEQADV 3RV3 HIS B 1A UNP P24182 EXPRESSION TAG SEQRES 1 A 452 GLY SER HIS MET LEU ASP LYS ILE VAL ILE ALA ASN ARG SEQRES 2 A 452 GLY GLU ILE ALA LEU ARG ILE LEU ARG ALA CYS LYS GLU SEQRES 3 A 452 LEU GLY ILE LYS THR VAL ALA VAL HIS SER SER ALA ASP SEQRES 4 A 452 ARG ASP LEU LYS HIS VAL LEU LEU ALA ASP GLU THR VAL SEQRES 5 A 452 CYS ILE GLY PRO ALA PRO SER VAL LYS SER TYR LEU ASN SEQRES 6 A 452 ILE PRO ALA ILE ILE SER ALA ALA GLU ILE THR GLY ALA SEQRES 7 A 452 VAL ALA ILE HIS PRO GLY TYR GLY PHE LEU SER GLU ASN SEQRES 8 A 452 ALA ASN PHE ALA GLU GLN VAL GLU ARG SER GLY PHE ILE SEQRES 9 A 452 PHE ILE GLY PRO LYS ALA GLU THR ILE ARG LEU MET GLY SEQRES 10 A 452 ASP LYS VAL SER ALA ILE ALA ALA MET LYS LYS ALA GLY SEQRES 11 A 452 VAL PRO CYS VAL PRO GLY SER ASP GLY PRO LEU GLY ASP SEQRES 12 A 452 ASP MET ASP LYS ASN ARG ALA ILE ALA LYS ARG ILE GLY SEQRES 13 A 452 TYR PRO VAL ILE ILE LYS ALA SER GLY GLY GLY GLY GLY SEQRES 14 A 452 ARG GLY MET ARG VAL VAL ARG GLY ASP ALA GLU LEU ALA SEQRES 15 A 452 GLN SER ILE SER MET THR ARG ALA GLU ALA LYS ALA ALA SEQRES 16 A 452 PHE SER ASN ASP MET VAL TYR MET GLU LYS TYR LEU GLU SEQRES 17 A 452 ASN PRO ARG HIS VAL GLU ILE GLN VAL LEU ALA ASP GLY SEQRES 18 A 452 GLN GLY ASN ALA ILE TYR LEU ALA GLU ARG ASP CYS SER SEQRES 19 A 452 MET GLN ARG ARG HIS GLN LYS VAL VAL GLU GLU ALA PRO SEQRES 20 A 452 ALA PRO GLY ILE THR PRO GLU LEU ARG ARG TYR ILE GLY SEQRES 21 A 452 GLU ARG CYS ALA LYS ALA CYS VAL ASP ILE GLY TYR ARG SEQRES 22 A 452 GLY ALA GLY THR PHE GLU PHE LEU PHE GLU ASN GLY GLU SEQRES 23 A 452 PHE TYR PHE ILE GLU MET ASN THR ARG ILE GLN VAL GLU SEQRES 24 A 452 HIS PRO VAL THR GLU MET ILE THR GLY VAL ASP LEU ILE SEQRES 25 A 452 LYS GLU GLN LEU ARG ILE ALA ALA GLY GLN PRO LEU SER SEQRES 26 A 452 ILE LYS GLN GLU GLU VAL HIS VAL ARG GLY HIS ALA VAL SEQRES 27 A 452 GLU CYS ARG ILE ASN ALA GLU ASP PRO ASN THR PHE LEU SEQRES 28 A 452 PRO SER PRO GLY LYS ILE THR ARG PHE HIS ALA PRO GLY SEQRES 29 A 452 GLY PHE GLY VAL ARG TRP GLU SER HIS ILE TYR ALA GLY SEQRES 30 A 452 TYR THR VAL PRO PRO TYR TYR ASP SER MET ILE GLY LYS SEQRES 31 A 452 LEU ILE CYS TYR GLY GLU ASN ARG ASP VAL ALA ILE ALA SEQRES 32 A 452 ARG MET LYS ASN ALA LEU GLN GLU LEU ILE ILE ASP GLY SEQRES 33 A 452 ILE LYS THR ASN VAL ASP LEU GLN ILE ARG ILE MET ASN SEQRES 34 A 452 ASP GLU ASN PHE GLN HIS GLY GLY THR ASN ILE HIS TYR SEQRES 35 A 452 LEU GLU LYS LYS LEU GLY LEU GLN GLU LYS SEQRES 1 B 452 GLY SER HIS MET LEU ASP LYS ILE VAL ILE ALA ASN ARG SEQRES 2 B 452 GLY GLU ILE ALA LEU ARG ILE LEU ARG ALA CYS LYS GLU SEQRES 3 B 452 LEU GLY ILE LYS THR VAL ALA VAL HIS SER SER ALA ASP SEQRES 4 B 452 ARG ASP LEU LYS HIS VAL LEU LEU ALA ASP GLU THR VAL SEQRES 5 B 452 CYS ILE GLY PRO ALA PRO SER VAL LYS SER TYR LEU ASN SEQRES 6 B 452 ILE PRO ALA ILE ILE SER ALA ALA GLU ILE THR GLY ALA SEQRES 7 B 452 VAL ALA ILE HIS PRO GLY TYR GLY PHE LEU SER GLU ASN SEQRES 8 B 452 ALA ASN PHE ALA GLU GLN VAL GLU ARG SER GLY PHE ILE SEQRES 9 B 452 PHE ILE GLY PRO LYS ALA GLU THR ILE ARG LEU MET GLY SEQRES 10 B 452 ASP LYS VAL SER ALA ILE ALA ALA MET LYS LYS ALA GLY SEQRES 11 B 452 VAL PRO CYS VAL PRO GLY SER ASP GLY PRO LEU GLY ASP SEQRES 12 B 452 ASP MET ASP LYS ASN ARG ALA ILE ALA LYS ARG ILE GLY SEQRES 13 B 452 TYR PRO VAL ILE ILE LYS ALA SER GLY GLY GLY GLY GLY SEQRES 14 B 452 ARG GLY MET ARG VAL VAL ARG GLY ASP ALA GLU LEU ALA SEQRES 15 B 452 GLN SER ILE SER MET THR ARG ALA GLU ALA LYS ALA ALA SEQRES 16 B 452 PHE SER ASN ASP MET VAL TYR MET GLU LYS TYR LEU GLU SEQRES 17 B 452 ASN PRO ARG HIS VAL GLU ILE GLN VAL LEU ALA ASP GLY SEQRES 18 B 452 GLN GLY ASN ALA ILE TYR LEU ALA GLU ARG ASP CYS SER SEQRES 19 B 452 MET GLN ARG ARG HIS GLN LYS VAL VAL GLU GLU ALA PRO SEQRES 20 B 452 ALA PRO GLY ILE THR PRO GLU LEU ARG ARG TYR ILE GLY SEQRES 21 B 452 GLU ARG CYS ALA LYS ALA CYS VAL ASP ILE GLY TYR ARG SEQRES 22 B 452 GLY ALA GLY THR PHE GLU PHE LEU PHE GLU ASN GLY GLU SEQRES 23 B 452 PHE TYR PHE ILE GLU MET ASN THR ARG ILE GLN VAL GLU SEQRES 24 B 452 HIS PRO VAL THR GLU MET ILE THR GLY VAL ASP LEU ILE SEQRES 25 B 452 LYS GLU GLN LEU ARG ILE ALA ALA GLY GLN PRO LEU SER SEQRES 26 B 452 ILE LYS GLN GLU GLU VAL HIS VAL ARG GLY HIS ALA VAL SEQRES 27 B 452 GLU CYS ARG ILE ASN ALA GLU ASP PRO ASN THR PHE LEU SEQRES 28 B 452 PRO SER PRO GLY LYS ILE THR ARG PHE HIS ALA PRO GLY SEQRES 29 B 452 GLY PHE GLY VAL ARG TRP GLU SER HIS ILE TYR ALA GLY SEQRES 30 B 452 TYR THR VAL PRO PRO TYR TYR ASP SER MET ILE GLY LYS SEQRES 31 B 452 LEU ILE CYS TYR GLY GLU ASN ARG ASP VAL ALA ILE ALA SEQRES 32 B 452 ARG MET LYS ASN ALA LEU GLN GLU LEU ILE ILE ASP GLY SEQRES 33 B 452 ILE LYS THR ASN VAL ASP LEU GLN ILE ARG ILE MET ASN SEQRES 34 B 452 ASP GLU ASN PHE GLN HIS GLY GLY THR ASN ILE HIS TYR SEQRES 35 B 452 LEU GLU LYS LYS LEU GLY LEU GLN GLU LYS HET ADP A1000 27 HET ADP A1002 27 HET MG A1004 1 HET ADP B1001 27 HET ADP B1003 27 HET MG B1005 1 HETNAM ADP ADENOSINE-5'-DIPHOSPHATE HETNAM MG MAGNESIUM ION FORMUL 3 ADP 4(C10 H15 N5 O10 P2) FORMUL 5 MG 2(MG 2+) FORMUL 9 HOH *747(H2 O) HELIX 1 1 ARG A 10 LEU A 24 1 15 HELIX 2 2 LEU A 39 ALA A 45 1 7 HELIX 3 3 PRO A 55 SER A 59 5 5 HELIX 4 4 ASN A 62 GLY A 74 1 13 HELIX 5 5 ASN A 88 SER A 98 1 11 HELIX 6 6 LYS A 106 GLY A 114 1 9 HELIX 7 7 ASP A 115 ALA A 126 1 12 HELIX 8 8 ASP A 141 GLY A 153 1 13 HELIX 9 9 GLY A 174 SER A 194 1 21 HELIX 10 10 THR A 249 GLY A 268 1 20 HELIX 11 11 GLU A 296 GLY A 305 1 10 HELIX 12 12 ASP A 307 ALA A 317 1 11 HELIX 13 13 LYS A 324 VAL A 328 5 5 HELIX 14 14 ASN A 394 LEU A 409 1 16 HELIX 15 15 ASN A 417 ASN A 426 1 10 HELIX 16 16 ASP A 427 GLY A 433 1 7 HELIX 17 17 HIS A 438 LEU A 444 1 7 HELIX 18 18 ARG B 10 LEU B 24 1 15 HELIX 19 19 LEU B 39 ALA B 45 1 7 HELIX 20 20 PRO B 55 SER B 59 5 5 HELIX 21 21 ASN B 62 GLY B 74 1 13 HELIX 22 22 ASN B 88 SER B 98 1 11 HELIX 23 23 LYS B 106 GLY B 114 1 9 HELIX 24 24 ASP B 115 GLY B 127 1 13 HELIX 25 25 ASP B 141 GLY B 153 1 13 HELIX 26 26 GLY B 174 SER B 194 1 21 HELIX 27 27 THR B 249 GLY B 268 1 20 HELIX 28 28 GLU B 296 GLY B 305 1 10 HELIX 29 29 ASP B 307 ALA B 317 1 11 HELIX 30 30 LYS B 324 VAL B 328 5 5 HELIX 31 31 ASN B 394 LEU B 409 1 16 HELIX 32 32 ASN B 417 ASN B 426 1 10 HELIX 33 33 ASP B 427 GLY B 433 1 7 HELIX 34 34 HIS B 438 GLY B 445 1 8 SHEET 1 A 5 GLU A 47 GLY A 52 0 SHEET 2 A 5 LYS A 27 SER A 33 1 N ALA A 30 O GLU A 47 SHEET 3 A 5 LYS A 4 ILE A 7 1 N ILE A 7 O VAL A 29 SHEET 4 A 5 ALA A 77 HIS A 79 1 O HIS A 79 N VAL A 6 SHEET 5 A 5 ILE A 101 PHE A 102 1 O ILE A 101 N ILE A 78 SHEET 1 B 3 MET A 169 VAL A 172 0 SHEET 2 B 3 VAL A 156 ALA A 160 -1 N VAL A 156 O VAL A 172 SHEET 3 B 3 VAL A 198 LYS A 202 -1 O GLU A 201 N ILE A 157 SHEET 1 C 4 ALA A 222 ASP A 229 0 SHEET 2 C 4 ARG A 208 ASP A 217 -1 N GLN A 213 O LEU A 225 SHEET 3 C 4 ARG A 270 GLU A 280 -1 O GLY A 271 N ALA A 216 SHEET 4 C 4 GLU A 283 ASN A 290 -1 O GLU A 288 N GLU A 276 SHEET 1 D 2 GLN A 233 ARG A 234 0 SHEET 2 D 2 GLN A 237 LYS A 238 -1 O GLN A 237 N ARG A 234 SHEET 1 E 4 VAL A 240 ALA A 243 0 SHEET 2 E 4 HIS A 333 ASN A 340 -1 O GLU A 336 N GLU A 241 SHEET 3 E 4 MET A 384 GLY A 392 -1 O GLY A 386 N ILE A 339 SHEET 4 E 4 VAL A 365 SER A 369 -1 N ARG A 366 O ILE A 389 SHEET 1 F 2 GLY A 352 LYS A 353 0 SHEET 2 F 2 THR A 376 VAL A 377 -1 O VAL A 377 N GLY A 352 SHEET 1 G 2 ARG A 356 HIS A 358 0 SHEET 2 G 2 ILE A 410 ASP A 412 -1 O ASP A 412 N ARG A 356 SHEET 1 H 5 GLU B 47 GLY B 52 0 SHEET 2 H 5 LYS B 27 SER B 33 1 N ALA B 30 O GLU B 47 SHEET 3 H 5 LYS B 4 ILE B 7 1 N ILE B 5 O LYS B 27 SHEET 4 H 5 ALA B 77 HIS B 79 1 O HIS B 79 N VAL B 6 SHEET 5 H 5 ILE B 101 PHE B 102 1 O ILE B 101 N ILE B 78 SHEET 1 I 3 ARG B 167 VAL B 172 0 SHEET 2 I 3 VAL B 156 GLY B 164 -1 N VAL B 156 O VAL B 172 SHEET 3 I 3 VAL B 198 LYS B 202 -1 O GLU B 201 N ILE B 157 SHEET 1 J 8 GLU B 283 ASN B 290 0 SHEET 2 J 8 ARG B 270 GLU B 280 -1 N GLU B 276 O GLU B 288 SHEET 3 J 8 ARG B 208 ASP B 217 -1 N ALA B 216 O GLY B 271 SHEET 4 J 8 ALA B 222 ARG B 234 -1 O LEU B 225 N GLN B 213 SHEET 5 J 8 GLN B 237 ALA B 243 -1 O VAL B 239 N MET B 232 SHEET 6 J 8 HIS B 333 ASN B 340 -1 O GLU B 336 N GLU B 241 SHEET 7 J 8 MET B 384 GLY B 392 -1 O LEU B 388 N CYS B 337 SHEET 8 J 8 VAL B 365 SER B 369 -1 N ARG B 366 O ILE B 389 SHEET 1 K 2 GLY B 352 LYS B 353 0 SHEET 2 K 2 THR B 376 VAL B 377 -1 O VAL B 377 N GLY B 352 SHEET 1 L 2 ARG B 356 HIS B 358 0 SHEET 2 L 2 ILE B 410 ASP B 412 -1 O ILE B 410 N HIS B 358 LINK OE1 GLU A 276 MG MG A1004 1555 1555 2.13 LINK OE2 GLU A 288 MG MG A1004 1555 1555 2.03 LINK O HOH A 547 MG MG A1004 1555 1555 2.08 LINK O HOH A 804 MG MG A1004 1555 1555 2.05 LINK O2A ADP A1002 MG MG A1004 1555 1555 2.00 LINK O3B ADP A1002 MG MG A1004 1555 1555 2.06 LINK OE1 GLU B 276 MG MG B1005 1555 1555 2.09 LINK OE1 GLU B 288 MG MG B1005 1555 1555 2.06 LINK O HOH B 545 MG MG B1005 1555 1555 1.83 LINK O HOH B 732 MG MG B1005 1555 1555 2.32 LINK O2A ADP B1001 MG MG B1005 1555 1555 1.89 LINK O2B ADP B1001 MG MG B1005 1555 1555 1.97 CISPEP 1 ALA A 243 PRO A 244 0 -8.80 CISPEP 2 TYR B 154 PRO B 155 0 0.81 CISPEP 3 ALA B 243 PRO B 244 0 -3.75 SITE 1 AC1 22 TYR A 82 GLY A 83 GLY A 162 GLY A 163 SITE 2 AC1 22 GLY A 164 GLY A 165 ARG A 167 PHE A 193 SITE 3 AC1 22 GLN A 237 LYS A 238 ASN A 290 ARG A 292 SITE 4 AC1 22 GLN A 294 VAL A 295 GLU A 296 ARG A 338 SITE 5 AC1 22 ASP A 382 HOH A 547 HOH A 561 HOH A 699 SITE 6 AC1 22 HOH A 747 HOH A 758 SITE 1 AC2 26 LYS A 116 LYS A 159 GLY A 163 GLY A 164 SITE 2 AC2 26 GLY A 165 GLY A 166 MET A 169 GLU A 201 SITE 3 AC2 26 LYS A 202 TYR A 203 LEU A 204 HIS A 209 SITE 4 AC2 26 GLN A 233 HIS A 236 GLU A 276 LEU A 278 SITE 5 AC2 26 ILE A 287 GLU A 288 ILE A 437 HOH A 547 SITE 6 AC2 26 HOH A 668 HOH A 684 HOH A 736 HOH A 758 SITE 7 AC2 26 HOH A 804 MG A1004 SITE 1 AC3 6 GLU A 276 GLU A 288 HOH A 547 HOH A 684 SITE 2 AC3 6 HOH A 804 ADP A1002 SITE 1 AC4 23 LYS B 116 LYS B 159 GLY B 164 GLY B 165 SITE 2 AC4 23 GLY B 166 MET B 169 GLU B 201 LYS B 202 SITE 3 AC4 23 TYR B 203 LEU B 204 HIS B 209 GLN B 233 SITE 4 AC4 23 HIS B 236 GLU B 276 LEU B 278 ILE B 287 SITE 5 AC4 23 GLU B 288 ILE B 437 HOH B 545 HOH B 561 SITE 6 AC4 23 HOH B 582 HOH B 732 MG B1005 SITE 1 AC5 24 TYR B 82 GLY B 83 GLY B 162 GLY B 163 SITE 2 AC5 24 GLY B 164 GLY B 165 PHE B 193 LYS B 238 SITE 3 AC5 24 ASN B 290 ARG B 292 GLN B 294 VAL B 295 SITE 4 AC5 24 GLU B 296 ARG B 338 ASP B 382 HOH B 510 SITE 5 AC5 24 HOH B 523 HOH B 543 HOH B 641 HOH B 651 SITE 6 AC5 24 HOH B 732 HOH B 771 HOH B 807 HOH B 821 SITE 1 AC6 5 GLU B 276 GLU B 288 HOH B 545 HOH B 732 SITE 2 AC6 5 ADP B1001 CRYST1 171.357 58.009 85.236 90.00 94.64 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 0.005836 0.000000 0.000473 0.00000 SCALE2 0.000000 0.017239 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011771 0.00000