PDB Short entry for 3GJN HEADER HYDROLASE 09-MAR-09 3GJN TITLE FOLLOWING EVOLUTIONARY PATHS TO HIGH AFFINITY AND SELECTIVITY PROTEIN- TITLE 2 PROTEIN INTERACTIONS USING COLICIN7 AND IMMUNITY PROTEINS COMPND MOL_ID: 1; COMPND 2 MOLECULE: COLICIN-E9 IMMUNITY PROTEIN; COMPND 3 CHAIN: A, D; COMPND 4 SYNONYM: IMME9, MICROCIN-E9 IMMUNITY PROTEIN; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: COLICIN-E7; COMPND 9 CHAIN: B, C; COMPND 10 FRAGMENT: UNP RESIDUES 446-576; COMPND 11 EC: 3.1.-.-; COMPND 12 ENGINEERED: YES; COMPND 13 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 GENE: IMM, CEIE9; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21 DE3; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET20; SOURCE 10 MOL_ID: 2; SOURCE 11 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 12 ORGANISM_TAXID: 562; SOURCE 13 GENE: COLE7, CEA; SOURCE 14 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 15 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 16 EXPRESSION_SYSTEM_STRAIN: BL21 DE3; SOURCE 17 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 18 EXPRESSION_SYSTEM_PLASMID: PET20 KEYWDS PROTEIN-PROTEIN COMPLEX, BACTERIOCIN IMMUNITY, ANTIBIOTIC, KEYWDS 2 ANTIMICROBIAL, BACTERIOCIN, ENDONUCLEASE, HYDROLASE, METAL-BINDING, KEYWDS 3 NUCLEASE EXPDTA X-RAY DIFFRACTION AUTHOR O.DYM,D.S.TAWFIK REVDAT 5 01-NOV-23 3GJN 1 REMARK REVDAT 4 10-NOV-21 3GJN 1 REMARK SEQADV LINK REVDAT 3 27-MAR-13 3GJN 1 REMARK VERSN REVDAT 2 20-OCT-09 3GJN 1 JRNL REVDAT 1 15-SEP-09 3GJN 0 JRNL AUTH K.B.LEVIN,O.DYM,S.ALBECK,S.MAGDASSI,A.H.KEEBLE,C.KLEANTHOUS, JRNL AUTH 2 D.S.TAWFIK JRNL TITL FOLLOWING EVOLUTIONARY PATHS TO PROTEIN-PROTEIN INTERACTIONS JRNL TITL 2 WITH HIGH AFFINITY AND SELECTIVITY JRNL REF NAT.STRUCT.MOL.BIOL. V. 16 1049 2009 JRNL REFN ISSN 1545-9993 JRNL PMID 19749752 JRNL DOI 10.1038/NSMB.1670 REMARK 2 REMARK 2 RESOLUTION. 2.48 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) : 2.48 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 43.94 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 91.9 REMARK 3 NUMBER OF REFLECTIONS : 15160 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) : 0.244 REMARK 3 R VALUE (WORKING SET) : 0.242 REMARK 3 FREE R VALUE : 0.276 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 814 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) : 2.48 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.54 REMARK 3 REFLECTION IN BIN (WORKING SET) : 619 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 52.37 REMARK 3 BIN R VALUE (WORKING SET) : 0.2990 REMARK 3 BIN FREE R VALUE SET COUNT : 45 REMARK 3 BIN FREE R VALUE : 0.3660 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3226 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 2 REMARK 3 SOLVENT ATOMS : 15 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 39.86 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 39.86 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.45000 REMARK 3 B22 (A**2) : -4.03000 REMARK 3 B33 (A**2) : 3.47000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -3.75000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.766 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.331 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.189 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 8.279 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.909 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.884 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3292 ; 0.028 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4422 ; 2.511 ; 1.947 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 397 ; 9.271 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 164 ;36.565 ;24.878 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 612 ;22.061 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 20 ;25.248 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 460 ; 0.177 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2498 ; 0.010 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1493 ; 0.282 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2204 ; 0.325 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 130 ; 0.219 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 2 ; 0.099 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 38 ; 0.359 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 2 ; 0.175 ; 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): 2085 ; 1.510 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3233 ; 2.089 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1406 ; 3.548 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1189 ; 5.236 ; 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 : 2 REMARK 3 REMARK 3 NCS GROUP NUMBER : 1 REMARK 3 CHAIN NAMES : A D REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 1004 A 1085 6 REMARK 3 1 D 1004 D 1085 6 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 LOOSE POSITIONAL 1 A (A): 647 ; 0.24 ; 5.00 REMARK 3 LOOSE THERMAL 1 A (A**2): 647 ; 1.17 ; 10.00 REMARK 3 REMARK 3 NCS GROUP NUMBER : 2 REMARK 3 CHAIN NAMES : B C REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 B 452 B 576 6 REMARK 3 1 C 452 C 576 6 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 LOOSE POSITIONAL 2 B (A): 955 ; 0.15 ; 5.00 REMARK 3 LOOSE THERMAL 2 B (A**2): 955 ; 1.37 ; 10.00 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 3GJN COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 11-MAR-09. REMARK 100 THE DEPOSITION ID IS D_1000051943. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-JAN-07 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 10.5 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 RU300 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : YALE MIRRORS REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IV++ REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 15983 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.150 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.2 REMARK 200 DATA REDUNDANCY : 3.400 REMARK 200 R MERGE (I) : 0.15400 REMARK 200 R SYM (I) : 0.14300 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 8.6300 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.59 REMARK 200 COMPLETENESS FOR SHELL (%) : 83.9 REMARK 200 DATA REDUNDANCY IN SHELL : 2.50 REMARK 200 R MERGE FOR SHELL (I) : 0.32700 REMARK 200 R SYM FOR SHELL (I) : 0.27600 REMARK 200 <I/SIGMA(I)> 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: PHASES REMARK 200 STARTING MODEL: PDB ENTRY 1FR2, 1ZNV REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 48.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.37 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 30% PEG40, PH10.5, MICROBATCH UNDER REMARK 280 OIL, TEMPERATURE 292K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 26.85650 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3, 4 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: PISA 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA 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: 3 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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: 4 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 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 MET A 1001 REMARK 465 GLU A 1002 REMARK 465 LEU A 1003 REMARK 465 GLY A 1086 REMARK 465 MET B 436 REMARK 465 HIS B 437 REMARK 465 HIS B 438 REMARK 465 HIS B 439 REMARK 465 HIS B 440 REMARK 465 HIS B 441 REMARK 465 HIS B 442 REMARK 465 SER B 443 REMARK 465 MET B 444 REMARK 465 GLY B 445 REMARK 465 LYS B 446 REMARK 465 ARG B 447 REMARK 465 ASN B 448 REMARK 465 LYS B 449 REMARK 465 PRO B 450 REMARK 465 GLY B 451 REMARK 465 ILE B 549 REMARK 465 SER B 550 REMARK 465 GLN B 551 REMARK 465 ASN B 552 REMARK 465 GLY B 553 REMARK 465 GLY B 554 REMARK 465 MET C 436 REMARK 465 HIS C 437 REMARK 465 HIS C 438 REMARK 465 HIS C 439 REMARK 465 HIS C 440 REMARK 465 HIS C 441 REMARK 465 HIS C 442 REMARK 465 SER C 443 REMARK 465 MET C 444 REMARK 465 GLY C 445 REMARK 465 LYS C 446 REMARK 465 ARG C 447 REMARK 465 ASN C 448 REMARK 465 LYS C 449 REMARK 465 PRO C 548 REMARK 465 ILE C 549 REMARK 465 SER C 550 REMARK 465 GLN C 551 REMARK 465 ASN C 552 REMARK 465 GLY C 553 REMARK 465 GLY C 554 REMARK 465 MET D 1001 REMARK 465 GLU D 1002 REMARK 465 LEU D 1003 REMARK 465 GLY D 1086 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 LYS B 522 CG CD CE NZ REMARK 470 VAL B 555 N REMARK 470 VAL C 555 N 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 NH1 ARG B 520 O ALA B 526 1.77 REMARK 500 NH1 ARG C 520 O ALA C 526 2.04 REMARK 500 CE LYS B 470 O HOH B 13 2.17 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 TYR A1054 CD1 TYR A1054 CE1 0.099 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 LYS B 483 CD - CE - NZ ANGL. DEV. = 15.3 DEGREES REMARK 500 ARG B 485 NE - CZ - NH2 ANGL. DEV. = 3.4 DEGREES REMARK 500 LYS B 487 N - CA - C ANGL. DEV. = 16.3 DEGREES REMARK 500 PRO B 527 C - N - CA ANGL. DEV. = -9.3 DEGREES REMARK 500 PRO B 548 C - N - CA ANGL. DEV. = -11.7 DEGREES REMARK 500 ARG B 568 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 ARG C 515 NE - CZ - NH1 ANGL. DEV. = 4.2 DEGREES REMARK 500 LYS C 567 CD - CE - NZ ANGL. DEV. = -14.3 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 ILE A1022 -71.30 -37.05 REMARK 500 CYS A1023 7.80 -58.78 REMARK 500 GLU A1026 -38.31 105.44 REMARK 500 LYS B 463 54.98 -118.89 REMARK 500 ASP B 471 -129.28 48.99 REMARK 500 ASN B 482 -55.42 -26.57 REMARK 500 GLU B 488 127.07 81.35 REMARK 500 LYS B 522 -47.31 -25.51 REMARK 500 LYS B 537 31.16 -87.59 REMARK 500 ASP C 471 -128.96 39.20 REMARK 500 GLU C 488 123.20 73.57 REMARK 500 LYS C 497 -71.42 -38.07 REMARK 500 LYS C 522 -48.27 -26.56 REMARK 500 LYS C 537 34.29 -72.00 REMARK 500 GLU C 546 2.51 -66.05 REMARK 500 GLU D1026 -29.87 96.74 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 VAL B 555 TYR B 556 -141.91 REMARK 500 VAL C 555 TYR C 556 -136.09 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 ZN B 600 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 544 ND1 REMARK 620 2 HIS B 569 NE2 98.1 REMARK 620 3 HIS B 573 NE2 111.1 95.1 REMARK 620 4 HOH B 601 O 153.0 96.8 89.8 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN C 600 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS C 544 ND1 REMARK 620 2 HIS C 569 NE2 100.1 REMARK 620 3 HIS C 573 NE2 111.2 96.7 REMARK 620 4 HOH C 601 O 151.8 94.0 91.1 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 ZN B 600 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN C 600 DBREF 3GJN A 1001 1086 UNP P13479 IMM9_ECOLX 1 86 DBREF 3GJN B 446 576 UNP Q47112 CEA7_ECOLX 446 576 DBREF 3GJN C 446 576 UNP Q47112 CEA7_ECOLX 446 576 DBREF 3GJN D 1001 1086 UNP P13479 IMM9_ECOLX 1 86 SEQADV 3GJN ASP A 1024 UNP P13479 ASN 24 ENGINEERED MUTATION SEQADV 3GJN GLU A 1026 UNP P13479 ASP 26 ENGINEERED MUTATION SEQADV 3GJN ALA A 1027 UNP P13479 THR 27 ENGINEERED MUTATION SEQADV 3GJN THR A 1028 UNP P13479 SER 28 ENGINEERED MUTATION SEQADV 3GJN ASP A 1034 UNP P13479 VAL 34 ENGINEERED MUTATION SEQADV 3GJN ILE A 1037 UNP P13479 VAL 37 ENGINEERED MUTATION SEQADV 3GJN TRP A 1055 UNP P13479 TYR 55 ENGINEERED MUTATION SEQADV 3GJN MET B 436 UNP Q47112 EXPRESSION TAG SEQADV 3GJN HIS B 437 UNP Q47112 EXPRESSION TAG SEQADV 3GJN HIS B 438 UNP Q47112 EXPRESSION TAG SEQADV 3GJN HIS B 439 UNP Q47112 EXPRESSION TAG SEQADV 3GJN HIS B 440 UNP Q47112 EXPRESSION TAG SEQADV 3GJN HIS B 441 UNP Q47112 EXPRESSION TAG SEQADV 3GJN HIS B 442 UNP Q47112 EXPRESSION TAG SEQADV 3GJN SER B 443 UNP Q47112 EXPRESSION TAG SEQADV 3GJN MET B 444 UNP Q47112 EXPRESSION TAG SEQADV 3GJN GLY B 445 UNP Q47112 EXPRESSION TAG SEQADV 3GJN ALA B 545 UNP Q47112 HIS 545 ENGINEERED MUTATION SEQADV 3GJN MET C 436 UNP Q47112 EXPRESSION TAG SEQADV 3GJN HIS C 437 UNP Q47112 EXPRESSION TAG SEQADV 3GJN HIS C 438 UNP Q47112 EXPRESSION TAG SEQADV 3GJN HIS C 439 UNP Q47112 EXPRESSION TAG SEQADV 3GJN HIS C 440 UNP Q47112 EXPRESSION TAG SEQADV 3GJN HIS C 441 UNP Q47112 EXPRESSION TAG SEQADV 3GJN HIS C 442 UNP Q47112 EXPRESSION TAG SEQADV 3GJN SER C 443 UNP Q47112 EXPRESSION TAG SEQADV 3GJN MET C 444 UNP Q47112 EXPRESSION TAG SEQADV 3GJN GLY C 445 UNP Q47112 EXPRESSION TAG SEQADV 3GJN ALA C 545 UNP Q47112 HIS 545 ENGINEERED MUTATION SEQADV 3GJN ASP D 1024 UNP P13479 ASN 24 ENGINEERED MUTATION SEQADV 3GJN GLU D 1026 UNP P13479 ASP 26 ENGINEERED MUTATION SEQADV 3GJN ALA D 1027 UNP P13479 THR 27 ENGINEERED MUTATION SEQADV 3GJN THR D 1028 UNP P13479 SER 28 ENGINEERED MUTATION SEQADV 3GJN ASP D 1034 UNP P13479 VAL 34 ENGINEERED MUTATION SEQADV 3GJN ILE D 1037 UNP P13479 VAL 37 ENGINEERED MUTATION SEQADV 3GJN TRP D 1055 UNP P13479 TYR 55 ENGINEERED MUTATION SEQRES 1 A 86 MET GLU LEU LYS HIS SER ILE SER ASP TYR THR GLU ALA SEQRES 2 A 86 GLU PHE LEU GLN LEU VAL THR THR ILE CYS ASP ALA GLU SEQRES 3 A 86 ALA THR SER GLU GLU GLU LEU ASP LYS LEU ILE THR HIS SEQRES 4 A 86 PHE GLU GLU MET THR GLU HIS PRO SER GLY SER ASP LEU SEQRES 5 A 86 ILE TYR TRP PRO LYS GLU GLY ASP ASP ASP SER PRO SER SEQRES 6 A 86 GLY ILE VAL ASN THR VAL LYS GLN TRP ARG ALA ALA ASN SEQRES 7 A 86 GLY LYS SER GLY PHE LYS GLN GLY SEQRES 1 B 141 MET HIS HIS HIS HIS HIS HIS SER MET GLY LYS ARG ASN SEQRES 2 B 141 LYS PRO GLY LYS ALA THR GLY LYS GLY LYS PRO VAL ASN SEQRES 3 B 141 ASN LYS TRP LEU ASN ASN ALA GLY LYS ASP LEU GLY SER SEQRES 4 B 141 PRO VAL PRO ASP ARG ILE ALA ASN LYS LEU ARG ASP LYS SEQRES 5 B 141 GLU PHE LYS SER PHE ASP ASP PHE ARG LYS LYS PHE TRP SEQRES 6 B 141 GLU GLU VAL SER LYS ASP PRO GLU LEU SER LYS GLN PHE SEQRES 7 B 141 SER ARG ASN ASN ASN ASP ARG MET LYS VAL GLY LYS ALA SEQRES 8 B 141 PRO LYS THR ARG THR GLN ASP VAL SER GLY LYS ARG THR SEQRES 9 B 141 SER PHE GLU LEU HIS ALA GLU LYS PRO ILE SER GLN ASN SEQRES 10 B 141 GLY GLY VAL TYR ASP MET ASP ASN ILE SER VAL VAL THR SEQRES 11 B 141 PRO LYS ARG HIS ILE ASP ILE HIS ARG GLY LYS SEQRES 1 C 141 MET HIS HIS HIS HIS HIS HIS SER MET GLY LYS ARG ASN SEQRES 2 C 141 LYS PRO GLY LYS ALA THR GLY LYS GLY LYS PRO VAL ASN SEQRES 3 C 141 ASN LYS TRP LEU ASN ASN ALA GLY LYS ASP LEU GLY SER SEQRES 4 C 141 PRO VAL PRO ASP ARG ILE ALA ASN LYS LEU ARG ASP LYS SEQRES 5 C 141 GLU PHE LYS SER PHE ASP ASP PHE ARG LYS LYS PHE TRP SEQRES 6 C 141 GLU GLU VAL SER LYS ASP PRO GLU LEU SER LYS GLN PHE SEQRES 7 C 141 SER ARG ASN ASN ASN ASP ARG MET LYS VAL GLY LYS ALA SEQRES 8 C 141 PRO LYS THR ARG THR GLN ASP VAL SER GLY LYS ARG THR SEQRES 9 C 141 SER PHE GLU LEU HIS ALA GLU LYS PRO ILE SER GLN ASN SEQRES 10 C 141 GLY GLY VAL TYR ASP MET ASP ASN ILE SER VAL VAL THR SEQRES 11 C 141 PRO LYS ARG HIS ILE ASP ILE HIS ARG GLY LYS SEQRES 1 D 86 MET GLU LEU LYS HIS SER ILE SER ASP TYR THR GLU ALA SEQRES 2 D 86 GLU PHE LEU GLN LEU VAL THR THR ILE CYS ASP ALA GLU SEQRES 3 D 86 ALA THR SER GLU GLU GLU LEU ASP LYS LEU ILE THR HIS SEQRES 4 D 86 PHE GLU GLU MET THR GLU HIS PRO SER GLY SER ASP LEU SEQRES 5 D 86 ILE TYR TRP PRO LYS GLU GLY ASP ASP ASP SER PRO SER SEQRES 6 D 86 GLY ILE VAL ASN THR VAL LYS GLN TRP ARG ALA ALA ASN SEQRES 7 D 86 GLY LYS SER GLY PHE LYS GLN GLY HET ZN B 600 1 HET ZN C 600 1 HETNAM ZN ZINC ION FORMUL 5 ZN 2(ZN 2+) FORMUL 7 HOH *15(H2 O) HELIX 1 1 SER A 1006 TYR A 1010 5 5 HELIX 2 2 THR A 1011 CYS A 1023 1 13 HELIX 3 3 SER A 1029 GLU A 1045 1 17 HELIX 4 4 SER A 1050 TRP A 1055 1 6 HELIX 5 5 SER A 1063 ASN A 1078 1 16 HELIX 6 6 LYS B 463 ALA B 468 5 6 HELIX 7 7 PRO B 477 ARG B 485 1 9 HELIX 8 8 SER B 491 SER B 504 1 14 HELIX 9 9 ASP B 506 LYS B 511 1 6 HELIX 10 10 SER B 514 VAL B 523 1 10 HELIX 11 11 ARG B 530 VAL B 534 5 5 HELIX 12 12 THR B 565 ARG B 574 1 10 HELIX 13 13 LYS C 463 LYS C 470 5 8 HELIX 14 14 PRO C 477 ARG C 485 1 9 HELIX 15 15 SER C 491 ASP C 506 1 16 HELIX 16 16 ASP C 506 LYS C 511 1 6 HELIX 17 17 SER C 514 VAL C 523 1 10 HELIX 18 18 ARG C 530 VAL C 534 5 5 HELIX 19 19 THR C 565 ARG C 574 1 10 HELIX 20 20 SER D 1006 TYR D 1010 5 5 HELIX 21 21 THR D 1011 CYS D 1023 1 13 HELIX 22 22 SER D 1029 GLU D 1045 1 17 HELIX 23 23 SER D 1050 TRP D 1055 1 6 HELIX 24 24 SER D 1063 ASN D 1078 1 16 SHEET 1 A 2 ALA B 453 THR B 454 0 SHEET 2 A 2 TYR B 556 ASP B 557 1 O TYR B 556 N THR B 454 SHEET 1 B 3 SER B 474 PRO B 475 0 SHEET 2 B 3 ILE B 561 VAL B 564 -1 O VAL B 563 N SER B 474 SHEET 3 B 3 GLU B 542 ALA B 545 -1 N GLU B 542 O VAL B 564 SHEET 1 C 2 ALA C 453 THR C 454 0 SHEET 2 C 2 TYR C 556 ASP C 557 1 O TYR C 556 N THR C 454 SHEET 1 D 3 SER C 474 PRO C 475 0 SHEET 2 D 3 ILE C 561 VAL C 564 -1 O VAL C 563 N SER C 474 SHEET 3 D 3 GLU C 542 ALA C 545 -1 N GLU C 542 O VAL C 564 LINK ND1 HIS B 544 ZN ZN B 600 1555 1555 2.26 LINK NE2 HIS B 569 ZN ZN B 600 1555 1555 1.92 LINK NE2 HIS B 573 ZN ZN B 600 1555 1555 2.04 LINK ZN ZN B 600 O HOH B 601 1555 1555 2.48 LINK ND1 HIS C 544 ZN ZN C 600 1555 1555 2.13 LINK NE2 HIS C 569 ZN ZN C 600 1555 1555 2.17 LINK NE2 HIS C 573 ZN ZN C 600 1555 1555 2.21 LINK ZN ZN C 600 O HOH C 601 1555 1555 2.43 SITE 1 AC1 4 HIS B 544 HIS B 569 HIS B 573 HOH B 601 SITE 1 AC2 4 HIS C 544 HIS C 569 HIS C 573 HOH C 601 CRYST1 59.650 53.713 79.334 90.00 105.59 90.00 P 1 21 1 4 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 0.016764 0.000000 0.004678 0.00000 SCALE2 0.000000 0.018617 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013086 0.00000