PDB Short entry for 2J9G HEADER LIGASE 21-MAR-08 2J9G TITLE CRYSTAL STRUCTURE OF BIOTIN CARBOXYLASE FROM E. COLI IN COMPLEX WITH TITLE 2 AMPPNP AND ADP 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; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS NUCLEOTIDE-BINDING, FATTY ACID BIOSYNTHESIS, ATP-BINDING, LIPID KEYWDS 2 SYNTHESIS, BIOTIN CARBOXYLASE, FAS, ADP, LIGASE, AMPPNP, BIOTIN, KEYWDS 3 BACTERIAL EXPDTA X-RAY DIFFRACTION AUTHOR I.MOCHALKIN REVDAT 5 13-DEC-23 2J9G 1 REMARK LINK REVDAT 4 05-JUL-17 2J9G 1 REMARK REVDAT 3 24-FEB-09 2J9G 1 VERSN REVDAT 2 30-SEP-08 2J9G 1 JRNL REVDAT 1 09-SEP-08 2J9G 0 JRNL AUTH I.MOCHALKIN,J.R.MILLER,A.EVDOKIMOV,S.LIGHTLE,C.YAN, JRNL AUTH 2 C.K.STOVER,G.L.WALDROP JRNL TITL STRUCTURAL EVIDENCE FOR SUBSTRATE-INDUCED SYNERGISM AND JRNL TITL 2 HALF-SITES REACTIVITY IN BIOTIN CARBOXYLASE. JRNL REF PROTEIN SCI. V. 17 1706 2008 JRNL REFN ISSN 0961-8368 JRNL PMID 18725455 JRNL DOI 10.1110/PS.035584.108 REMARK 2 REMARK 2 RESOLUTION. 2.05 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) : 2.05 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 82.48 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 56070 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) : 0.192 REMARK 3 R VALUE (WORKING SET) : 0.190 REMARK 3 FREE R VALUE : 0.236 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2990 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) : 2.05 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.10 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3947 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.2290 REMARK 3 BIN FREE R VALUE SET COUNT : 221 REMARK 3 BIN FREE R VALUE : 0.2820 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6823 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 70 REMARK 3 SOLVENT ATOMS : 669 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 23.64 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.46000 REMARK 3 B22 (A**2) : 0.87000 REMARK 3 B33 (A**2) : -1.33000 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): 0.215 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.181 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.114 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 7.693 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.947 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.921 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 7052 ; 0.007 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 4869 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 9532 ; 1.064 ; 1.978 REMARK 3 BOND ANGLES OTHERS (DEGREES): 11847 ; 0.978 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 886 ; 5.117 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 317 ;33.132 ;23.659 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1230 ;12.565 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 59 ;13.740 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 1044 ; 0.060 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 7865 ; 0.003 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1406 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1369 ; 0.184 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 5207 ; 0.185 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 3388 ; 0.166 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 3726 ; 0.080 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 535 ; 0.129 ; 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): 21 ; 0.176 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 81 ; 0.243 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 37 ; 0.135 ; 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): 5753 ; 0.603 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 7063 ; 0.651 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 3038 ; 1.032 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 2469 ; 1.546 ; 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 2J9G COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 21-MAR-08. REMARK 100 THE DEPOSITION ID IS D_1290035760. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 04-MAY-07 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU RUH2R 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 : NULL REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : SCALEPACK REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 59125 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.050 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 7.000 REMARK 200 R MERGE (I) : 0.08000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 29.9700 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.05 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.12 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 6.70 REMARK 200 R MERGE FOR SHELL (I) : 0.56000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 4.220 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP, REFMAC REMARK 200 STARTING MODEL: PDB ENTRY 1DV2 REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 42.96 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.17 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M BIS-TRIS PH 6.5, 0.2M CACL2, 45% REMARK 280 MPD REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 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 33.85200 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 60.88450 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 56.12550 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 60.88450 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 33.85200 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 56.12550 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PQS 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 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PQS REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 ALA A 191 REMARK 465 ALA A 192 REMARK 465 GLN A 447 REMARK 465 GLU A 448 REMARK 465 LYS A 449 REMARK 465 GLY B 168 REMARK 465 MET B 169 REMARK 465 ALA B 192 REMARK 465 PHE B 193 REMARK 465 SER B 194 REMARK 465 GLU B 448 REMARK 465 LYS B 449 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 GLN B 447 CA C O CB CG CD OE1 REMARK 470 GLN B 447 NE2 REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 MET B 1 N CA C O CB CG SD REMARK 480 MET B 1 CE 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 2267 O HOH B 2271 2.09 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 -165.62 -166.08 REMARK 500 SER A 59 -91.17 -122.59 REMARK 500 PHE A 84 -114.81 46.33 REMARK 500 ALA A 189 49.68 -95.58 REMARK 500 SER A 194 -25.73 87.87 REMARK 500 LEU A 225 64.55 -117.59 REMARK 500 ALA A 226 -153.75 54.13 REMARK 500 PRO A 349 142.66 -30.51 REMARK 500 TYR A 381 -165.48 -118.98 REMARK 500 ASN B 9 -165.93 -164.03 REMARK 500 SER B 59 -84.68 -124.78 REMARK 500 PHE B 84 -116.34 40.45 REMARK 500 ASP B 196 35.60 -91.94 REMARK 500 GLU B 201 -145.95 -104.11 REMARK 500 ASN B 206 48.66 -145.21 REMARK 500 ALA B 226 -159.31 56.49 REMARK 500 ARG B 292 170.28 178.96 REMARK 500 LEU B 446 -154.67 -100.90 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 A2022 DISTANCE = 6.44 ANGSTROMS 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 A1447 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 288 OE2 REMARK 620 2 HOH A2089 O 165.5 REMARK 620 3 HOH A2122 O 81.3 93.8 REMARK 620 4 HOH A2237 O 79.0 87.1 86.8 REMARK 620 5 HOH A2238 O 115.8 78.0 95.6 165.1 REMARK 620 6 HOH A2239 O 85.9 98.0 166.9 88.1 92.4 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B1447 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B 276 OE1 REMARK 620 2 GLU B 288 OE1 89.0 REMARK 620 3 ADP B1449 O1A 90.4 87.5 REMARK 620 4 ADP B1449 O1B 166.3 102.1 82.2 REMARK 620 5 HOH B2177 O 84.7 173.8 92.3 84.0 REMARK 620 6 HOH B2301 O 102.1 100.4 165.3 83.9 81.3 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 MG A1447 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B1447 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A1448 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B1448 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ANP A1449 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ADP B1449 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1DV1 RELATED DB: PDB REMARK 900 STRUCTURE OF BIOTIN CARBOXYLASE (APO) REMARK 900 RELATED ID: 1BNC RELATED DB: PDB REMARK 900 RELATED ID: 2GPS RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE BIOTIN CARBOXYLASE SUBUNIT, E23RMUTANT, OF REMARK 900 ACETYL-COA CARBOXYLASE FROM ESCHERICHIA COLI. REMARK 900 RELATED ID: 2GPW RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE BIOTIN CARBOXYLASE SUBUNIT, F363AMUTANT, REMARK 900 OF ACETYL-COA CARBOXYLASE FROM ESCHERICHIA COLI. REMARK 900 RELATED ID: 1K69 RELATED DB: PDB REMARK 900 MODEL INTERACTION BETWEEN BCCP AND ATP-BOUND CARBOXYLASESUBUNIT OF REMARK 900 ACETYL COA CARBOXYLASE REMARK 900 RELATED ID: 1DV2 RELATED DB: PDB REMARK 900 THE STRUCTURE OF BIOTIN CARBOXYLASE, MUTANT E288K, COMPLEXED WITH REMARK 900 ATP REMARK 900 RELATED ID: 2VR1 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF BIOTIN CARBOXYLASE FROM E. COLI IN COMPLEX REMARK 900 WITH ATP ANALOG, ADPCF2P. REMARK 900 RELATED ID: 2C00 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF BIOTIN CARBOXYLASE FROM PSEUDOMONAS AERUGINOSA REMARK 900 IN APO FORM REMARK 900 RELATED ID: 2VPQ RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF BIOTIN CARBOXYLASE FROM S. AUREUS COMPLEXED REMARK 900 WITH AMPPNP REMARK 900 RELATED ID: 2VQD RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF BIOTIN CARBOXYLASE FROM PSEUDOMONAS AERUGINOSA REMARK 900 COMPLEXED WITH AMPCP DBREF 2J9G A 1 449 UNP P24182 ACCC_ECOLI 1 449 DBREF 2J9G B 1 449 UNP P24182 ACCC_ECOLI 1 449 SEQRES 1 A 449 MET LEU ASP LYS ILE VAL ILE ALA ASN ARG GLY GLU ILE SEQRES 2 A 449 ALA LEU ARG ILE LEU ARG ALA CYS LYS GLU LEU GLY ILE SEQRES 3 A 449 LYS THR VAL ALA VAL HIS SER SER ALA ASP ARG ASP LEU SEQRES 4 A 449 LYS HIS VAL LEU LEU ALA ASP GLU THR VAL CYS ILE GLY SEQRES 5 A 449 PRO ALA PRO SER VAL LYS SER TYR LEU ASN ILE PRO ALA SEQRES 6 A 449 ILE ILE SER ALA ALA GLU ILE THR GLY ALA VAL ALA ILE SEQRES 7 A 449 HIS PRO GLY TYR GLY PHE LEU SER GLU ASN ALA ASN PHE SEQRES 8 A 449 ALA GLU GLN VAL GLU ARG SER GLY PHE ILE PHE ILE GLY SEQRES 9 A 449 PRO LYS ALA GLU THR ILE ARG LEU MET GLY ASP LYS VAL SEQRES 10 A 449 SER ALA ILE ALA ALA MET LYS LYS ALA GLY VAL PRO CYS SEQRES 11 A 449 VAL PRO GLY SER ASP GLY PRO LEU GLY ASP ASP MET ASP SEQRES 12 A 449 LYS ASN ARG ALA ILE ALA LYS ARG ILE GLY TYR PRO VAL SEQRES 13 A 449 ILE ILE LYS ALA SER GLY GLY GLY GLY GLY ARG GLY MET SEQRES 14 A 449 ARG VAL VAL ARG GLY ASP ALA GLU LEU ALA GLN SER ILE SEQRES 15 A 449 SER MET THR ARG ALA GLU ALA LYS ALA ALA PHE SER ASN SEQRES 16 A 449 ASP MET VAL TYR MET GLU LYS TYR LEU GLU ASN PRO ARG SEQRES 17 A 449 HIS VAL GLU ILE GLN VAL LEU ALA ASP GLY GLN GLY ASN SEQRES 18 A 449 ALA ILE TYR LEU ALA GLU ARG ASP CYS SER MET GLN ARG SEQRES 19 A 449 ARG HIS GLN LYS VAL VAL GLU GLU ALA PRO ALA PRO GLY SEQRES 20 A 449 ILE THR PRO GLU LEU ARG ARG TYR ILE GLY GLU ARG CYS SEQRES 21 A 449 ALA LYS ALA CYS VAL ASP ILE GLY TYR ARG GLY ALA GLY SEQRES 22 A 449 THR PHE GLU PHE LEU PHE GLU ASN GLY GLU PHE TYR PHE SEQRES 23 A 449 ILE GLU MET ASN THR ARG ILE GLN VAL GLU HIS PRO VAL SEQRES 24 A 449 THR GLU MET ILE THR GLY VAL ASP LEU ILE LYS GLU GLN SEQRES 25 A 449 LEU ARG ILE ALA ALA GLY GLN PRO LEU SER ILE LYS GLN SEQRES 26 A 449 GLU GLU VAL HIS VAL ARG GLY HIS ALA VAL GLU CYS ARG SEQRES 27 A 449 ILE ASN ALA GLU ASP PRO ASN THR PHE LEU PRO SER PRO SEQRES 28 A 449 GLY LYS ILE THR ARG PHE HIS ALA PRO GLY GLY PHE GLY SEQRES 29 A 449 VAL ARG TRP GLU SER HIS ILE TYR ALA GLY TYR THR VAL SEQRES 30 A 449 PRO PRO TYR TYR ASP SER MET ILE GLY LYS LEU ILE CYS SEQRES 31 A 449 TYR GLY GLU ASN ARG ASP VAL ALA ILE ALA ARG MET LYS SEQRES 32 A 449 ASN ALA LEU GLN GLU LEU ILE ILE ASP GLY ILE LYS THR SEQRES 33 A 449 ASN VAL ASP LEU GLN ILE ARG ILE MET ASN ASP GLU ASN SEQRES 34 A 449 PHE GLN HIS GLY GLY THR ASN ILE HIS TYR LEU GLU LYS SEQRES 35 A 449 LYS LEU GLY LEU GLN GLU LYS SEQRES 1 B 449 MET LEU ASP LYS ILE VAL ILE ALA ASN ARG GLY GLU ILE SEQRES 2 B 449 ALA LEU ARG ILE LEU ARG ALA CYS LYS GLU LEU GLY ILE SEQRES 3 B 449 LYS THR VAL ALA VAL HIS SER SER ALA ASP ARG ASP LEU SEQRES 4 B 449 LYS HIS VAL LEU LEU ALA ASP GLU THR VAL CYS ILE GLY SEQRES 5 B 449 PRO ALA PRO SER VAL LYS SER TYR LEU ASN ILE PRO ALA SEQRES 6 B 449 ILE ILE SER ALA ALA GLU ILE THR GLY ALA VAL ALA ILE SEQRES 7 B 449 HIS PRO GLY TYR GLY PHE LEU SER GLU ASN ALA ASN PHE SEQRES 8 B 449 ALA GLU GLN VAL GLU ARG SER GLY PHE ILE PHE ILE GLY SEQRES 9 B 449 PRO LYS ALA GLU THR ILE ARG LEU MET GLY ASP LYS VAL SEQRES 10 B 449 SER ALA ILE ALA ALA MET LYS LYS ALA GLY VAL PRO CYS SEQRES 11 B 449 VAL PRO GLY SER ASP GLY PRO LEU GLY ASP ASP MET ASP SEQRES 12 B 449 LYS ASN ARG ALA ILE ALA LYS ARG ILE GLY TYR PRO VAL SEQRES 13 B 449 ILE ILE LYS ALA SER GLY GLY GLY GLY GLY ARG GLY MET SEQRES 14 B 449 ARG VAL VAL ARG GLY ASP ALA GLU LEU ALA GLN SER ILE SEQRES 15 B 449 SER MET THR ARG ALA GLU ALA LYS ALA ALA PHE SER ASN SEQRES 16 B 449 ASP MET VAL TYR MET GLU LYS TYR LEU GLU ASN PRO ARG SEQRES 17 B 449 HIS VAL GLU ILE GLN VAL LEU ALA ASP GLY GLN GLY ASN SEQRES 18 B 449 ALA ILE TYR LEU ALA GLU ARG ASP CYS SER MET GLN ARG SEQRES 19 B 449 ARG HIS GLN LYS VAL VAL GLU GLU ALA PRO ALA PRO GLY SEQRES 20 B 449 ILE THR PRO GLU LEU ARG ARG TYR ILE GLY GLU ARG CYS SEQRES 21 B 449 ALA LYS ALA CYS VAL ASP ILE GLY TYR ARG GLY ALA GLY SEQRES 22 B 449 THR PHE GLU PHE LEU PHE GLU ASN GLY GLU PHE TYR PHE SEQRES 23 B 449 ILE GLU MET ASN THR ARG ILE GLN VAL GLU HIS PRO VAL SEQRES 24 B 449 THR GLU MET ILE THR GLY VAL ASP LEU ILE LYS GLU GLN SEQRES 25 B 449 LEU ARG ILE ALA ALA GLY GLN PRO LEU SER ILE LYS GLN SEQRES 26 B 449 GLU GLU VAL HIS VAL ARG GLY HIS ALA VAL GLU CYS ARG SEQRES 27 B 449 ILE ASN ALA GLU ASP PRO ASN THR PHE LEU PRO SER PRO SEQRES 28 B 449 GLY LYS ILE THR ARG PHE HIS ALA PRO GLY GLY PHE GLY SEQRES 29 B 449 VAL ARG TRP GLU SER HIS ILE TYR ALA GLY TYR THR VAL SEQRES 30 B 449 PRO PRO TYR TYR ASP SER MET ILE GLY LYS LEU ILE CYS SEQRES 31 B 449 TYR GLY GLU ASN ARG ASP VAL ALA ILE ALA ARG MET LYS SEQRES 32 B 449 ASN ALA LEU GLN GLU LEU ILE ILE ASP GLY ILE LYS THR SEQRES 33 B 449 ASN VAL ASP LEU GLN ILE ARG ILE MET ASN ASP GLU ASN SEQRES 34 B 449 PHE GLN HIS GLY GLY THR ASN ILE HIS TYR LEU GLU LYS SEQRES 35 B 449 LYS LEU GLY LEU GLN GLU LYS HET MG A1447 1 HET SO4 A1448 5 HET ANP A1449 31 HET MG B1447 1 HET SO4 B1448 5 HET ADP B1449 27 HETNAM MG MAGNESIUM ION HETNAM SO4 SULFATE ION HETNAM ANP PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER HETNAM ADP ADENOSINE-5'-DIPHOSPHATE FORMUL 3 MG 2(MG 2+) FORMUL 4 SO4 2(O4 S 2-) FORMUL 5 ANP C10 H17 N6 O12 P3 FORMUL 8 ADP C10 H15 N5 O10 P2 FORMUL 9 HOH *669(H2 O) HELIX 1 1 ARG A 10 GLY A 25 1 16 HELIX 2 2 ALA A 35 ARG A 37 5 3 HELIX 3 3 LEU A 39 ALA A 45 1 7 HELIX 4 4 PRO A 55 SER A 59 5 5 HELIX 5 5 ASN A 62 GLY A 74 1 13 HELIX 6 6 ASN A 88 SER A 98 1 11 HELIX 7 7 LYS A 106 ASP A 115 1 10 HELIX 8 8 ASP A 115 GLY A 127 1 13 HELIX 9 9 ASP A 141 GLY A 153 1 13 HELIX 10 10 GLY A 174 ALA A 189 1 16 HELIX 11 11 THR A 249 ILE A 267 1 19 HELIX 12 12 GLU A 296 GLY A 305 1 10 HELIX 13 13 ASP A 307 ALA A 317 1 11 HELIX 14 14 LYS A 324 VAL A 328 5 5 HELIX 15 15 ASN A 394 LEU A 409 1 16 HELIX 16 16 ASN A 417 ASN A 426 1 10 HELIX 17 17 ASP A 427 GLY A 433 1 7 HELIX 18 18 HIS A 438 GLY A 445 1 8 HELIX 19 19 ARG B 10 LEU B 24 1 15 HELIX 20 20 ALA B 35 ARG B 37 5 3 HELIX 21 21 LEU B 39 ALA B 45 1 7 HELIX 22 22 PRO B 55 SER B 59 5 5 HELIX 23 23 ASN B 62 THR B 73 1 12 HELIX 24 24 ASN B 88 SER B 98 1 11 HELIX 25 25 LYS B 106 ASP B 115 1 10 HELIX 26 26 ASP B 115 ALA B 126 1 12 HELIX 27 27 ASP B 141 GLY B 153 1 13 HELIX 28 28 SER B 181 ALA B 189 1 9 HELIX 29 29 THR B 249 GLY B 268 1 20 HELIX 30 30 GLU B 296 GLY B 305 1 10 HELIX 31 31 ASP B 307 ALA B 317 1 11 HELIX 32 32 LYS B 324 VAL B 328 5 5 HELIX 33 33 ASN B 394 LEU B 409 1 16 HELIX 34 34 ASN B 417 ASN B 426 1 10 HELIX 35 35 ASP B 427 GLY B 433 1 7 HELIX 36 36 HIS B 438 GLY B 445 1 8 SHEET 1 AA 5 GLU A 47 GLY A 52 0 SHEET 2 AA 5 LYS A 27 SER A 33 1 O THR A 28 N GLU A 47 SHEET 3 AA 5 LYS A 4 ILE A 7 1 O ILE A 5 N VAL A 29 SHEET 4 AA 5 ALA A 77 HIS A 79 1 O ALA A 77 N VAL A 6 SHEET 5 AA 5 ILE A 101 PHE A 102 1 O ILE A 101 N ILE A 78 SHEET 1 AB 3 ARG A 167 VAL A 172 0 SHEET 2 AB 3 VAL A 156 GLY A 164 -1 O VAL A 156 N VAL A 172 SHEET 3 AB 3 VAL A 198 LYS A 202 -1 O TYR A 199 N LYS A 159 SHEET 1 AC 8 GLU A 283 ASN A 290 0 SHEET 2 AC 8 ARG A 270 GLU A 280 -1 O THR A 274 N ASN A 290 SHEET 3 AC 8 ARG A 208 ASP A 217 -1 O ARG A 208 N PHE A 279 SHEET 4 AC 8 ALA A 222 ARG A 234 -1 O ILE A 223 N LEU A 215 SHEET 5 AC 8 GLN A 237 ALA A 243 -1 O GLN A 237 N ARG A 234 SHEET 6 AC 8 HIS A 333 ASN A 340 -1 O ALA A 334 N ALA A 243 SHEET 7 AC 8 MET A 384 GLY A 392 -1 N ILE A 385 O ILE A 339 SHEET 8 AC 8 VAL A 365 GLU A 368 -1 O ARG A 366 N ILE A 389 SHEET 1 AD 2 GLY A 352 LYS A 353 0 SHEET 2 AD 2 THR A 376 VAL A 377 -1 O VAL A 377 N GLY A 352 SHEET 1 AE 2 ARG A 356 HIS A 358 0 SHEET 2 AE 2 ILE A 410 ASP A 412 -1 O ILE A 410 N HIS A 358 SHEET 1 BA 5 GLU B 47 GLY B 52 0 SHEET 2 BA 5 LYS B 27 SER B 33 1 O THR B 28 N GLU B 47 SHEET 3 BA 5 LYS B 4 ILE B 7 1 O ILE B 5 N VAL B 29 SHEET 4 BA 5 ALA B 77 HIS B 79 1 O ALA B 77 N VAL B 6 SHEET 5 BA 5 ILE B 101 PHE B 102 1 O ILE B 101 N ILE B 78 SHEET 1 BB 3 VAL B 171 VAL B 172 0 SHEET 2 BB 3 VAL B 156 ALA B 160 -1 O VAL B 156 N VAL B 172 SHEET 3 BB 3 VAL B 198 MET B 200 -1 O TYR B 199 N LYS B 159 SHEET 1 BC 8 GLU B 283 ASN B 290 0 SHEET 2 BC 8 ARG B 270 GLU B 280 -1 O THR B 274 N ASN B 290 SHEET 3 BC 8 ARG B 208 ASP B 217 -1 O ARG B 208 N PHE B 279 SHEET 4 BC 8 ALA B 222 ARG B 234 -1 O ILE B 223 N LEU B 215 SHEET 5 BC 8 GLN B 237 ALA B 243 -1 O GLN B 237 N ARG B 234 SHEET 6 BC 8 HIS B 333 ASN B 340 -1 O ALA B 334 N ALA B 243 SHEET 7 BC 8 MET B 384 GLY B 392 -1 N ILE B 385 O ILE B 339 SHEET 8 BC 8 VAL B 365 SER B 369 -1 O ARG B 366 N ILE B 389 SHEET 1 BD 2 GLY B 352 LYS B 353 0 SHEET 2 BD 2 THR B 376 VAL B 377 -1 O VAL B 377 N GLY B 352 SHEET 1 BE 2 ARG B 356 HIS B 358 0 SHEET 2 BE 2 ILE B 410 ASP B 412 -1 O ILE B 410 N HIS B 358 LINK OE2 GLU A 288 MG MG A1447 1555 1555 2.15 LINK MG MG A1447 O HOH A2089 1555 1555 2.11 LINK MG MG A1447 O HOH A2122 1555 1555 2.23 LINK MG MG A1447 O HOH A2237 1555 1555 2.12 LINK MG MG A1447 O HOH A2238 1555 1555 2.12 LINK MG MG A1447 O HOH A2239 1555 1555 2.14 LINK OE1 GLU B 276 MG MG B1447 1555 1555 2.06 LINK OE1 GLU B 288 MG MG B1447 1555 1555 2.21 LINK MG MG B1447 O1A ADP B1449 1555 1555 1.98 LINK MG MG B1447 O1B ADP B1449 1555 1555 2.19 LINK MG MG B1447 O HOH B2177 1555 1555 2.12 LINK MG MG B1447 O HOH B2301 1555 1555 2.00 CISPEP 1 TYR A 154 PRO A 155 0 -3.65 CISPEP 2 ALA A 243 PRO A 244 0 -8.46 CISPEP 3 TYR B 154 PRO B 155 0 -1.27 CISPEP 4 ALA B 243 PRO B 244 0 -8.01 SITE 1 AC1 6 GLU A 288 HOH A2089 HOH A2122 HOH A2237 SITE 2 AC1 6 HOH A2238 HOH A2239 SITE 1 AC2 5 GLU B 276 GLU B 288 ADP B1449 HOH B2177 SITE 2 AC2 5 HOH B2301 SITE 1 AC3 8 LYS A 238 ASN A 290 ARG A 292 GLN A 294 SITE 2 AC3 8 VAL A 295 GLU A 296 ARG A 338 HOH A2364 SITE 1 AC4 7 LYS B 238 ARG B 292 VAL B 295 GLU B 296 SITE 2 AC4 7 ARG B 338 HOH B2297 HOH B2298 SITE 1 AC5 21 LYS A 116 ILE A 157 LYS A 159 GLY A 163 SITE 2 AC5 21 GLY A 164 GLY A 165 GLY A 166 MET A 169 SITE 3 AC5 21 GLU A 201 LYS A 202 TYR A 203 LEU A 204 SITE 4 AC5 21 HIS A 236 LEU A 278 ILE A 287 GLU A 288 SITE 5 AC5 21 ILE A 437 HOH A2195 HOH A2198 HOH A2365 SITE 6 AC5 21 HOH A2367 SITE 1 AC6 21 LYS B 116 ILE B 157 LYS B 159 GLY B 163 SITE 2 AC6 21 GLY B 164 GLY B 165 GLY B 166 GLU B 201 SITE 3 AC6 21 LYS B 202 LEU B 204 HIS B 209 GLN B 233 SITE 4 AC6 21 HIS B 236 GLU B 276 LEU B 278 GLU B 288 SITE 5 AC6 21 ILE B 437 MG B1447 HOH B2177 HOH B2301 SITE 6 AC6 21 HOH B2302 CRYST1 67.704 112.251 121.769 90.00 90.00 90.00 P 21 21 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 0.014770 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008909 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008212 0.00000