10 20 30 40 50 60 70 80 3CR3 - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER TRANSFERASE 04-APR-08 3CR3
TITLE STRUCTURE OF A TRANSIENT COMPLEX BETWEEN DHA-KINASE SUBUNITS TITLE 2 DHAM AND DHAL FROM LACTOCOCCUS LACTIS
COMPND MOL_ID: 1; COMPND 2 MOLECULE: PTS-DEPENDENT DIHYDROXYACETONE KINASE, ADP- COMPND 3 BINDING SUBUNIT DHAL; COMPND 4 CHAIN: A, B; COMPND 5 EC: 2.7.-.-; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: PTS-DEPENDENT DIHYDROXYACETONE KINASE, COMPND 9 PHOSPHOTRANSFERASE SUBUNIT DHAM; COMPND 10 CHAIN: C, D; COMPND 11 SYNONYM: PHOSPHOTRANSFERASE ENZYME IIA COMPONENT, PTS COMPND 12 SYSTEM EIIA COMPONENT; COMPND 13 EC: 2.7.1.-; COMPND 14 ENGINEERED: YES
SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: LACTOCOCCUS LACTIS SUBSP. LACTIS; SOURCE 3 ORGANISM_COMMON: STREPTOCOCCUS LACTIS; SOURCE 4 STRAIN: IL1403; SOURCE 5 GENE: DHAL; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: CB-DELTA-KLM; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PMS-DHAKLM; SOURCE 10 MOL_ID: 2; SOURCE 11 ORGANISM_SCIENTIFIC: LACTOCOCCUS LACTIS SUBSP. LACTIS; SOURCE 12 ORGANISM_COMMON: STREPTOCOCCUS LACTIS; SOURCE 13 GENE: DHAM; SOURCE 14 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 15 EXPRESSION_SYSTEM_STRAIN: CB-DELTA-KLM; SOURCE 16 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 17 EXPRESSION_SYSTEM_PLASMID: PMS-DHAKLM
KEYWDS TRANSIENT PROTEIN-PROTEIN COMPLEX TRANSFERASE COMPLEX PTS- KEYWDS 2 DEPENDENT DIHYDROXYACETONE KINASE, ATP-BINDING, GLYCEROL KEYWDS 3 METABOLISM, NUCLEOTIDE-BINDING, PHOSPHOTRANSFERASE SYSTEM
EXPDTA X-RAY DIFFRACTION
AUTHOR J.M.JECKELMANN,A.ZURBRIGGEN,S.CHRISTEN,U.BAUMANN,B.ERNI
REVDAT 4 09-JUN-09 3CR3 1 REVDAT REVDAT 3 24-FEB-09 3CR3 1 VERSN REVDAT 2 20-JAN-09 3CR3 1 JRNL REVDAT 1 21-OCT-08 3CR3 0
JRNL AUTH A.ZURBRIGGEN,J.M.JECKELMANN,S.CHRISTEN, JRNL AUTH 2 C.BIENIOSSEK,U.BAUMANN,B.ERNI JRNL TITL X-RAY STRUCTURES OF THE THREE LACTOCOCCUS LACTIS JRNL TITL 2 DIHYDROXYACETONE KINASE SUBUNITS AND OF A TRANSIENT JRNL TITL 3 INTERSUBUNIT COMPLEX. JRNL REF J.BIOL.CHEM. V. 283 35789 2008 JRNL REFN ISSN 0021-9258 JRNL PMID 18957416 JRNL DOI 10.1074/JBC.M804893200
REMARK 1
REMARK 2 REMARK 2 RESOLUTION. 2.10 ANGSTROMS.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 66.23 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 37952 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) : 0.222 REMARK 3 R VALUE (WORKING SET) : 0.219 REMARK 3 FREE R VALUE : 0.263 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1897 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) : 2.10 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.15 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2605 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.00 REMARK 3 BIN R VALUE (WORKING SET) : 0.2180 REMARK 3 BIN FREE R VALUE SET COUNT : 140 REMARK 3 BIN FREE R VALUE : 0.2920 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4726 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 58 REMARK 3 SOLVENT ATOMS : 192 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 26.50 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 19.17 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 3.31000 REMARK 3 B22 (A**2) : -2.51000 REMARK 3 B33 (A**2) : -0.79000 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): 0.261 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.209 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.144 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 9.876 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.929 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.898 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4840 ; 0.011 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6532 ; 1.215 ; 1.995 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 622 ; 4.888 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 190 ;41.488 ;26.105 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 890 ;14.556 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 14 ;24.171 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 768 ; 0.078 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3482 ; 0.004 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 2520 ; 0.204 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 3421 ; 0.293 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 266 ; 0.217 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 2 ; 0.103 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 28 ; 0.182 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 8 ; 0.153 ; 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): 3186 ; 0.812 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4912 ; 1.058 ; 2.000 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1887 ; 2.062 ; 3.000 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1620 ; 3.070 ; 4.500 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 : 2 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 192 5 REMARK 3 1 B 1 B 192 5 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 MEDIUM POSITIONAL 1 A (A): 768 ; 0.150 ; 0.500 REMARK 3 LOOSE POSITIONAL 1 A (A): 673 ; 0.420 ; 5.000 REMARK 3 MEDIUM THERMAL 1 A (A**2): 768 ; 0.970 ; 2.000 REMARK 3 LOOSE THERMAL 1 A (A**2): 673 ; 1.480 ;10.000 REMARK 3 REMARK 3 NCS GROUP NUMBER : 2 REMARK 3 CHAIN NAMES : C D REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 C 3 C 123 5 REMARK 3 1 D 3 D 123 5 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 MEDIUM POSITIONAL 2 C (A): 484 ; 0.160 ; 0.500 REMARK 3 LOOSE POSITIONAL 2 C (A): 438 ; 0.640 ; 5.000 REMARK 3 MEDIUM THERMAL 2 C (A**2): 484 ; 0.710 ; 2.000 REMARK 3 LOOSE THERMAL 2 C (A**2): 438 ; 1.560 ;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 : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL
REMARK 4 REMARK 4 3CR3 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 10-APR-08. REMARK 100 THE RCSB ID CODE IS RCSB047111.
REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 08-DEC-06 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : EMBL/DESY, HAMBURG REMARK 200 BEAMLINE : X12 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97885,0.97823,0.97240 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 37982 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.100 REMARK 200 RESOLUTION RANGE LOW (A) : 147.442 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 4.900 REMARK 200 R MERGE (I) : 0.04700 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 22.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.21 REMARK 200 COMPLETENESS FOR SHELL (%) : 24.4 REMARK 200 DATA REDUNDANCY IN SHELL : 4.10 REMARK 200 R MERGE FOR SHELL (I) : 0.16100 REMARK 200 R SYM FOR SHELL (I) : 0.21400 REMARK 200 <I/SIGMA(I)> FOR SHELL : 8.100 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: SHARP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL
REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.03 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.32 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M TRIS/HCL, 0.2 M LISO4, 36 % REMARK 280 PEG 4000, PH 8.5, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE REMARK 280 289K
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 37.06650 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 73.42100 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 37.06650 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 73.42100 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, 3, 4, 5 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 8130 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 23780 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -48.1 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D 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: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, C 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: 3 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, D 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: 4 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, D 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: 5 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, C 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 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 SER A 139 18.43 -142.72 REMARK 500 ALA D 26 70.80 -151.50 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 A1212 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 29 OD2 REMARK 620 2 ASP A 34 OD1 93.9 REMARK 620 3 ASP A 36 OD1 90.7 87.7 REMARK 620 4 ADP A1211 O1A 86.7 172.4 99.9 REMARK 620 5 ADP A1211 O1B 164.8 89.3 104.2 88.3 REMARK 620 6 HOH A1287 O 83.7 84.4 170.0 88.2 81.8 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A1213 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 34 OD2 REMARK 620 2 ASP A 36 OD2 85.9 REMARK 620 3 ADP A1211 O1B 86.7 92.8 REMARK 620 4 HOH A1229 O 110.6 163.4 86.0 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B1212 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 29 OD2 REMARK 620 2 ASP B 34 OD1 85.5 REMARK 620 3 ASP B 36 OD1 83.3 84.2 REMARK 620 4 ADP B1211 O1B 176.2 95.7 93.2 REMARK 620 5 HOH B1251 O 84.9 88.1 166.4 98.7 REMARK 620 6 ADP B1211 O1A 87.4 171.2 89.8 91.0 96.5 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B1213 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 34 OD2 REMARK 620 2 ASP B 36 OD2 86.3 REMARK 620 3 HOH B1224 O 112.3 152.5 REMARK 620 4 ADP B1211 O1B 93.4 98.7 100.2 REMARK 620 N 1 2 3
REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 1212 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 1213 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 1212 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 1213 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ADP B 1211 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ADP A 1211
REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2BTD RELATED DB: PDB REMARK 900 DHAL E.COLI REMARK 900 RELATED ID: 2IU5 RELATED DB: PDB REMARK 900 INVOLED IN THE REGULATION OF DHA OPERON IN L.LACTIS REMARK 900 RELATED ID: 2IU4 RELATED DB: PDB REMARK 900 INVOLED IN THE REGULATION OF DHA OPERON IN L.LACTIS REMARK 900 RELATED ID: 2IU6 RELATED DB: PDB REMARK 900 INVOLED IN THE REGULATION OF DHA OPERON IN L.LACTIS
DBREF 3CR3 A 2 192 UNP Q9CIV7 DHAL_LACLA 2 192 DBREF 3CR3 B 2 192 UNP Q9CIV7 DHAL_LACLA 2 192 DBREF 3CR3 C 3 123 UNP Q9CIV6 DHAM_LACLA 3 123 DBREF 3CR3 D 3 123 UNP Q9CIV6 DHAM_LACLA 3 123
SEQADV 3CR3 LEU A 1 UNP Q9CIV7 INSERTION SEQADV 3CR3 LEU B 1 UNP Q9CIV7 INSERTION
SEQRES 1 A 192 LEU LEU THR ILE ASP THR THR ILE GLU TRP LEU GLY LYS SEQRES 2 A 192 PHE ASN GLU LYS ILE GLN GLU ASN LYS ALA TYR LEU SER SEQRES 3 A 192 GLU LEU ASP GLY PRO ILE GLY ASP GLY ASP HIS GLY ALA SEQRES 4 A 192 ASN MSE ALA ARG GLY MSE SER GLU THR MSE LYS ALA LEU SEQRES 5 A 192 GLU VAL SER ASN PHE GLY ASN VAL SER GLU ILE PHE LYS SEQRES 6 A 192 LYS VAL ALA MSE THR LEU MSE SER LYS VAL GLY GLY ALA SEQRES 7 A 192 SER GLY PRO LEU TYR GLY SER ALA PHE LEU ALA MSE SER SEQRES 8 A 192 LYS THR ALA ILE GLU THR LEU ASP THR SER GLU LEU ILE SEQRES 9 A 192 TYR ALA GLY LEU GLU ALA ILE GLN LYS ARG GLY LYS ALA SEQRES 10 A 192 GLN VAL GLY GLU LYS THR MSE VAL ASP ILE TRP SER ALA SEQRES 11 A 192 PHE LEU ASN ASP LEU GLN THR ASP SER ALA SER LYS ASP SEQRES 12 A 192 ASN LEU GLU LYS VAL VAL LYS ALA SER ALA GLY LEU LEU SEQRES 13 A 192 ALA THR LYS GLY ARG ALA SER TYR LEU GLY GLU ARG SER SEQRES 14 A 192 ILE GLY HIS ILE ASP PRO GLY THR GLN SER SER ALA TYR SEQRES 15 A 192 LEU PHE GLU THR LEU LEU GLU VAL VAL ALA SEQRES 1 B 192 LEU LEU THR ILE ASP THR THR ILE GLU TRP LEU GLY LYS SEQRES 2 B 192 PHE ASN GLU LYS ILE GLN GLU ASN LYS ALA TYR LEU SER SEQRES 3 B 192 GLU LEU ASP GLY PRO ILE GLY ASP GLY ASP HIS GLY ALA SEQRES 4 B 192 ASN MSE ALA ARG GLY MSE SER GLU THR MSE LYS ALA LEU SEQRES 5 B 192 GLU VAL SER ASN PHE GLY ASN VAL SER GLU ILE PHE LYS SEQRES 6 B 192 LYS VAL ALA MSE THR LEU MSE SER LYS VAL GLY GLY ALA SEQRES 7 B 192 SER GLY PRO LEU TYR GLY SER ALA PHE LEU ALA MSE SER SEQRES 8 B 192 LYS THR ALA ILE GLU THR LEU ASP THR SER GLU LEU ILE SEQRES 9 B 192 TYR ALA GLY LEU GLU ALA ILE GLN LYS ARG GLY LYS ALA SEQRES 10 B 192 GLN VAL GLY GLU LYS THR MSE VAL ASP ILE TRP SER ALA SEQRES 11 B 192 PHE LEU ASN ASP LEU GLN THR ASP SER ALA SER LYS ASP SEQRES 12 B 192 ASN LEU GLU LYS VAL VAL LYS ALA SER ALA GLY LEU LEU SEQRES 13 B 192 ALA THR LYS GLY ARG ALA SER TYR LEU GLY GLU ARG SER SEQRES 14 B 192 ILE GLY HIS ILE ASP PRO GLY THR GLN SER SER ALA TYR SEQRES 15 B 192 LEU PHE GLU THR LEU LEU GLU VAL VAL ALA SEQRES 1 C 121 TYR GLY ILE VAL ILE VAL SER HIS SER PRO GLU ILE ALA SEQRES 2 C 121 SER GLY LEU LYS LYS LEU ILE ARG GLU VAL ALA LYS ASN SEQRES 3 C 121 ILE SER LEU THR ALA ILE GLY GLY LEU GLU ASN GLY GLU SEQRES 4 C 121 ILE GLY THR SER PHE ASP ARG VAL MSE ASN ALA ILE GLU SEQRES 5 C 121 GLU ASN GLU ALA ASP ASN LEU LEU THR PHE PHE ASP LEU SEQRES 6 C 121 GLY SER ALA ARG MSE ASN LEU ASP LEU VAL SER GLU MSE SEQRES 7 C 121 THR ASP LYS GLU LEU THR ILE PHE ASN VAL PRO LEU ILE SEQRES 8 C 121 GLU GLY ALA TYR THR ALA SER ALA LEU LEU GLU ALA GLY SEQRES 9 C 121 ALA THR PHE GLU ALA ILE LYS GLU GLN LEU GLU LYS MSE SEQRES 10 C 121 LEU ILE GLU LYS SEQRES 1 D 121 TYR GLY ILE VAL ILE VAL SER HIS SER PRO GLU ILE ALA SEQRES 2 D 121 SER GLY LEU LYS LYS LEU ILE ARG GLU VAL ALA LYS ASN SEQRES 3 D 121 ILE SER LEU THR ALA ILE GLY GLY LEU GLU ASN GLY GLU SEQRES 4 D 121 ILE GLY THR SER PHE ASP ARG VAL MSE ASN ALA ILE GLU SEQRES 5 D 121 GLU ASN GLU ALA ASP ASN LEU LEU THR PHE PHE ASP LEU SEQRES 6 D 121 GLY SER ALA ARG MSE ASN LEU ASP LEU VAL SER GLU MSE SEQRES 7 D 121 THR ASP LYS GLU LEU THR ILE PHE ASN VAL PRO LEU ILE SEQRES 8 D 121 GLU GLY ALA TYR THR ALA SER ALA LEU LEU GLU ALA GLY SEQRES 9 D 121 ALA THR PHE GLU ALA ILE LYS GLU GLN LEU GLU LYS MSE SEQRES 10 D 121 LEU ILE GLU LYS
MODRES 3CR3 MSE A 41 MET SELENOMETHIONINE MODRES 3CR3 MSE A 45 MET SELENOMETHIONINE MODRES 3CR3 MSE A 49 MET SELENOMETHIONINE MODRES 3CR3 MSE A 69 MET SELENOMETHIONINE MODRES 3CR3 MSE A 72 MET SELENOMETHIONINE MODRES 3CR3 MSE A 90 MET SELENOMETHIONINE MODRES 3CR3 MSE A 124 MET SELENOMETHIONINE MODRES 3CR3 MSE B 41 MET SELENOMETHIONINE MODRES 3CR3 MSE B 45 MET SELENOMETHIONINE MODRES 3CR3 MSE B 49 MET SELENOMETHIONINE MODRES 3CR3 MSE B 69 MET SELENOMETHIONINE MODRES 3CR3 MSE B 72 MET SELENOMETHIONINE MODRES 3CR3 MSE B 90 MET SELENOMETHIONINE MODRES 3CR3 MSE B 124 MET SELENOMETHIONINE MODRES 3CR3 MSE C 50 MET SELENOMETHIONINE MODRES 3CR3 MSE C 72 MET SELENOMETHIONINE MODRES 3CR3 MSE C 80 MET SELENOMETHIONINE MODRES 3CR3 MSE C 119 MET SELENOMETHIONINE MODRES 3CR3 MSE D 50 MET SELENOMETHIONINE MODRES 3CR3 MSE D 72 MET SELENOMETHIONINE MODRES 3CR3 MSE D 80 MET SELENOMETHIONINE MODRES 3CR3 MSE D 119 MET SELENOMETHIONINE
HET MSE A 41 8 HET MSE A 45 8 HET MSE A 49 8 HET MSE A 69 8 HET MSE A 72 8 HET MSE A 90 8 HET MSE A 124 8 HET MSE B 41 8 HET MSE B 45 8 HET MSE B 49 8 HET MSE B 69 8 HET MSE B 72 8 HET MSE B 90 8 HET MSE B 124 8 HET MSE C 50 8 HET MSE C 72 8 HET MSE C 80 8 HET MSE C 119 8 HET MSE D 50 8 HET MSE D 72 8 HET MSE D 80 8 HET MSE D 119 8 HET MG A1212 1 HET MG A1213 1 HET MG B1212 1 HET MG B1213 1 HET ADP A1211 27 HET ADP B1211 27
HETNAM MSE SELENOMETHIONINE HETNAM MG MAGNESIUM ION HETNAM ADP ADENOSINE-5'-DIPHOSPHATE
FORMUL 1 MSE 22(C5 H11 N O2 SE) FORMUL 5 MG 4(MG 2+) FORMUL 9 ADP 2(C10 H15 N5 O10 P2) FORMUL 11 HOH *192(H2 O)
HELIX 1 1 THR A 3 ASN A 21 1 19 HELIX 2 2 ASN A 21 ASP A 29 1 9 HELIX 3 3 ASP A 36 SER A 55 1 20 HELIX 4 4 ASN A 59 VAL A 75 1 17 HELIX 5 5 ALA A 78 ILE A 95 1 18 HELIX 6 6 ASP A 99 LYS A 116 1 18 HELIX 7 7 MSE A 124 THR A 137 1 14 HELIX 8 8 SER A 141 SER A 152 1 12 HELIX 9 9 ALA A 153 LEU A 155 5 3 HELIX 10 10 GLY A 160 ILE A 170 5 11 HELIX 11 11 ASP A 174 ALA A 192 1 19 HELIX 12 12 THR B 3 ASP B 29 1 27 HELIX 13 13 ASP B 36 VAL B 54 1 19 HELIX 14 14 ASN B 59 VAL B 75 1 17 HELIX 15 15 ALA B 78 ALA B 94 1 17 HELIX 16 16 ASP B 99 LYS B 116 1 18 HELIX 17 17 MSE B 124 THR B 137 1 14 HELIX 18 18 SER B 141 ALA B 153 1 13 HELIX 19 19 GLY B 160 ILE B 170 5 11 HELIX 20 20 ASP B 174 ALA B 192 1 19 HELIX 21 21 SER C 11 GLU C 24 1 14 HELIX 22 22 SER C 45 ASN C 56 1 12 HELIX 23 23 LEU C 67 GLU C 79 1 13 HELIX 24 24 PRO C 91 ALA C 105 1 15 HELIX 25 25 THR C 108 LYS C 118 1 11 HELIX 26 26 SER D 11 GLU D 24 1 14 HELIX 27 27 SER D 45 ASN D 56 1 12 HELIX 28 28 LEU D 67 GLU D 79 1 13 HELIX 29 29 PRO D 91 ALA D 105 1 15 HELIX 30 30 THR D 108 LYS D 118 1 11
SHEET 1 A 4 SER C 30 GLY C 35 0 SHEET 2 A 4 GLY C 4 SER C 9 1 N ILE C 7 O ILE C 34 SHEET 3 A 4 ASN C 60 PHE C 65 1 O PHE C 64 N VAL C 8 SHEET 4 A 4 GLU C 84 ILE C 87 1 O THR C 86 N THR C 63 SHEET 1 B 4 SER D 30 GLY D 35 0 SHEET 2 B 4 GLY D 4 SER D 9 1 N ILE D 7 O THR D 32 SHEET 3 B 4 ASN D 60 PHE D 65 1 O LEU D 62 N GLY D 4 SHEET 4 B 4 GLU D 84 ILE D 87 1 O GLU D 84 N LEU D 61
LINK C ASN A 40 N MSE A 41 1555 1555 1.33 LINK C MSE A 41 N ALA A 42 1555 1555 1.34 LINK C GLY A 44 N MSE A 45 1555 1555 1.33 LINK C MSE A 45 N SER A 46 1555 1555 1.33 LINK C THR A 48 N MSE A 49 1555 1555 1.33 LINK C MSE A 49 N LYS A 50 1555 1555 1.33 LINK C ALA A 68 N MSE A 69 1555 1555 1.34 LINK C MSE A 69 N THR A 70 1555 1555 1.33 LINK C LEU A 71 N MSE A 72 1555 1555 1.34 LINK C MSE A 72 N SER A 73 1555 1555 1.33 LINK C ALA A 89 N MSE A 90 1555 1555 1.34 LINK C MSE A 90 N SER A 91 1555 1555 1.33 LINK C THR A 123 N MSE A 124 1555 1555 1.34 LINK C MSE A 124 N VAL A 125 1555 1555 1.33 LINK C ASN B 40 N MSE B 41 1555 1555 1.32 LINK C MSE B 41 N ALA B 42 1555 1555 1.34 LINK C GLY B 44 N MSE B 45 1555 1555 1.33 LINK C MSE B 45 N SER B 46 1555 1555 1.33 LINK C THR B 48 N MSE B 49 1555 1555 1.33 LINK C MSE B 49 N LYS B 50 1555 1555 1.33 LINK C ALA B 68 N MSE B 69 1555 1555 1.33 LINK C MSE B 69 N THR B 70 1555 1555 1.33 LINK C LEU B 71 N MSE B 72 1555 1555 1.33 LINK C MSE B 72 N SER B 73 1555 1555 1.33 LINK C ALA B 89 N MSE B 90 1555 1555 1.33 LINK C MSE B 90 N SER B 91 1555 1555 1.33 LINK C THR B 123 N MSE B 124 1555 1555 1.32 LINK C MSE B 124 N VAL B 125 1555 1555 1.33 LINK C VAL C 49 N MSE C 50 1555 1555 1.33 LINK C MSE C 50 N ASN C 51 1555 1555 1.33 LINK C ARG C 71 N MSE C 72 1555 1555 1.34 LINK C MSE C 72 N ASN C 73 1555 1555 1.33 LINK C GLU C 79 N MSE C 80 1555 1555 1.33 LINK C MSE C 80 N THR C 81 1555 1555 1.33 LINK C LYS C 118 N MSE C 119 1555 1555 1.33 LINK C MSE C 119 N LEU C 120 1555 1555 1.33 LINK C VAL D 49 N MSE D 50 1555 1555 1.33 LINK C MSE D 50 N ASN D 51 1555 1555 1.33 LINK C ARG D 71 N MSE D 72 1555 1555 1.33 LINK C MSE D 72 N ASN D 73 1555 1555 1.33 LINK C GLU D 79 N MSE D 80 1555 1555 1.33 LINK C MSE D 80 N THR D 81 1555 1555 1.33 LINK C LYS D 118 N MSE D 119 1555 1555 1.33 LINK C MSE D 119 N LEU D 120 1555 1555 1.33 LINK OD2 ASP A 29 MG MG A1212 1555 1555 2.10 LINK OD1 ASP A 34 MG MG A1212 1555 1555 2.09 LINK OD2 ASP A 34 MG MG A1213 1555 1555 2.44 LINK OD1 ASP A 36 MG MG A1212 1555 1555 1.89 LINK OD2 ASP A 36 MG MG A1213 1555 1555 2.41 LINK OD2 ASP B 29 MG MG B1212 1555 1555 2.23 LINK OD1 ASP B 34 MG MG B1212 1555 1555 2.05 LINK OD2 ASP B 34 MG MG B1213 1555 1555 2.36 LINK OD1 ASP B 36 MG MG B1212 1555 1555 2.16 LINK OD2 ASP B 36 MG MG B1213 1555 1555 2.39 LINK MG MG A1212 O1A ADP A1211 1555 1555 2.05 LINK MG MG A1212 O1B ADP A1211 1555 1555 2.09 LINK MG MG A1212 O HOH A1287 1555 1555 2.36 LINK MG MG A1213 O1B ADP A1211 1555 1555 2.47 LINK MG MG A1213 O HOH A1229 1555 1555 2.36 LINK MG MG B1212 O1B ADP B1211 1555 1555 1.89 LINK MG MG B1212 O HOH B1251 1555 1555 2.01 LINK MG MG B1212 O1A ADP B1211 1555 1555 2.09 LINK MG MG B1213 O HOH B1224 1555 1555 2.31 LINK MG MG B1213 O1B ADP B1211 1555 1555 2.11
SITE 1 AC1 3 ASP B 29 ASP B 34 ASP B 36 SITE 1 AC2 2 ASP B 34 ASP B 36 SITE 1 AC3 3 ASP A 29 ASP A 34 ASP A 36 SITE 1 AC4 2 ASP A 34 ASP A 36 SITE 1 AC5 17 ASP B 29 ASP B 34 ASP B 36 HIS B 37 SITE 2 AC5 17 ASN B 40 GLY B 77 ALA B 78 SER B 79 SITE 3 AC5 17 LEU B 82 GLY B 115 ALA B 117 THR B 123 SITE 4 AC5 17 GLY B 160 ARG B 161 ASP B 174 PRO B 175 SITE 5 AC5 17 GLY B 176 SITE 1 AC6 17 ASP A 29 ASP A 34 ASP A 36 HIS A 37 SITE 2 AC6 17 ASN A 40 GLY A 77 ALA A 78 SER A 79 SITE 3 AC6 17 LEU A 82 GLY A 115 ALA A 117 THR A 123 SITE 4 AC6 17 GLY A 160 ARG A 161 ASP A 174 PRO A 175 SITE 5 AC6 17 GLY A 176
CRYST1 74.133 146.842 58.483 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 0.013489 0.000000 0.000000 0.00000
SCALE2 0.000000 0.006810 0.000000 0.00000
SCALE3 0.000000 0.000000 0.017099 0.00000