HEADER HYDROLASE/DNA 23-APR-13 4KB0 TITLE CRYSTAL STRUCTURE OF RNASE T IN COMPLEX WITH A BLUGE DNA (TWO TITLE 2 NUCLEOTIDE INSERTION CC ) COMPND MOL_ID: 1; COMPND 2 MOLECULE: RIBONUCLEASE T; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: RNASE T; COMPND 5 SYNONYM: EXORIBONUCLEASE T, RNASE T; COMPND 6 EC: 3.1.13.-; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES; COMPND 9 MOL_ID: 2; COMPND 10 MOLECULE: DNA (5'- COMPND 11 D(*GP*GP*CP*CP*CP*TP*CP*TP*TP*TP*AP*GP*GP*GP*CP*CP*CP*C)-3'); COMPND 12 CHAIN: C, D; COMPND 13 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 83333; SOURCE 4 STRAIN: K-12; SOURCE 5 GENE: B1652, JW1644, RNT; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21-CODONPLUS(DE3)-RIPL STRAIN; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET-28A; SOURCE 11 MOL_ID: 2; SOURCE 12 SYNTHETIC: YES KEYWDS DNAQ, DEDD, EXONUCLEASE, DNA REPAIR, HYDROLASE-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR Y.-Y.HSIAO,H.S.YUAN REVDAT 3 20-SEP-23 4KB0 1 REMARK SEQADV LINK REVDAT 2 28-MAY-14 4KB0 1 JRNL REVDAT 1 05-MAR-14 4KB0 0 JRNL AUTH Y.Y.HSIAO,W.H.FANG,C.C.LEE,Y.P.CHEN,H.S.YUAN JRNL TITL STRUCTURAL INSIGHTS INTO DNA REPAIR BY RNASE T--AN JRNL TITL 2 EXONUCLEASE PROCESSING 3' END OF STRUCTURED DNA IN REPAIR JRNL TITL 3 PATHWAYS. JRNL REF PLOS BIOL. V. 12 01803 2014 JRNL REFN ISSN 1544-9173 JRNL PMID 24594808 JRNL DOI 10.1371/JOURNAL.PBIO.1001803 REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.8.1_1168) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.80 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 96.3 REMARK 3 NUMBER OF REFLECTIONS : 44562 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.190 REMARK 3 R VALUE (WORKING SET) : 0.189 REMARK 3 FREE R VALUE : 0.211 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 7.780 REMARK 3 FREE R VALUE TEST SET COUNT : 3468 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 29.8027 - 5.8447 0.99 1748 136 0.1857 0.1816 REMARK 3 2 5.8447 - 4.6448 0.99 1694 166 0.1687 0.1951 REMARK 3 3 4.6448 - 4.0593 0.99 1694 158 0.1474 0.1507 REMARK 3 4 4.0593 - 3.6889 0.99 1718 125 0.1603 0.1699 REMARK 3 5 3.6889 - 3.4249 0.99 1680 149 0.1584 0.1691 REMARK 3 6 3.4249 - 3.2232 0.99 1692 147 0.1786 0.2066 REMARK 3 7 3.2232 - 3.0620 0.99 1677 147 0.1851 0.1928 REMARK 3 8 3.0620 - 2.9288 0.98 1694 147 0.1867 0.2186 REMARK 3 9 2.9288 - 2.8161 0.98 1645 148 0.1853 0.2139 REMARK 3 10 2.8161 - 2.7190 0.98 1694 144 0.1903 0.1957 REMARK 3 11 2.7190 - 2.6341 0.98 1647 145 0.2031 0.2575 REMARK 3 12 2.6341 - 2.5588 0.97 1655 139 0.1973 0.2229 REMARK 3 13 2.5588 - 2.4915 0.98 1700 130 0.1864 0.2140 REMARK 3 14 2.4915 - 2.4307 0.97 1661 129 0.1978 0.2467 REMARK 3 15 2.4307 - 2.3755 0.97 1661 143 0.2062 0.2466 REMARK 3 16 2.3755 - 2.3250 0.96 1637 124 0.1998 0.2667 REMARK 3 17 2.3250 - 2.2785 0.97 1642 141 0.2093 0.2675 REMARK 3 18 2.2785 - 2.2355 0.95 1613 131 0.2226 0.2328 REMARK 3 19 2.2355 - 2.1956 0.95 1628 142 0.2215 0.2533 REMARK 3 20 2.1956 - 2.1584 0.95 1571 126 0.2367 0.2824 REMARK 3 21 2.1584 - 2.1236 0.93 1639 132 0.2452 0.3006 REMARK 3 22 2.1236 - 2.0909 0.92 1536 139 0.2516 0.3035 REMARK 3 23 2.0909 - 2.0602 0.91 1542 147 0.2769 0.2830 REMARK 3 24 2.0602 - 2.0311 0.91 1528 125 0.2711 0.3323 REMARK 3 25 2.0311 - 2.0037 0.87 1498 108 0.2804 0.3203 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.220 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 21.710 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.002 4042 REMARK 3 ANGLE : 0.687 5630 REMARK 3 CHIRALITY : 0.046 628 REMARK 3 PLANARITY : 0.002 614 REMARK 3 DIHEDRAL : 18.478 1496 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 4KB0 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 25-APR-13. REMARK 100 THE DEPOSITION ID IS D_1000079113. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 03-JUN-11 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SPRING-8 REMARK 200 BEAMLINE : BL44XU REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9 REMARK 200 MONOCHROMATOR : SAGITALLY FOCUSED SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RAYONIX MX225HE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 44590 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.4 REMARK 200 DATA REDUNDANCY : 4.000 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.08600 REMARK 200 FOR THE DATA SET : 19.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.07 REMARK 200 COMPLETENESS FOR SHELL (%) : 91.0 REMARK 200 DATA REDUNDANCY IN SHELL : 3.20 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.46800 REMARK 200 FOR SHELL : 2.360 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: 3NGY REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 56.13 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.80 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 6% V/V TACSIMATE PH 6.0, 0.1 M MES REMARK 280 MONOHYDRATE PH 6.0, 25% W/V POLYETHYLENE GLYCOL 4000 , VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 293K 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 40.97200 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 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1450 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 12730 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -28.0 KCAL/MOL 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: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1470 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 12630 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -28.0 KCAL/MOL 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 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 -19 REMARK 465 GLY A -18 REMARK 465 SER A -17 REMARK 465 SER A -16 REMARK 465 HIS A -15 REMARK 465 HIS A -14 REMARK 465 HIS A -13 REMARK 465 HIS A -12 REMARK 465 HIS A -11 REMARK 465 HIS A -10 REMARK 465 SER A -9 REMARK 465 SER A -8 REMARK 465 GLY A -7 REMARK 465 LEU A -6 REMARK 465 VAL A -5 REMARK 465 PRO A -4 REMARK 465 ARG A -3 REMARK 465 GLY A -2 REMARK 465 SER A -1 REMARK 465 HIS A 0 REMARK 465 MET A 1 REMARK 465 SER A 2 REMARK 465 ASP A 3 REMARK 465 ASN A 4 REMARK 465 ALA A 5 REMARK 465 GLN A 6 REMARK 465 GLU A 214 REMARK 465 VAL A 215 REMARK 465 MET B -19 REMARK 465 GLY B -18 REMARK 465 SER B -17 REMARK 465 SER B -16 REMARK 465 HIS B -15 REMARK 465 HIS B -14 REMARK 465 HIS B -13 REMARK 465 HIS B -12 REMARK 465 HIS B -11 REMARK 465 HIS B -10 REMARK 465 SER B -9 REMARK 465 SER B -8 REMARK 465 GLY B -7 REMARK 465 LEU B -6 REMARK 465 VAL B -5 REMARK 465 PRO B -4 REMARK 465 ARG B -3 REMARK 465 GLY B -2 REMARK 465 SER B -1 REMARK 465 HIS B 0 REMARK 465 MET B 1 REMARK 465 SER B 2 REMARK 465 ASP B 3 REMARK 465 ASN B 4 REMARK 465 ALA B 5 REMARK 465 GLN B 6 REMARK 465 LEU B 7 REMARK 465 ALA B 212 REMARK 465 GLU B 213 REMARK 465 GLU B 214 REMARK 465 VAL B 215 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 557 O HOH B 558 1.91 REMARK 500 O HOH C 214 O HOH C 218 1.98 REMARK 500 O HOH A 523 O HOH A 530 2.01 REMARK 500 O HOH B 519 O HOH B 559 2.06 REMARK 500 O HOH A 587 O HOH A 598 2.08 REMARK 500 O HOH A 551 O HOH A 559 2.08 REMARK 500 O HOH B 521 O HOH B 559 2.12 REMARK 500 O HOH B 507 O HOH D 215 2.14 REMARK 500 ND2 ASN B 123 O HOH B 443 2.16 REMARK 500 NE ARG B 87 O HOH B 512 2.16 REMARK 500 O HOH B 500 O HOH B 502 2.16 REMARK 500 O HOH A 463 O HOH A 590 2.18 REMARK 500 O HOH A 604 O HOH B 561 2.19 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 DT C 8 O4' - C1' - N1 ANGL. DEV. = 1.8 DEGREES REMARK 500 DG C 12 O4' - C1' - N9 ANGL. DEV. = 2.3 DEGREES REMARK 500 DC D 7 C3' - C2' - C1' ANGL. DEV. = -5.7 DEGREES REMARK 500 DC D 7 O4' - C1' - N1 ANGL. DEV. = 3.3 DEGREES REMARK 500 DT D 8 O4' - C1' - N1 ANGL. DEV. = 2.1 DEGREES REMARK 500 DT D 10 O4' - C1' - N1 ANGL. DEV. = 4.2 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 ARG A 15 38.72 36.19 REMARK 500 ASP A 55 -86.47 -114.82 REMARK 500 PHE A 146 -14.24 -148.37 REMARK 500 ARG B 15 37.44 36.62 REMARK 500 ASP B 55 -82.39 -114.36 REMARK 500 PHE B 146 -21.31 -145.72 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 A 301 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 23 OD1 REMARK 620 2 GLU A 25 OE1 66.0 REMARK 620 3 ASP A 186 OD2 105.0 112.1 REMARK 620 4 DC C 18 OP1 124.1 118.8 119.3 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG C 101 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 23 OD2 REMARK 620 2 HOH A 401 O 84.4 REMARK 620 3 HOH A 402 O 84.4 76.5 REMARK 620 4 HOH A 529 O 81.0 85.9 158.1 REMARK 620 5 DC C 17 O3' 173.5 101.6 99.2 97.0 REMARK 620 6 DC C 18 OP1 109.6 165.1 109.2 91.1 64.2 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG D 101 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 23 OD1 REMARK 620 2 HOH B 417 O 89.2 REMARK 620 3 HOH B 433 O 82.0 169.8 REMARK 620 4 HOH B 505 O 94.1 78.4 97.1 REMARK 620 5 DC D 17 O3' 158.2 88.4 101.6 106.7 REMARK 620 6 DC D 18 OP1 101.1 97.5 89.2 164.3 57.8 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 301 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B 25 OE1 REMARK 620 2 ASP B 186 OD2 129.8 REMARK 620 3 DC D 18 OP1 120.6 109.0 REMARK 620 N 1 2 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG C 101 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG D 101 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3VA3 RELATED DB: PDB REMARK 900 RELATED ID: 3VA0 RELATED DB: PDB REMARK 900 RELATED ID: 3V9Z RELATED DB: PDB REMARK 900 RELATED ID: 3V9X RELATED DB: PDB REMARK 900 RELATED ID: 3V9W RELATED DB: PDB REMARK 900 RELATED ID: 3NGY RELATED DB: PDB REMARK 900 RELATED ID: 4KB1 RELATED DB: PDB REMARK 900 RELATED ID: 4KAZ RELATED DB: PDB DBREF 4KB0 A 1 215 UNP P30014 RNT_ECOLI 1 215 DBREF 4KB0 B 1 215 UNP P30014 RNT_ECOLI 1 215 DBREF 4KB0 C 1 18 PDB 4KB0 4KB0 1 18 DBREF 4KB0 D 1 18 PDB 4KB0 4KB0 1 18 SEQADV 4KB0 MET A -19 UNP P30014 INITIATING METHIONINE SEQADV 4KB0 GLY A -18 UNP P30014 EXPRESSION TAG SEQADV 4KB0 SER A -17 UNP P30014 EXPRESSION TAG SEQADV 4KB0 SER A -16 UNP P30014 EXPRESSION TAG SEQADV 4KB0 HIS A -15 UNP P30014 EXPRESSION TAG SEQADV 4KB0 HIS A -14 UNP P30014 EXPRESSION TAG SEQADV 4KB0 HIS A -13 UNP P30014 EXPRESSION TAG SEQADV 4KB0 HIS A -12 UNP P30014 EXPRESSION TAG SEQADV 4KB0 HIS A -11 UNP P30014 EXPRESSION TAG SEQADV 4KB0 HIS A -10 UNP P30014 EXPRESSION TAG SEQADV 4KB0 SER A -9 UNP P30014 EXPRESSION TAG SEQADV 4KB0 SER A -8 UNP P30014 EXPRESSION TAG SEQADV 4KB0 GLY A -7 UNP P30014 EXPRESSION TAG SEQADV 4KB0 LEU A -6 UNP P30014 EXPRESSION TAG SEQADV 4KB0 VAL A -5 UNP P30014 EXPRESSION TAG SEQADV 4KB0 PRO A -4 UNP P30014 EXPRESSION TAG SEQADV 4KB0 ARG A -3 UNP P30014 EXPRESSION TAG SEQADV 4KB0 GLY A -2 UNP P30014 EXPRESSION TAG SEQADV 4KB0 SER A -1 UNP P30014 EXPRESSION TAG SEQADV 4KB0 HIS A 0 UNP P30014 EXPRESSION TAG SEQADV 4KB0 MET B -19 UNP P30014 INITIATING METHIONINE SEQADV 4KB0 GLY B -18 UNP P30014 EXPRESSION TAG SEQADV 4KB0 SER B -17 UNP P30014 EXPRESSION TAG SEQADV 4KB0 SER B -16 UNP P30014 EXPRESSION TAG SEQADV 4KB0 HIS B -15 UNP P30014 EXPRESSION TAG SEQADV 4KB0 HIS B -14 UNP P30014 EXPRESSION TAG SEQADV 4KB0 HIS B -13 UNP P30014 EXPRESSION TAG SEQADV 4KB0 HIS B -12 UNP P30014 EXPRESSION TAG SEQADV 4KB0 HIS B -11 UNP P30014 EXPRESSION TAG SEQADV 4KB0 HIS B -10 UNP P30014 EXPRESSION TAG SEQADV 4KB0 SER B -9 UNP P30014 EXPRESSION TAG SEQADV 4KB0 SER B -8 UNP P30014 EXPRESSION TAG SEQADV 4KB0 GLY B -7 UNP P30014 EXPRESSION TAG SEQADV 4KB0 LEU B -6 UNP P30014 EXPRESSION TAG SEQADV 4KB0 VAL B -5 UNP P30014 EXPRESSION TAG SEQADV 4KB0 PRO B -4 UNP P30014 EXPRESSION TAG SEQADV 4KB0 ARG B -3 UNP P30014 EXPRESSION TAG SEQADV 4KB0 GLY B -2 UNP P30014 EXPRESSION TAG SEQADV 4KB0 SER B -1 UNP P30014 EXPRESSION TAG SEQADV 4KB0 HIS B 0 UNP P30014 EXPRESSION TAG SEQRES 1 A 235 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 235 LEU VAL PRO ARG GLY SER HIS MET SER ASP ASN ALA GLN SEQRES 3 A 235 LEU THR GLY LEU CYS ASP ARG PHE ARG GLY PHE TYR PRO SEQRES 4 A 235 VAL VAL ILE ASP VAL GLU THR ALA GLY PHE ASN ALA LYS SEQRES 5 A 235 THR ASP ALA LEU LEU GLU ILE ALA ALA ILE THR LEU LYS SEQRES 6 A 235 MET ASP GLU GLN GLY TRP LEU MET PRO ASP THR THR LEU SEQRES 7 A 235 HIS PHE HIS VAL GLU PRO PHE VAL GLY ALA ASN LEU GLN SEQRES 8 A 235 PRO GLU ALA LEU ALA PHE ASN GLY ILE ASP PRO ASN ASP SEQRES 9 A 235 PRO ASP ARG GLY ALA VAL SER GLU TYR GLU ALA LEU HIS SEQRES 10 A 235 GLU ILE PHE LYS VAL VAL ARG LYS GLY ILE LYS ALA SER SEQRES 11 A 235 GLY CYS ASN ARG ALA ILE MET VAL ALA HIS ASN ALA ASN SEQRES 12 A 235 PHE ASP HIS SER PHE MET MET ALA ALA ALA GLU ARG ALA SEQRES 13 A 235 SER LEU LYS ARG ASN PRO PHE HIS PRO PHE ALA THR PHE SEQRES 14 A 235 ASP THR ALA ALA LEU ALA GLY LEU ALA LEU GLY GLN THR SEQRES 15 A 235 VAL LEU SER LYS ALA CYS GLN THR ALA GLY MET ASP PHE SEQRES 16 A 235 ASP SER THR GLN ALA HIS SER ALA LEU TYR ASP THR GLU SEQRES 17 A 235 ARG THR ALA VAL LEU PHE CYS GLU ILE VAL ASN ARG TRP SEQRES 18 A 235 LYS ARG LEU GLY GLY TRP PRO LEU SER ALA ALA GLU GLU SEQRES 19 A 235 VAL SEQRES 1 B 235 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 B 235 LEU VAL PRO ARG GLY SER HIS MET SER ASP ASN ALA GLN SEQRES 3 B 235 LEU THR GLY LEU CYS ASP ARG PHE ARG GLY PHE TYR PRO SEQRES 4 B 235 VAL VAL ILE ASP VAL GLU THR ALA GLY PHE ASN ALA LYS SEQRES 5 B 235 THR ASP ALA LEU LEU GLU ILE ALA ALA ILE THR LEU LYS SEQRES 6 B 235 MET ASP GLU GLN GLY TRP LEU MET PRO ASP THR THR LEU SEQRES 7 B 235 HIS PHE HIS VAL GLU PRO PHE VAL GLY ALA ASN LEU GLN SEQRES 8 B 235 PRO GLU ALA LEU ALA PHE ASN GLY ILE ASP PRO ASN ASP SEQRES 9 B 235 PRO ASP ARG GLY ALA VAL SER GLU TYR GLU ALA LEU HIS SEQRES 10 B 235 GLU ILE PHE LYS VAL VAL ARG LYS GLY ILE LYS ALA SER SEQRES 11 B 235 GLY CYS ASN ARG ALA ILE MET VAL ALA HIS ASN ALA ASN SEQRES 12 B 235 PHE ASP HIS SER PHE MET MET ALA ALA ALA GLU ARG ALA SEQRES 13 B 235 SER LEU LYS ARG ASN PRO PHE HIS PRO PHE ALA THR PHE SEQRES 14 B 235 ASP THR ALA ALA LEU ALA GLY LEU ALA LEU GLY GLN THR SEQRES 15 B 235 VAL LEU SER LYS ALA CYS GLN THR ALA GLY MET ASP PHE SEQRES 16 B 235 ASP SER THR GLN ALA HIS SER ALA LEU TYR ASP THR GLU SEQRES 17 B 235 ARG THR ALA VAL LEU PHE CYS GLU ILE VAL ASN ARG TRP SEQRES 18 B 235 LYS ARG LEU GLY GLY TRP PRO LEU SER ALA ALA GLU GLU SEQRES 19 B 235 VAL SEQRES 1 C 18 DG DG DC DC DC DT DC DT DT DT DA DG DG SEQRES 2 C 18 DG DC DC DC DC SEQRES 1 D 18 DG DG DC DC DC DT DC DT DT DT DA DG DG SEQRES 2 D 18 DG DC DC DC DC HET MG A 301 1 HET MG B 301 1 HET MG C 101 1 HET MG D 101 1 HETNAM MG MAGNESIUM ION FORMUL 5 MG 4(MG 2+) FORMUL 9 HOH *423(H2 O) HELIX 1 1 GLY A 9 ARG A 13 5 5 HELIX 2 2 GLN A 71 GLY A 79 1 9 HELIX 3 3 SER A 91 GLY A 111 1 21 HELIX 4 4 ALA A 122 ALA A 136 1 15 HELIX 5 5 THR A 151 GLY A 160 1 10 HELIX 6 6 VAL A 163 ALA A 171 1 9 HELIX 7 7 SER A 182 LEU A 204 1 23 HELIX 8 8 PRO A 208 GLU A 213 1 6 HELIX 9 9 GLY B 9 PHE B 14 1 6 HELIX 10 10 GLN B 71 GLY B 79 1 9 HELIX 11 11 SER B 91 GLY B 111 1 21 HELIX 12 12 ALA B 122 ALA B 136 1 15 HELIX 13 13 THR B 151 LEU B 159 1 9 HELIX 14 14 VAL B 163 ALA B 171 1 9 HELIX 15 15 SER B 182 LEU B 204 1 23 SHEET 1 A 5 LEU A 52 HIS A 61 0 SHEET 2 A 5 LEU A 36 MET A 46 -1 N THR A 43 O ASP A 55 SHEET 3 A 5 PHE A 17 THR A 26 -1 N VAL A 21 O ILE A 42 SHEET 4 A 5 ARG A 114 ALA A 119 1 O ARG A 114 N TYR A 18 SHEET 5 A 5 PHE A 143 ASP A 150 1 O PHE A 149 N MET A 117 SHEET 1 B 6 ALA B 89 VAL B 90 0 SHEET 2 B 6 LEU B 52 VAL B 62 1 N HIS B 61 O VAL B 90 SHEET 3 B 6 LEU B 36 MET B 46 -1 N ALA B 41 O LEU B 58 SHEET 4 B 6 PHE B 17 THR B 26 -1 N VAL B 21 O ILE B 42 SHEET 5 B 6 ARG B 114 ALA B 119 1 O ARG B 114 N TYR B 18 SHEET 6 B 6 PHE B 143 ASP B 150 1 O PHE B 149 N MET B 117 LINK OD1 ASP A 23 MG MG A 301 1555 1555 2.93 LINK OD2 ASP A 23 MG MG C 101 1555 1555 2.39 LINK OE1 GLU A 25 MG MG A 301 1555 1555 2.31 LINK OD2 ASP A 186 MG MG A 301 1555 1555 2.19 LINK MG MG A 301 OP1 DC C 18 1555 1555 2.11 LINK O HOH A 401 MG MG C 101 1555 1555 2.66 LINK O HOH A 402 MG MG C 101 1555 1555 2.37 LINK O HOH A 529 MG MG C 101 1555 1555 2.43 LINK OD1 ASP B 23 MG MG D 101 1555 1555 2.39 LINK OE1 GLU B 25 MG MG B 301 1555 1555 2.17 LINK OD2 ASP B 186 MG MG B 301 1555 1555 2.25 LINK MG MG B 301 OP1 DC D 18 1555 1555 2.04 LINK O HOH B 417 MG MG D 101 1555 1555 2.11 LINK O HOH B 433 MG MG D 101 1555 1555 2.41 LINK O HOH B 505 MG MG D 101 1555 1555 2.47 LINK O3' DC C 17 MG MG C 101 1555 1555 2.29 LINK OP1 DC C 18 MG MG C 101 1555 1555 2.40 LINK O3' DC D 17 MG MG D 101 1555 1555 2.38 LINK OP1 DC D 18 MG MG D 101 1555 1555 2.73 CISPEP 1 LEU A 7 THR A 8 0 -8.71 CISPEP 2 TRP A 207 PRO A 208 0 1.05 CISPEP 3 TRP B 207 PRO B 208 0 0.10 CISPEP 4 SER B 210 ALA B 211 0 -0.17 SITE 1 AC1 5 ASP A 23 GLU A 25 ASP A 186 DC C 18 SITE 2 AC1 5 MG C 101 SITE 1 AC2 6 ASP B 23 GLU B 25 HIS B 181 ASP B 186 SITE 2 AC2 6 DC D 18 MG D 101 SITE 1 AC3 7 ASP A 23 MG A 301 HOH A 401 HOH A 402 SITE 2 AC3 7 HOH A 529 DC C 17 DC C 18 SITE 1 AC4 7 ASP B 23 MG B 301 HOH B 417 HOH B 433 SITE 2 AC4 7 HOH B 505 DC D 17 DC D 18 CRYST1 60.257 81.944 73.444 90.00 105.46 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 0.016596 0.000000 0.004591 0.00000 SCALE2 0.000000 0.012203 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014127 0.00000