HEADER HYDROLASE 31-AUG-09 3IVE TITLE PUTATIVE 5'-NUCLEOTIDASE (C4898) FROM ESCHERICHIA COLI IN COMPLEX WITH TITLE 2 CYTIDINE COMPND MOL_ID: 1; COMPND 2 MOLECULE: NUCLEOTIDASE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: SEQUENCE DATABASE RESIDUES 22-519; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI O6; SOURCE 3 ORGANISM_TAXID: 217992; SOURCE 4 GENE: C4898; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: BC-PSGX4(BC) KEYWDS STRUCTURAL GENOMICS, NUCLEOTIDASE, PSI-2, PROTEIN STRUCTURE KEYWDS 2 INITIATIVE, NEW YORK SGX RESEARCH CENTER FOR STRUCTURAL GENOMICS, KEYWDS 3 NYSGXRC, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR U.A.RAMAGOPAL,R.TORO,S.K.BURLEY,S.C.ALMO,NEW YORK SGX RESEARCH CENTER AUTHOR 2 FOR STRUCTURAL GENOMICS (NYSGXRC) REVDAT 5 22-NOV-23 3IVE 1 REMARK REVDAT 4 06-SEP-23 3IVE 1 REMARK REVDAT 3 10-FEB-21 3IVE 1 AUTHOR JRNL REMARK SEQADV REVDAT 3 2 1 LINK REVDAT 2 01-NOV-17 3IVE 1 REMARK REVDAT 1 29-SEP-09 3IVE 0 JRNL AUTH U.A.RAMAGOPAL,R.TORO,S.K.BURLEY,S.C.ALMO JRNL TITL PUTATIVE 5'-NUCLEOTIDASE (C4898) FROM ESCHERICHIA COLI IN JRNL TITL 2 COMPLEX WITH CYTIDINE JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.70 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) : 1.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 95.7 REMARK 3 NUMBER OF REFLECTIONS : 57858 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) : 0.167 REMARK 3 R VALUE (WORKING SET) : 0.165 REMARK 3 FREE R VALUE : 0.190 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2923 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.70 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.75 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3080 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 73.24 REMARK 3 BIN R VALUE (WORKING SET) : 0.2230 REMARK 3 BIN FREE R VALUE SET COUNT : 179 REMARK 3 BIN FREE R VALUE : 0.2820 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3829 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 25 REMARK 3 SOLVENT ATOMS : 357 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 16.81 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.57000 REMARK 3 B22 (A**2) : 1.40000 REMARK 3 B33 (A**2) : -0.90000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.15000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.097 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.093 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.058 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.750 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.962 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.952 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3969 ; 0.013 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5391 ; 1.324 ; 1.954 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 505 ; 5.872 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 173 ;39.015 ;25.202 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 683 ;12.680 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 14 ;15.856 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 610 ; 0.093 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2973 ; 0.007 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL 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): 2462 ; 0.726 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3976 ; 1.373 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1507 ; 2.432 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1409 ; 4.040 ; 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 : 1.20 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, U VALUES REFINED INDIVIDUALLY REMARK 4 REMARK 4 3IVE COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 09-SEP-09. REMARK 100 THE DEPOSITION ID IS D_1000054912. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 25-MAR-09 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X29A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : NULL REMARK 200 WAVELENGTH OR RANGE (A) : 0.9793 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO, HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 57862 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.700 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 (%) : 95.8 REMARK 200 DATA REDUNDANCY : 3.800 REMARK 200 R MERGE (I) : 0.10200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 7.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.76 REMARK 200 COMPLETENESS FOR SHELL (%) : 77.1 REMARK 200 DATA REDUNDANCY IN SHELL : 3.50 REMARK 200 R MERGE FOR SHELL (I) : 0.44200 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: MOLREP REMARK 200 STARTING MODEL: PDB ENTRY 3IVD REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.40 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.48 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 25% PEG 3350, 0.2M LISO4, 0.1M BIS REMARK 280 -TRIS PH 5.5, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 298K 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 78.13050 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 38.72650 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 78.13050 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 38.72650 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 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 610 LIES ON A SPECIAL POSITION. 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 MSE A 19 REMARK 465 SER A 20 REMARK 465 LEU A 21 REMARK 465 GLY A 223 REMARK 465 GLY A 224 REMARK 465 THR A 225 REMARK 465 GLU A 520 REMARK 465 GLY A 521 REMARK 465 HIS A 522 REMARK 465 HIS A 523 REMARK 465 HIS A 524 REMARK 465 HIS A 525 REMARK 465 HIS A 526 REMARK 465 HIS A 527 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 ALA A 77 30.02 -98.51 REMARK 500 THR A 82 113.46 85.45 REMARK 500 ALA A 106 144.08 -170.69 REMARK 500 GLN A 134 109.74 -165.65 REMARK 500 ASN A 136 17.20 -146.27 REMARK 500 ASP A 188 95.34 -15.50 REMARK 500 VAL A 227 115.96 70.21 REMARK 500 HIS A 251 -44.96 122.06 REMARK 500 SER A 272 164.12 83.49 REMARK 500 THR A 463 -157.86 -151.79 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 MN A 601 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 32 OD1 REMARK 620 2 ASP A 79 OD2 81.6 REMARK 620 3 SO4 A 604 S 129.2 81.5 REMARK 620 4 SO4 A 604 O4 96.2 81.3 33.9 REMARK 620 5 SO4 A 604 O3 162.0 92.4 32.8 66.1 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 FE A 602 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 79 OD2 REMARK 620 2 ASN A 111 OD1 108.4 REMARK 620 3 HIS A 212 NE2 86.9 84.3 REMARK 620 4 HIS A 251 ND1 160.4 90.9 92.2 REMARK 620 5 SO4 A 604 O2 89.8 96.6 176.7 91.0 REMARK 620 6 SO4 A 604 O4 77.7 154.7 120.9 86.1 58.5 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 MN A 601 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FE A 602 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CTN A 603 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 604 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 605 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3IVD RELATED DB: PDB REMARK 900 RELATED ID: NYSGXRC-13565A RELATED DB: TARGETDB DBREF 3IVE A 22 519 UNP Q8FBB1 Q8FBB1_ECOL6 22 519 SEQADV 3IVE MSE A 19 UNP Q8FBB1 EXPRESSION TAG SEQADV 3IVE SER A 20 UNP Q8FBB1 EXPRESSION TAG SEQADV 3IVE LEU A 21 UNP Q8FBB1 EXPRESSION TAG SEQADV 3IVE GLU A 520 UNP Q8FBB1 EXPRESSION TAG SEQADV 3IVE GLY A 521 UNP Q8FBB1 EXPRESSION TAG SEQADV 3IVE HIS A 522 UNP Q8FBB1 EXPRESSION TAG SEQADV 3IVE HIS A 523 UNP Q8FBB1 EXPRESSION TAG SEQADV 3IVE HIS A 524 UNP Q8FBB1 EXPRESSION TAG SEQADV 3IVE HIS A 525 UNP Q8FBB1 EXPRESSION TAG SEQADV 3IVE HIS A 526 UNP Q8FBB1 EXPRESSION TAG SEQADV 3IVE HIS A 527 UNP Q8FBB1 EXPRESSION TAG SEQRES 1 A 509 MSE SER LEU ALA LYS ASP VAL THR ILE ILE TYR THR ASN SEQRES 2 A 509 ASP LEU HIS ALA HIS VAL GLU PRO TYR LYS VAL PRO TRP SEQRES 3 A 509 ILE ALA ASP GLY LYS ARG ASP ILE GLY GLY TRP ALA ASN SEQRES 4 A 509 ILE THR THR LEU VAL LYS GLN GLU LYS ALA LYS ASN LYS SEQRES 5 A 509 ALA THR TRP PHE PHE ASP ALA GLY ASP TYR PHE THR GLY SEQRES 6 A 509 PRO TYR ILE SER SER LEU THR LYS GLY LYS ALA ILE ILE SEQRES 7 A 509 ASP ILE MSE ASN THR MSE PRO PHE ASP ALA VAL THR ILE SEQRES 8 A 509 GLY ASN HIS GLU PHE ASP HIS GLY TRP ASP ASN THR LEU SEQRES 9 A 509 LEU GLN LEU SER GLN ALA LYS PHE PRO ILE VAL GLN GLY SEQRES 10 A 509 ASN ILE PHE TYR GLN ASN SER SER LYS SER PHE TRP ASP SEQRES 11 A 509 LYS PRO TYR THR ILE ILE GLU LYS ASP GLY VAL LYS ILE SEQRES 12 A 509 GLY VAL ILE GLY LEU HIS GLY VAL PHE ALA PHE ASN ASP SEQRES 13 A 509 THR VAL SER ALA ALA THR ARG VAL GLY ILE GLU ALA ARG SEQRES 14 A 509 ASP GLU ILE LYS TRP LEU GLN ARG TYR ILE ASP GLU LEU SEQRES 15 A 509 LYS GLY LYS VAL ASP LEU THR VAL ALA LEU ILE HIS GLU SEQRES 16 A 509 GLY VAL PRO ALA ARG GLN SER SER MSE GLY GLY THR ASP SEQRES 17 A 509 VAL ARG ARG ALA LEU ASP LYS ASP ILE GLN THR ALA SER SEQRES 18 A 509 GLN VAL LYS GLY LEU ASP ILE LEU ILE THR GLY HIS ALA SEQRES 19 A 509 HIS VAL GLY THR PRO GLU PRO ILE LYS VAL GLY ASN THR SEQRES 20 A 509 LEU ILE LEU SER THR ASP SER GLY GLY ILE ASP VAL GLY SEQRES 21 A 509 LYS LEU VAL LEU ASP TYR LYS GLU LYS PRO HIS ASN PHE SEQRES 22 A 509 THR VAL LYS ASN PHE GLU LEU LYS THR ILE TYR ALA ASP SEQRES 23 A 509 GLU TRP LYS PRO ASP GLN GLN THR LYS GLN VAL ILE ASP SEQRES 24 A 509 GLY TRP ASN LYS LYS LEU ASP GLU VAL VAL GLN GLN THR SEQRES 25 A 509 VAL ALA GLN SER PRO VAL GLU LEU LYS ARG ALA TYR GLY SEQRES 26 A 509 GLU SER ALA SER LEU GLY ASN LEU ALA ALA ASP ALA LEU SEQRES 27 A 509 LEU ALA ALA ALA GLY LYS ASN THR GLN LEU ALA LEU THR SEQRES 28 A 509 ASN SER GLY GLY ILE ARG ASN GLU ILE PRO ALA GLY ALA SEQRES 29 A 509 ILE THR MSE GLY GLY VAL ILE SER THR PHE PRO PHE PRO SEQRES 30 A 509 ASN GLU LEU VAL THR MSE GLU LEU THR GLY LYS GLN LEU SEQRES 31 A 509 ARG SER LEU MSE GLU HIS GLY ALA SER LEU SER ASN GLY SEQRES 32 A 509 VAL LEU GLN VAL SER LYS GLY LEU GLU MSE LYS TYR ASP SEQRES 33 A 509 SER SER LYS PRO VAL GLY GLN ARG VAL ILE THR LEU THR SEQRES 34 A 509 LEU ASN GLY LYS PRO ILE GLU ASP ALA THR VAL TYR HIS SEQRES 35 A 509 ILE ALA THR GLN SER PHE LEU ALA ASP GLY GLY ASP GLY SEQRES 36 A 509 PHE THR ALA PHE THR GLU GLY LYS ALA ARG ASN ILE THR SEQRES 37 A 509 GLY GLY TYR TYR VAL TYR HIS ALA VAL VAL ASP TYR PHE SEQRES 38 A 509 LYS ALA GLY ASN THR ILE THR ASP GLU GLN LEU ASN GLY SEQRES 39 A 509 MSE ARG VAL LYS ASP ILE LYS GLU GLY HIS HIS HIS HIS SEQRES 40 A 509 HIS HIS MODRES 3IVE MSE A 99 MET SELENOMETHIONINE MODRES 3IVE MSE A 102 MET SELENOMETHIONINE MODRES 3IVE MSE A 222 MET SELENOMETHIONINE MODRES 3IVE MSE A 385 MET SELENOMETHIONINE MODRES 3IVE MSE A 401 MET SELENOMETHIONINE MODRES 3IVE MSE A 412 MET SELENOMETHIONINE MODRES 3IVE MSE A 431 MET SELENOMETHIONINE MODRES 3IVE MSE A 513 MET SELENOMETHIONINE HET MSE A 99 8 HET MSE A 102 8 HET MSE A 222 8 HET MSE A 385 8 HET MSE A 401 8 HET MSE A 412 8 HET MSE A 431 8 HET MSE A 513 8 HET MN A 601 1 HET FE A 602 1 HET CTN A 603 17 HET SO4 A 604 5 HET CL A 605 1 HETNAM MSE SELENOMETHIONINE HETNAM MN MANGANESE (II) ION HETNAM FE FE (III) ION HETNAM CTN 4-AMINO-1-BETA-D-RIBOFURANOSYL-2(1H)-PYRIMIDINONE HETNAM SO4 SULFATE ION HETNAM CL CHLORIDE ION HETSYN CTN CYTIDINE FORMUL 1 MSE 8(C5 H11 N O2 SE) FORMUL 2 MN MN 2+ FORMUL 3 FE FE 3+ FORMUL 4 CTN C9 H13 N3 O5 FORMUL 5 SO4 O4 S 2- FORMUL 6 CL CL 1- FORMUL 7 HOH *357(H2 O) HELIX 1 1 ILE A 45 LYS A 49 5 5 HELIX 2 2 GLY A 54 ASN A 69 1 16 HELIX 3 3 PRO A 84 LEU A 89 1 6 HELIX 4 4 GLY A 92 ASN A 100 1 9 HELIX 5 5 GLY A 110 ASP A 115 5 6 HELIX 6 6 GLY A 117 SER A 126 1 10 HELIX 7 7 GLY A 168 VAL A 176 1 9 HELIX 8 8 SER A 177 ARG A 181 5 5 HELIX 9 9 ASP A 188 LYS A 201 1 14 HELIX 10 10 LEU A 231 VAL A 241 1 11 HELIX 11 11 TYR A 302 TRP A 306 5 5 HELIX 12 12 ASP A 309 GLN A 328 1 20 HELIX 13 13 ALA A 346 GLY A 361 1 16 HELIX 14 14 GLY A 372 ILE A 374 5 3 HELIX 15 15 MSE A 385 PHE A 392 1 8 HELIX 16 16 GLY A 405 SER A 417 1 13 HELIX 17 17 SER A 465 ASP A 469 1 5 HELIX 18 18 GLY A 470 GLY A 480 5 11 HELIX 19 19 VAL A 491 ALA A 501 1 11 HELIX 20 20 THR A 506 GLY A 512 1 7 SHEET 1 A 5 ALA A 106 VAL A 107 0 SHEET 2 A 5 THR A 72 ASP A 76 1 N ASP A 76 O ALA A 106 SHEET 3 A 5 LYS A 23 THR A 30 1 N ILE A 28 O TRP A 73 SHEET 4 A 5 ASP A 276 TYR A 284 -1 O LEU A 282 N VAL A 25 SHEET 5 A 5 PHE A 291 THR A 300 -1 O THR A 292 N ASP A 283 SHEET 1 B 2 ILE A 137 TYR A 139 0 SHEET 2 B 2 ILE A 184 ALA A 186 -1 O GLU A 185 N PHE A 138 SHEET 1 C 6 TYR A 151 LYS A 156 0 SHEET 2 C 6 VAL A 159 HIS A 167 -1 O VAL A 163 N THR A 152 SHEET 3 C 6 LEU A 206 HIS A 212 1 O VAL A 208 N GLY A 162 SHEET 4 C 6 ILE A 246 GLY A 250 1 O ILE A 248 N ALA A 209 SHEET 5 C 6 THR A 265 LEU A 268 1 O LEU A 266 N LEU A 247 SHEET 6 C 6 ILE A 260 VAL A 262 -1 N ILE A 260 O ILE A 267 SHEET 1 D 2 THR A 330 SER A 334 0 SHEET 2 D 2 GLY A 381 THR A 384 -1 O ILE A 383 N VAL A 331 SHEET 1 E 5 LEU A 423 VAL A 425 0 SHEET 2 E 5 LEU A 366 ASN A 370 -1 N THR A 369 O GLN A 424 SHEET 3 E 5 VAL A 458 GLN A 464 1 O ALA A 462 N LEU A 368 SHEET 4 E 5 GLU A 397 THR A 404 -1 N LEU A 403 O TYR A 459 SHEET 5 E 5 LYS A 481 TYR A 490 -1 O THR A 486 N LEU A 398 SHEET 1 F 4 LYS A 451 PRO A 452 0 SHEET 2 F 4 VAL A 443 LEU A 448 -1 N LEU A 448 O LYS A 451 SHEET 3 F 4 LEU A 429 TYR A 433 -1 N LYS A 432 O ILE A 444 SHEET 4 F 4 VAL A 515 ASP A 517 1 O LYS A 516 N TYR A 433 LINK C ILE A 98 N MSE A 99 1555 1555 1.34 LINK C MSE A 99 N ASN A 100 1555 1555 1.34 LINK C THR A 101 N MSE A 102 1555 1555 1.33 LINK C MSE A 102 N PRO A 103 1555 1555 1.34 LINK C SER A 221 N MSE A 222 1555 1555 1.33 LINK C THR A 384 N MSE A 385 1555 1555 1.33 LINK C MSE A 385 N GLY A 386 1555 1555 1.32 LINK C THR A 400 N MSE A 401 1555 1555 1.32 LINK C MSE A 401 N GLU A 402 1555 1555 1.34 LINK C LEU A 411 N MSE A 412 1555 1555 1.34 LINK C MSE A 412 N GLU A 413 1555 1555 1.34 LINK C GLU A 430 N MSE A 431 1555 1555 1.32 LINK C MSE A 431 N LYS A 432 1555 1555 1.33 LINK C GLY A 512 N MSE A 513 1555 1555 1.33 LINK C MSE A 513 N ARG A 514 1555 1555 1.33 LINK OD1 ASP A 32 MN MN A 601 1555 1555 2.19 LINK OD2 ASP A 79 MN MN A 601 1555 1555 2.35 LINK OD2 ASP A 79 FE FE A 602 1555 1555 2.15 LINK OD1 ASN A 111 FE FE A 602 1555 1555 2.13 LINK NE2 HIS A 212 FE FE A 602 1555 1555 2.24 LINK ND1 HIS A 251 FE FE A 602 1555 1555 2.22 LINK MN MN A 601 S SO4 A 604 1555 1555 2.70 LINK MN MN A 601 O4 SO4 A 604 1555 1555 2.15 LINK MN MN A 601 O3 SO4 A 604 1555 1555 2.09 LINK FE FE A 602 O2 SO4 A 604 1555 1555 2.08 LINK FE FE A 602 O4 SO4 A 604 1555 1555 2.51 SITE 1 AC1 6 ASP A 32 HIS A 34 ASP A 79 HIS A 253 SITE 2 AC1 6 FE A 602 SO4 A 604 SITE 1 AC2 6 ASP A 79 ASN A 111 HIS A 212 HIS A 251 SITE 2 AC2 6 MN A 601 SO4 A 604 SITE 1 AC3 15 HIS A 112 THR A 175 SER A 177 ASN A 370 SITE 2 AC3 15 GLY A 372 GLY A 373 ARG A 375 PHE A 394 SITE 3 AC3 15 ASN A 396 PHE A 466 ASP A 472 HOH A 566 SITE 4 AC3 15 SO4 A 604 HOH A 606 HOH A 618 SITE 1 AC4 14 ASP A 32 HIS A 34 ASP A 79 ASN A 111 SITE 2 AC4 14 HIS A 112 PRO A 216 ALA A 217 HIS A 251 SITE 3 AC4 14 HIS A 253 ARG A 375 HOH A 589 MN A 601 SITE 4 AC4 14 FE A 602 CTN A 603 SITE 1 AC5 3 GLY A 168 ALA A 171 GLY A 214 CRYST1 156.261 77.453 47.518 90.00 103.83 90.00 C 1 2 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 0.006400 0.000000 0.001576 0.00000 SCALE2 0.000000 0.012911 0.000000 0.00000 SCALE3 0.000000 0.000000 0.021673 0.00000