PDB Short entry for 3V9Z HEADER HYDROLASE/DNA 28-DEC-11 3V9Z TITLE CRYSTAL STRUCTURE OF RNASE T IN COMPLEX WITH A PRODUCT SSDNA (ACC) TITLE 2 WITH ONE MG IN THE ACTIVE SITE COMPND MOL_ID: 1; COMPND 2 MOLECULE: RIBONUCLEASE T; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: EXORIBONUCLEASE T, RNASE T; COMPND 5 EC: 3.1.13.-; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: DNA (5'-D(*TP*TP*AP*CP*AP*CP*C)-3'); COMPND 9 CHAIN: C, D; COMPND 10 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 83333; SOURCE 4 STRAIN: K12; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21-CODONPLUS(DE3)-RIPL; SOURCE 8 MOL_ID: 2; SOURCE 9 SYNTHETIC: YES; SOURCE 10 OTHER_DETAILS: SYNTHETIC CONSTRUCT KEYWDS DEDD NUCLEASES FAMILY, EXO-NUCLEASE, HYDROLASE-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR Y.-Y.HSIAO,H.S.YUAN REVDAT 3 08-NOV-23 3V9Z 1 REMARK SEQADV LINK REVDAT 2 26-JUN-13 3V9Z 1 JRNL REVDAT 1 11-JUL-12 3V9Z 0 JRNL AUTH Y.-Y.HSIAO,Y.DUH,Y.P.CHEN,Y.T.WANG,H.S.YUAN JRNL TITL HOW AN EXONUCLEASE DECIDES WHERE TO STOP IN TRIMMING OF JRNL TITL 2 NUCLEIC ACIDS: CRYSTAL STRUCTURES OF RNASE T-PRODUCT JRNL TITL 3 COMPLEXES JRNL REF NUCLEIC ACIDS RES. V. 40 8144 2012 JRNL REFN ISSN 0305-1048 JRNL PMID 22718982 JRNL DOI 10.1093/NAR/GKS548 REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.7.1_743) 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) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 28.52 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.330 REMARK 3 COMPLETENESS FOR RANGE (%) : 96.0 REMARK 3 NUMBER OF REFLECTIONS : 43648 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.213 REMARK 3 R VALUE (WORKING SET) : 0.211 REMARK 3 FREE R VALUE : 0.248 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.040 REMARK 3 FREE R VALUE TEST SET COUNT : 2201 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 28.5187 - 4.5301 0.96 2777 158 0.2111 0.2050 REMARK 3 2 4.5301 - 3.5979 0.96 2634 143 0.1792 0.2280 REMARK 3 3 3.5979 - 3.1438 0.98 2693 132 0.1944 0.2335 REMARK 3 4 3.1438 - 2.8566 0.99 2703 153 0.2065 0.2203 REMARK 3 5 2.8566 - 2.6520 0.99 2674 141 0.2149 0.2419 REMARK 3 6 2.6520 - 2.4958 0.99 2700 126 0.2150 0.2838 REMARK 3 7 2.4958 - 2.3708 1.00 2673 144 0.1927 0.2392 REMARK 3 8 2.3708 - 2.2677 0.95 2538 152 0.2056 0.2363 REMARK 3 9 2.2677 - 2.1804 0.83 2206 130 0.2542 0.3051 REMARK 3 10 2.1804 - 2.1052 1.00 2659 137 0.1982 0.2355 REMARK 3 11 2.1052 - 2.0394 1.00 2642 146 0.1889 0.2402 REMARK 3 12 2.0394 - 1.9811 1.00 2678 144 0.1873 0.2106 REMARK 3 13 1.9811 - 1.9290 0.95 2545 113 0.2303 0.3127 REMARK 3 14 1.9290 - 1.8819 0.77 2020 101 0.3680 0.4615 REMARK 3 15 1.8819 - 1.8391 1.00 2652 147 0.2377 0.2801 REMARK 3 16 1.8391 - 1.8000 1.00 2653 134 0.2417 0.3105 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.20 REMARK 3 SHRINKAGE RADIUS : 0.95 REMARK 3 K_SOL : 0.36 REMARK 3 B_SOL : 33.64 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.430 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 28.070 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 17.71 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.84960 REMARK 3 B22 (A**2) : -1.83870 REMARK 3 B33 (A**2) : -0.01090 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 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 : 0.006 3424 REMARK 3 ANGLE : 1.000 4666 REMARK 3 CHIRALITY : 0.075 520 REMARK 3 PLANARITY : 0.004 594 REMARK 3 DIHEDRAL : 13.587 1218 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 3V9Z COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 17-JAN-12. REMARK 100 THE DEPOSITION ID IS D_1000069781. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-NOV-10 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4.5 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(III) 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 : 44147 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 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 : 5.400 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.09100 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 31.9200 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.83 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 5.80 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.36200 REMARK 200 <I/SIGMA(I)> FOR SHELL : 8.600 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 (%): 43.09 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.16 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M SODIUM ACETATE TRIHYDRATE, REMARK 280 10%(W/V) POLYETHYLENE GLYCOL 1000, PH 4.5, VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 298K 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 48.21100 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 53.04600 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 48.21100 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 53.04600 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5610 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 18060 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -50.0 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 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 B 533 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 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 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 DT C 1 REMARK 465 DT C 2 REMARK 465 DA C 3 REMARK 465 DC C 4 REMARK 465 DT D 1 REMARK 465 DT D 2 REMARK 465 DA D 3 REMARK 465 DC D 4 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 694 O HOH B 706 1.86 REMARK 500 O HOH B 689 O HOH B 697 1.92 REMARK 500 O HOH B 447 O HOH B 709 1.95 REMARK 500 O HOH B 690 O HOH B 715 1.96 REMARK 500 O HOH A 604 O HOH A 642 1.96 REMARK 500 O HOH D 111 O HOH D 112 1.98 REMARK 500 O HOH B 658 O HOH B 692 1.98 REMARK 500 O HOH B 518 O HOH B 623 1.99 REMARK 500 O HOH B 594 O HOH B 646 2.01 REMARK 500 O HOH A 588 O HOH A 682 2.02 REMARK 500 O HOH A 679 O HOH A 683 2.04 REMARK 500 O HOH A 538 O HOH B 666 2.04 REMARK 500 O HOH A 473 O HOH A 629 2.05 REMARK 500 O HOH B 496 O HOH B 711 2.05 REMARK 500 O HOH A 655 O HOH A 684 2.07 REMARK 500 O HOH B 692 O HOH B 708 2.07 REMARK 500 O HOH A 464 O HOH A 633 2.08 REMARK 500 O HOH A 549 O HOH B 401 2.09 REMARK 500 O HOH B 649 O HOH B 702 2.09 REMARK 500 O HOH A 588 O HOH A 595 2.09 REMARK 500 O HOH D 106 O HOH D 110 2.09 REMARK 500 O HOH B 567 O HOH B 589 2.11 REMARK 500 O HOH B 459 O HOH B 646 2.11 REMARK 500 OE1 GLN A 169 O HOH A 577 2.12 REMARK 500 O HOH A 613 O HOH A 665 2.13 REMARK 500 O HOH B 561 O HOH B 703 2.14 REMARK 500 O HOH B 618 O HOH B 662 2.15 REMARK 500 NE ARG A 114 O HOH A 506 2.18 REMARK 500 O HOH B 656 O HOH B 686 2.19 REMARK 500 SD MET B 130 O HOH B 698 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 666 O HOH B 631 4455 1.95 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 DC C 6 O4' - C1' - N1 ANGL. DEV. = 3.8 DEGREES REMARK 500 DC C 7 O4' - C1' - N1 ANGL. DEV. = 3.0 DEGREES REMARK 500 DC D 6 O4' - C1' - N1 ANGL. DEV. = 4.8 DEGREES REMARK 500 DC D 7 O4' - C1' - N1 ANGL. DEV. = 2.3 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 ASP A 55 -86.20 -115.01 REMARK 500 PHE A 146 -19.05 -143.81 REMARK 500 ASP B 55 -87.29 -115.80 REMARK 500 PHE B 146 -22.89 -143.55 REMARK 500 GLU B 214 77.28 -117.05 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 HOH A 415 O 82.0 REMARK 620 3 HOH A 425 O 75.0 75.1 REMARK 620 4 HOH A 434 O 92.6 88.2 160.3 REMARK 620 5 DC C 6 O3' 159.6 102.1 86.6 107.5 REMARK 620 N 1 2 3 4 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 ASP B 23 OD1 REMARK 620 2 HOH B 419 O 80.2 REMARK 620 3 HOH B 430 O 78.5 79.4 REMARK 620 4 HOH B 465 O 91.2 81.4 159.5 REMARK 620 5 DC D 6 O3' 166.4 104.3 89.6 102.0 REMARK 620 N 1 2 3 4 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 CO A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 301 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3NGY RELATED DB: PDB REMARK 900 RELATED ID: 3NGZ RELATED DB: PDB REMARK 900 RELATED ID: 3NH0 RELATED DB: PDB REMARK 900 RELATED ID: 3NH1 RELATED DB: PDB REMARK 900 RELATED ID: 3NH2 RELATED DB: PDB REMARK 900 RELATED ID: 3V9S RELATED DB: PDB REMARK 900 RELATED ID: 3V9U RELATED DB: PDB REMARK 900 RELATED ID: 3V9W RELATED DB: PDB REMARK 900 RELATED ID: 3V9X RELATED DB: PDB REMARK 900 RELATED ID: 3VA0 RELATED DB: PDB REMARK 900 RELATED ID: 3VA3 RELATED DB: PDB DBREF 3V9Z A 1 215 UNP P30014 RNT_ECOLI 1 215 DBREF 3V9Z B 1 215 UNP P30014 RNT_ECOLI 1 215 DBREF 3V9Z C 1 7 PDB 3V9Z 3V9Z 1 7 DBREF 3V9Z D 1 7 PDB 3V9Z 3V9Z 1 7 SEQADV 3V9Z MET A -19 UNP P30014 EXPRESSION TAG SEQADV 3V9Z GLY A -18 UNP P30014 EXPRESSION TAG SEQADV 3V9Z SER A -17 UNP P30014 EXPRESSION TAG SEQADV 3V9Z SER A -16 UNP P30014 EXPRESSION TAG SEQADV 3V9Z HIS A -15 UNP P30014 EXPRESSION TAG SEQADV 3V9Z HIS A -14 UNP P30014 EXPRESSION TAG SEQADV 3V9Z HIS A -13 UNP P30014 EXPRESSION TAG SEQADV 3V9Z HIS A -12 UNP P30014 EXPRESSION TAG SEQADV 3V9Z HIS A -11 UNP P30014 EXPRESSION TAG SEQADV 3V9Z HIS A -10 UNP P30014 EXPRESSION TAG SEQADV 3V9Z SER A -9 UNP P30014 EXPRESSION TAG SEQADV 3V9Z SER A -8 UNP P30014 EXPRESSION TAG SEQADV 3V9Z GLY A -7 UNP P30014 EXPRESSION TAG SEQADV 3V9Z LEU A -6 UNP P30014 EXPRESSION TAG SEQADV 3V9Z VAL A -5 UNP P30014 EXPRESSION TAG SEQADV 3V9Z PRO A -4 UNP P30014 EXPRESSION TAG SEQADV 3V9Z ARG A -3 UNP P30014 EXPRESSION TAG SEQADV 3V9Z GLY A -2 UNP P30014 EXPRESSION TAG SEQADV 3V9Z SER A -1 UNP P30014 EXPRESSION TAG SEQADV 3V9Z HIS A 0 UNP P30014 EXPRESSION TAG SEQADV 3V9Z MET B -19 UNP P30014 EXPRESSION TAG SEQADV 3V9Z GLY B -18 UNP P30014 EXPRESSION TAG SEQADV 3V9Z SER B -17 UNP P30014 EXPRESSION TAG SEQADV 3V9Z SER B -16 UNP P30014 EXPRESSION TAG SEQADV 3V9Z HIS B -15 UNP P30014 EXPRESSION TAG SEQADV 3V9Z HIS B -14 UNP P30014 EXPRESSION TAG SEQADV 3V9Z HIS B -13 UNP P30014 EXPRESSION TAG SEQADV 3V9Z HIS B -12 UNP P30014 EXPRESSION TAG SEQADV 3V9Z HIS B -11 UNP P30014 EXPRESSION TAG SEQADV 3V9Z HIS B -10 UNP P30014 EXPRESSION TAG SEQADV 3V9Z SER B -9 UNP P30014 EXPRESSION TAG SEQADV 3V9Z SER B -8 UNP P30014 EXPRESSION TAG SEQADV 3V9Z GLY B -7 UNP P30014 EXPRESSION TAG SEQADV 3V9Z LEU B -6 UNP P30014 EXPRESSION TAG SEQADV 3V9Z VAL B -5 UNP P30014 EXPRESSION TAG SEQADV 3V9Z PRO B -4 UNP P30014 EXPRESSION TAG SEQADV 3V9Z ARG B -3 UNP P30014 EXPRESSION TAG SEQADV 3V9Z GLY B -2 UNP P30014 EXPRESSION TAG SEQADV 3V9Z SER B -1 UNP P30014 EXPRESSION TAG SEQADV 3V9Z 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 7 DT DT DA DC DA DC DC SEQRES 1 D 7 DT DT DA DC DA DC DC HET MG A 301 1 HET CO A 302 1 HET MG B 301 1 HETNAM MG MAGNESIUM ION HETNAM CO COBALT (II) ION FORMUL 5 MG 2(MG 2+) FORMUL 6 CO CO 2+ FORMUL 8 HOH *632(H2 O) HELIX 1 1 GLY A 9 PHE A 14 1 6 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 ASP A 176 ALA A 180 5 5 HELIX 8 8 SER A 182 LEU A 204 1 23 HELIX 9 9 SER A 210 GLU A 214 5 5 HELIX 10 10 GLY B 9 PHE B 14 1 6 HELIX 11 11 GLN B 71 GLY B 79 1 9 HELIX 12 12 ASP B 84 GLY B 88 5 5 HELIX 13 13 SER B 91 GLY B 111 1 21 HELIX 14 14 ALA B 122 ALA B 136 1 15 HELIX 15 15 THR B 151 GLY B 160 1 10 HELIX 16 16 VAL B 163 ALA B 171 1 9 HELIX 17 17 ASP B 176 ALA B 180 5 5 HELIX 18 18 SER B 182 LEU B 204 1 23 HELIX 19 19 PRO B 208 GLU B 214 5 7 SHEET 1 A 6 ALA A 89 VAL A 90 0 SHEET 2 A 6 LEU A 52 VAL A 62 1 N HIS A 61 O VAL A 90 SHEET 3 A 6 LEU A 36 MET A 46 -1 N THR A 43 O ASP A 55 SHEET 4 A 6 PHE A 17 THR A 26 -1 N GLU A 25 O LEU A 37 SHEET 5 A 6 ARG A 114 ALA A 119 1 O ARG A 114 N TYR A 18 SHEET 6 A 6 PHE A 143 ASP A 150 1 O PHE A 149 N MET A 117 SHEET 1 B 5 LEU B 52 HIS B 61 0 SHEET 2 B 5 LEU B 36 MET B 46 -1 N ALA B 41 O LEU B 58 SHEET 3 B 5 PHE B 17 THR B 26 -1 N GLU B 25 O LEU B 37 SHEET 4 B 5 ARG B 114 ALA B 119 1 O ARG B 114 N TYR B 18 SHEET 5 B 5 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 2.53 LINK MG MG A 301 O HOH A 415 1555 1555 2.54 LINK MG MG A 301 O HOH A 425 1555 1555 2.49 LINK MG MG A 301 O HOH A 434 1555 1555 2.14 LINK MG MG A 301 O3' DC C 6 1555 1555 2.55 LINK OD1 ASP B 23 MG MG B 301 1555 1555 2.49 LINK MG MG B 301 O HOH B 419 1555 1555 2.52 LINK MG MG B 301 O HOH B 430 1555 1555 2.44 LINK MG MG B 301 O HOH B 465 1555 1555 2.45 LINK MG MG B 301 O3' DC D 6 1555 1555 2.60 CISPEP 1 TRP A 207 PRO A 208 0 -4.39 CISPEP 2 TRP B 207 PRO B 208 0 -6.25 SITE 1 AC1 6 ASP A 23 HOH A 415 HOH A 425 HOH A 434 SITE 2 AC1 6 DC C 6 DC C 7 SITE 1 AC2 3 HIS A 61 HOH A 594 HIS B 61 SITE 1 AC3 6 ASP B 23 HOH B 419 HOH B 430 HOH B 465 SITE 2 AC3 6 DC D 6 DC D 7 CRYST1 96.422 106.092 46.952 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 0.010371 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009426 0.000000 0.00000 SCALE3 0.000000 0.000000 0.021298 0.00000