HEADER RNA 28-OCT-24 9E5H TITLE ENV2 COBALAMIN RIBOSWITCH APTAMER DOMAIN IN COMPLEX WITH TITLE 2 CYANOCOBALAMIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: RNA (76-MER); COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 ORGANISM_SCIENTIFIC: MARINE METAGENOME; SOURCE 4 ORGANISM_TAXID: 408172 KEYWDS RIBOSWITCH, APTAMER, VITAMIN B12, COBALAMIN, RNA EXPDTA X-RAY DIFFRACTION AUTHOR L.T.OLENGINSKI,R.T.BATEY REVDAT 1 24-SEP-25 9E5H 0 JRNL AUTH L.T.OLENGINSKI,A.J.WIERZBA,S.P.LAURSEN,R.T.BATEY JRNL TITL DESIGNING SMALL MOLECULES TARGETING A CRYPTIC RNA BINDING JRNL TITL 2 SITE THROUGH BASE DISPLACEMENT. JRNL REF NAT.CHEM.BIOL. 2025 JRNL REFN ESSN 1552-4469 JRNL PMID 40883492 JRNL DOI 10.1038/S41589-025-02018-8 REMARK 2 REMARK 2 RESOLUTION. 2.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.19.2_4158 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) : 2.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.66 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.420 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.9 REMARK 3 NUMBER OF REFLECTIONS : 12560 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.214 REMARK 3 R VALUE (WORKING SET) : 0.208 REMARK 3 FREE R VALUE : 0.278 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 7.920 REMARK 3 FREE R VALUE TEST SET COUNT : 995 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 19.6600 - 5.3300 0.96 1638 142 0.1965 0.2510 REMARK 3 2 5.3200 - 4.2400 0.98 1661 143 0.1845 0.2661 REMARK 3 3 4.2400 - 3.7100 0.99 1657 142 0.2079 0.2611 REMARK 3 4 3.7100 - 3.3700 0.97 1645 142 0.2027 0.2392 REMARK 3 5 3.3700 - 3.1300 0.98 1665 143 0.2076 0.3247 REMARK 3 6 3.1300 - 2.9500 0.99 1659 143 0.2379 0.3220 REMARK 3 7 2.9500 - 2.8000 0.99 1640 140 0.2835 0.3736 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) : 0.380 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 34.830 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 : 0.007 3904 REMARK 3 ANGLE : 1.490 6104 REMARK 3 CHIRALITY : 0.058 766 REMARK 3 PLANARITY : 0.010 156 REMARK 3 DIHEDRAL : 16.241 1904 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 9E5H COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 31-OCT-24. REMARK 100 THE DEPOSITION ID IS D_1000289466. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 24-APR-24 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALS REMARK 200 BEAMLINE : 8.2.2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.09720 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 2M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 25277 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.200 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 95.3 REMARK 200 DATA REDUNDANCY : 3.100 REMARK 200 R MERGE (I) : 0.09800 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 18.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.20 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.28 REMARK 200 COMPLETENESS FOR SHELL (%) : 80.3 REMARK 200 DATA REDUNDANCY IN SHELL : 2.80 REMARK 200 R MERGE FOR SHELL (I) : 0.32100 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.400 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.09 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.68 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 10% (V/V) (+/-)-2-METHYL-2,4 REMARK 280 -PENTANEDIOL, 40 MM SODIUM CACODYLATE TRIHYDRATE (PH 7.0), 12 MM REMARK 280 SPERMINE TETRAHYDROCHLORIDE, 80 MM POTASSIUM CHLORIDE, 20 MM REMARK 280 MAGNESIUM CHLORIDE HEXAHYDRATE. HANGING DROP. 303.15 K., VAPOR REMARK 280 DIFFUSION, HANGING DROP 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 57.24300 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: MONOMERIC 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: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: 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 OP1 U A 48 O HOH A 201 1.98 REMARK 500 OP2 A A 29 O HOH A 202 2.01 REMARK 500 OP1 A B 46 O HOH B 201 2.03 REMARK 500 O1A GTP B 1 O HOH B 202 2.08 REMARK 500 OP1 A B 7 O HOH B 203 2.09 REMARK 500 O HOH A 239 O HOH A 283 2.14 REMARK 500 OP2 A A 10 O HOH A 203 2.15 REMARK 500 OP1 C B 9 O HOH B 204 2.16 REMARK 500 O HOH B 314 O HOH B 324 2.17 REMARK 500 N2 G A 62 O HOH A 204 2.18 REMARK 500 O HOH B 311 O HOH B 321 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 C A 54 C6 - N1 - C2 ANGL. DEV. = -2.8 DEGREES REMARK 500 C A 54 C5 - C6 - N1 ANGL. DEV. = 3.3 DEGREES REMARK 500 C A 54 N1 - C2 - O2 ANGL. DEV. = 5.0 DEGREES REMARK 500 C A 54 C2 - N1 - C1' ANGL. DEV. = 9.6 DEGREES REMARK 500 G A 62 C5 - C6 - O6 ANGL. DEV. = -3.9 DEGREES REMARK 500 A B 6 N7 - C8 - N9 ANGL. DEV. = 3.5 DEGREES REMARK 500 U B 11 N1 - C2 - O2 ANGL. DEV. = 5.2 DEGREES REMARK 500 U B 11 N3 - C2 - O2 ANGL. DEV. = -4.7 DEGREES REMARK 500 U B 11 C2 - N1 - C1' ANGL. DEV. = 8.4 DEGREES REMARK 500 G B 13 O5' - P - OP2 ANGL. DEV. = -9.1 DEGREES REMARK 500 G B 13 C8 - N9 - C4 ANGL. DEV. = -2.4 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 309 DISTANCE = 6.05 ANGSTROMS REMARK 525 HOH A 310 DISTANCE = 6.18 ANGSTROMS REMARK 525 HOH A 311 DISTANCE = 6.22 ANGSTROMS REMARK 525 HOH A 312 DISTANCE = 7.13 ANGSTROMS REMARK 525 HOH B 334 DISTANCE = 6.06 ANGSTROMS REMARK 525 HOH B 335 DISTANCE = 6.15 ANGSTROMS REMARK 525 HOH B 336 DISTANCE = 6.24 ANGSTROMS REMARK 525 HOH B 337 DISTANCE = 6.62 ANGSTROMS REMARK 525 HOH B 338 DISTANCE = 6.69 ANGSTROMS REMARK 525 HOH B 339 DISTANCE = 6.71 ANGSTROMS REMARK 525 HOH B 340 DISTANCE = 6.80 ANGSTROMS REMARK 525 HOH B 341 DISTANCE = 7.57 ANGSTROMS REMARK 525 HOH B 342 DISTANCE = 8.47 ANGSTROMS 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 104 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GTP A 1 O1A REMARK 620 2 HOH A 287 O 96.4 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 111 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 A A 5 OP1 REMARK 620 2 A A 5 O3' 78.5 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 105 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 U A 11 OP1 REMARK 620 2 A A 12 OP2 108.3 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 107 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 G A 21 O6 REMARK 620 2 HOH A 270 O 154.2 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 108 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 U A 32 OP2 REMARK 620 2 HOH A 250 O 72.6 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 110 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 A A 49 OP1 REMARK 620 2 G A 58 OP2 91.6 REMARK 620 3 HOH A 277 O 97.9 170.4 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 K A 113 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 A A 64 O2' REMARK 620 2 HOH A 265 O 76.4 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 106 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 225 O REMARK 620 2 HOH A 236 O 73.6 REMARK 620 3 HOH A 251 O 70.4 76.1 REMARK 620 4 HOH A 255 O 66.7 136.0 73.5 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 112 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 223 O REMARK 620 2 HOH A 235 O 85.6 REMARK 620 3 HOH A 249 O 70.1 63.0 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 104 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GTP B 1 O1A REMARK 620 2 HOH B 202 O 49.8 REMARK 620 3 HOH B 288 O 106.1 119.8 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 105 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 U B 11 OP1 REMARK 620 2 A B 12 OP2 71.5 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 107 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 G B 21 O6 REMARK 620 2 HOH B 245 O 79.0 REMARK 620 3 HOH B 258 O 153.6 75.0 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 108 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 U B 32 OP2 REMARK 620 2 HOH B 228 O 72.5 REMARK 620 3 HOH B 244 O 68.5 140.2 REMARK 620 4 HOH B 301 O 93.1 111.1 78.9 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 110 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 A B 49 OP1 REMARK 620 2 G B 58 OP2 86.2 REMARK 620 3 HOH B 281 O 96.9 162.5 REMARK 620 4 HOH B 284 O 159.1 91.8 79.1 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 106 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH B 275 O REMARK 620 2 HOH B 285 O 61.6 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 109 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH B 254 O REMARK 620 2 HOH B 289 O 79.3 REMARK 620 3 HOH B 311 O 141.1 73.9 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 112 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH B 210 O REMARK 620 2 HOH B 255 O 71.0 REMARK 620 3 HOH B 259 O 86.4 147.7 REMARK 620 4 HOH B 277 O 81.1 88.7 64.6 REMARK 620 N 1 2 3 DBREF 9E5H A 1 76 PDB 9E5H 9E5H 1 76 DBREF 9E5H B 1 76 PDB 9E5H 9E5H 1 76 SEQRES 1 A 76 GTP G U A A A A G C A U A G SEQRES 2 A 76 U G G G A A A G U G A C G SEQRES 3 A 76 U G A A A U U C G U C C A SEQRES 4 A 76 C A C G A A A G U A A G G SEQRES 5 A 76 U C A U A G U C C G A A U SEQRES 6 A 76 G C C A C C U A C C A SEQRES 1 B 76 GTP G U A A A A G C A U A G SEQRES 2 B 76 U G G G A A A G U G A C G SEQRES 3 B 76 U G A A A U U C G U C C A SEQRES 4 B 76 C A C G A A A G U A A G G SEQRES 5 B 76 U C A U A G U C C G A A U SEQRES 6 B 76 G C C A C C U A C C A HET GTP A 1 32 HET GTP B 1 32 HET CNC A 101 93 HET N3D A 102 6 HET TRS A 103 8 HET MG A 104 1 HET MG A 105 1 HET MG A 106 1 HET MG A 107 1 HET MG A 108 1 HET MG A 109 1 HET MG A 110 1 HET MG A 111 1 HET MG A 112 1 HET K A 113 1 HET CNC B 101 93 HET N3D B 102 6 HET TRS B 103 8 HET MG B 104 1 HET MG B 105 1 HET MG B 106 1 HET MG B 107 1 HET MG B 108 1 HET MG B 109 1 HET MG B 110 1 HET MG B 111 1 HET MG B 112 1 HET K B 113 1 HETNAM GTP GUANOSINE-5'-TRIPHOSPHATE HETNAM CNC CYANOCOBALAMIN HETNAM N3D N-METHYLPROPANE-1,3-DIAMINE HETNAM TRS 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL HETNAM MG MAGNESIUM ION HETNAM K POTASSIUM ION HETSYN TRS TRIS BUFFER FORMUL 1 GTP 2(C10 H16 N5 O14 P3) FORMUL 3 CNC 2(C63 H89 CO N14 O14 P 2+) FORMUL 4 N3D 2(C4 H12 N2) FORMUL 5 TRS 2(C4 H12 N O3 1+) FORMUL 6 MG 18(MG 2+) FORMUL 15 K 2(K 1+) FORMUL 29 HOH *254(H2 O) LINK O3' GTP A 1 P G A 2 1555 1555 1.54 LINK O3' GTP B 1 P G B 2 1555 1555 1.55 LINK O1A GTP A 1 MG MG A 104 1555 1555 2.19 LINK OP1 A A 5 MG MG A 111 1555 1555 2.16 LINK O3' A A 5 MG MG A 111 1555 1555 2.89 LINK OP1 U A 11 MG MG A 105 1555 1555 2.44 LINK OP2 A A 12 MG MG A 105 1555 1555 2.26 LINK O6 G A 21 MG MG A 107 1555 1555 2.24 LINK OP2 U A 32 MG MG A 108 1555 1555 2.54 LINK OP1 A A 49 MG MG A 110 1555 1555 2.19 LINK OP2 G A 58 MG MG A 110 1555 1555 2.07 LINK O2' A A 64 K K A 113 1555 1555 3.05 LINK MG MG A 104 O HOH A 287 1555 1555 2.87 LINK MG MG A 106 O HOH A 225 1555 1555 2.39 LINK MG MG A 106 O HOH A 236 1555 1555 2.24 LINK MG MG A 106 O HOH A 251 1555 1555 2.36 LINK MG MG A 106 O HOH A 255 1555 1555 1.98 LINK MG MG A 107 O HOH A 270 1555 1555 2.21 LINK MG MG A 108 O HOH A 250 1555 1555 2.24 LINK MG MG A 109 O HOH A 275 1555 1555 2.19 LINK MG MG A 110 O HOH A 277 1555 1555 2.24 LINK MG MG A 112 O HOH A 223 1555 1555 2.59 LINK MG MG A 112 O HOH A 235 1555 1555 2.45 LINK MG MG A 112 O HOH A 249 1555 1555 2.16 LINK K K A 113 O HOH A 265 1555 1555 2.93 LINK O1A GTP B 1 MG MG B 104 1555 1555 2.64 LINK OP1 A B 5 MG MG B 111 1555 1555 2.48 LINK OP1 U B 11 MG MG B 105 1555 1555 2.45 LINK OP2 A B 12 MG MG B 105 1555 1555 2.70 LINK O6 G B 21 MG MG B 107 1555 1555 2.03 LINK OP2 U B 32 MG MG B 108 1555 1555 2.74 LINK OP1 A B 49 MG MG B 110 1555 1555 2.17 LINK OP2 G B 58 MG MG B 110 1555 1555 1.99 LINK O2' A B 64 K K B 113 1555 1555 2.83 LINK MG MG B 104 O HOH B 202 1555 1555 2.21 LINK MG MG B 104 O HOH B 288 1555 1555 2.37 LINK MG MG B 106 O HOH B 275 1555 1555 2.46 LINK MG MG B 106 O HOH B 285 1555 1555 2.23 LINK MG MG B 107 O HOH B 245 1555 1555 2.22 LINK MG MG B 107 O HOH B 258 1555 1555 2.43 LINK MG MG B 108 O HOH B 228 1555 1555 2.30 LINK MG MG B 108 O HOH B 244 1555 1555 1.91 LINK MG MG B 108 O HOH B 301 1555 1555 2.65 LINK MG MG B 109 O HOH B 254 1555 1555 2.09 LINK MG MG B 109 O HOH B 289 1555 1555 2.59 LINK MG MG B 109 O HOH B 311 1555 1555 2.30 LINK MG MG B 110 O HOH B 281 1555 1555 2.49 LINK MG MG B 110 O HOH B 284 1555 1555 2.69 LINK MG MG B 112 O HOH B 210 1555 1555 2.46 LINK MG MG B 112 O HOH B 255 1555 1555 2.01 LINK MG MG B 112 O HOH B 259 1555 1555 2.30 LINK MG MG B 112 O HOH B 277 1555 1555 2.63 CRYST1 36.860 114.486 63.640 90.00 99.28 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 0.027130 0.000000 0.004433 0.00000 SCALE2 0.000000 0.008735 0.000000 0.00000 SCALE3 0.000000 0.000000 0.015922 0.00000 CONECT 1 2 3 4 5 CONECT 2 1 CONECT 3 1 CONECT 4 1 CONECT 5 1 6 CONECT 6 5 7 8 9 CONECT 7 6 CONECT 8 6 CONECT 9 6 10 CONECT 10 9 11 12 13 CONECT 11 10 3390 CONECT 12 10 CONECT 13 10 14 CONECT 14 13 15 CONECT 15 14 16 17 CONECT 16 15 21 CONECT 17 15 18 19 CONECT 18 17 33 CONECT 19 17 20 21 CONECT 20 19 CONECT 21 16 19 22 CONECT 22 21 23 32 CONECT 23 22 24 CONECT 24 23 25 CONECT 25 24 26 32 CONECT 26 25 27 28 CONECT 27 26 CONECT 28 26 29 CONECT 29 28 30 31 CONECT 30 29 CONECT 31 29 32 CONECT 32 22 25 31 CONECT 33 18 CONECT 99 3397 CONECT 106 3397 CONECT 230 3391 CONECT 251 3391 CONECT 466 3393 CONECT 691 3394 CONECT 1049 3396 CONECT 1244 3396 CONECT 1380 3399 CONECT 1642 1643 1644 1645 1646 CONECT 1643 1642 CONECT 1644 1642 CONECT 1645 1642 CONECT 1646 1642 1647 CONECT 1647 1646 1648 1649 1650 CONECT 1648 1647 CONECT 1649 1647 CONECT 1650 1647 1651 CONECT 1651 1650 1652 1653 1654 CONECT 1652 1651 3507 CONECT 1653 1651 CONECT 1654 1651 1655 CONECT 1655 1654 1656 CONECT 1656 1655 1657 1658 CONECT 1657 1656 1662 CONECT 1658 1656 1659 1660 CONECT 1659 1658 1674 CONECT 1660 1658 1661 1662 CONECT 1661 1660 CONECT 1662 1657 1660 1663 CONECT 1663 1662 1664 1673 CONECT 1664 1663 1665 CONECT 1665 1664 1666 CONECT 1666 1665 1667 1673 CONECT 1667 1666 1668 1669 CONECT 1668 1667 CONECT 1669 1667 1670 CONECT 1670 1669 1671 1672 CONECT 1671 1670 CONECT 1672 1670 1673 CONECT 1673 1663 1666 1672 CONECT 1674 1659 CONECT 1740 3514 CONECT 1871 3508 CONECT 1892 3508 CONECT 2107 3510 CONECT 2332 3511 CONECT 2690 3513 CONECT 2885 3513 CONECT 3021 3516 CONECT 3283 3284 3285 3286 3287 CONECT 3283 3375 CONECT 3284 3283 3288 3302 CONECT 3285 3283 3305 3318 CONECT 3286 3283 3320 3330 CONECT 3287 3283 3333 3346 CONECT 3288 3284 3289 3290 3346 CONECT 3289 3288 CONECT 3290 3288 3291 3292 3296 CONECT 3291 3290 CONECT 3292 3290 3293 CONECT 3293 3292 3294 3295 CONECT 3294 3293 CONECT 3295 3293 CONECT 3296 3290 3297 3302 CONECT 3297 3296 3298 CONECT 3298 3297 3299 CONECT 3299 3298 3300 3301 CONECT 3300 3299 CONECT 3301 3299 CONECT 3302 3284 3296 3303 CONECT 3303 3302 3304 3305 CONECT 3304 3303 CONECT 3305 3285 3303 3306 CONECT 3306 3305 3307 3308 3312 CONECT 3307 3306 CONECT 3308 3306 3309 CONECT 3309 3308 3310 3311 CONECT 3310 3309 CONECT 3311 3309 CONECT 3312 3306 3313 3318 CONECT 3313 3312 3314 CONECT 3314 3313 3315 CONECT 3315 3314 3316 3317 CONECT 3316 3315 CONECT 3317 3315 CONECT 3318 3285 3312 3319 CONECT 3319 3318 3320 CONECT 3320 3286 3319 3321 CONECT 3321 3320 3322 3323 3324 CONECT 3322 3321 CONECT 3323 3321 CONECT 3324 3321 3325 3330 CONECT 3325 3324 3326 CONECT 3326 3325 3327 CONECT 3327 3326 3328 3329 CONECT 3328 3327 CONECT 3329 3327 CONECT 3330 3286 3324 3331 CONECT 3331 3330 3332 3333 CONECT 3332 3331 CONECT 3333 3287 3331 3334 CONECT 3334 3333 3335 3336 3341 CONECT 3335 3334 CONECT 3336 3334 3337 CONECT 3337 3336 3338 CONECT 3338 3337 3339 3340 CONECT 3339 3338 CONECT 3340 3338 3347 CONECT 3341 3334 3342 3346 CONECT 3342 3341 3343 CONECT 3343 3342 3344 3345 CONECT 3344 3343 CONECT 3345 3343 CONECT 3346 3287 3288 3341 CONECT 3347 3340 3348 CONECT 3348 3347 3349 3350 CONECT 3349 3348 CONECT 3350 3348 3353 CONECT 3351 3353 CONECT 3352 3353 CONECT 3353 3350 3351 3352 3354 CONECT 3354 3353 3355 CONECT 3355 3354 3356 3360 CONECT 3356 3355 3357 3358 CONECT 3357 3356 CONECT 3358 3356 3359 3363 CONECT 3359 3358 3360 CONECT 3360 3355 3359 3361 CONECT 3361 3360 3362 CONECT 3362 3361 CONECT 3363 3358 3364 3365 CONECT 3364 3363 3367 3373 CONECT 3365 3363 3366 CONECT 3366 3365 3367 CONECT 3367 3364 3366 3368 CONECT 3368 3367 3369 CONECT 3369 3368 3370 3371 CONECT 3370 3369 CONECT 3371 3369 3372 3373 CONECT 3372 3371 CONECT 3373 3364 3371 CONECT 3374 3375 CONECT 3375 3283 3374 CONECT 3376 3377 CONECT 3377 3376 3378 CONECT 3378 3377 3379 CONECT 3379 3378 3380 CONECT 3380 3379 3381 CONECT 3381 3380 CONECT 3382 3383 3384 3385 3386 CONECT 3383 3382 3387 CONECT 3384 3382 3388 CONECT 3385 3382 3389 CONECT 3386 3382 CONECT 3387 3383 CONECT 3388 3384 CONECT 3389 3385 CONECT 3390 11 3603 CONECT 3391 230 251 CONECT 3392 3541 3552 3567 3571 CONECT 3393 466 3586 CONECT 3394 691 3566 CONECT 3395 3591 CONECT 3396 1049 1244 3593 CONECT 3397 99 106 CONECT 3398 3539 3551 3565 CONECT 3399 1380 3581 CONECT 3400 3401 3402 3403 3404 CONECT 3400 3492 CONECT 3401 3400 3405 3419 CONECT 3402 3400 3422 3435 CONECT 3403 3400 3437 3447 CONECT 3404 3400 3450 3463 CONECT 3405 3401 3406 3407 3463 CONECT 3406 3405 CONECT 3407 3405 3408 3409 3413 CONECT 3408 3407 CONECT 3409 3407 3410 CONECT 3410 3409 3411 3412 CONECT 3411 3410 CONECT 3412 3410 CONECT 3413 3407 3414 3419 CONECT 3414 3413 3415 CONECT 3415 3414 3416 CONECT 3416 3415 3417 3418 CONECT 3417 3416 CONECT 3418 3416 CONECT 3419 3401 3413 3420 CONECT 3420 3419 3421 3422 CONECT 3421 3420 CONECT 3422 3402 3420 3423 CONECT 3423 3422 3424 3425 3429 CONECT 3424 3423 CONECT 3425 3423 3426 CONECT 3426 3425 3427 3428 CONECT 3427 3426 CONECT 3428 3426 CONECT 3429 3423 3430 3435 CONECT 3430 3429 3431 CONECT 3431 3430 3432 CONECT 3432 3431 3433 3434 CONECT 3433 3432 CONECT 3434 3432 CONECT 3435 3402 3429 3436 CONECT 3436 3435 3437 CONECT 3437 3403 3436 3438 CONECT 3438 3437 3439 3440 3441 CONECT 3439 3438 CONECT 3440 3438 CONECT 3441 3438 3442 3447 CONECT 3442 3441 3443 CONECT 3443 3442 3444 CONECT 3444 3443 3445 3446 CONECT 3445 3444 CONECT 3446 3444 CONECT 3447 3403 3441 3448 CONECT 3448 3447 3449 3450 CONECT 3449 3448 CONECT 3450 3404 3448 3451 CONECT 3451 3450 3452 3453 3458 CONECT 3452 3451 CONECT 3453 3451 3454 CONECT 3454 3453 3455 CONECT 3455 3454 3456 3457 CONECT 3456 3455 CONECT 3457 3455 3464 CONECT 3458 3451 3459 3463 CONECT 3459 3458 3460 CONECT 3460 3459 3461 3462 CONECT 3461 3460 CONECT 3462 3460 CONECT 3463 3404 3405 3458 CONECT 3464 3457 3465 CONECT 3465 3464 3466 3467 CONECT 3466 3465 CONECT 3467 3465 3470 CONECT 3468 3470 CONECT 3469 3470 CONECT 3470 3467 3468 3469 3471 CONECT 3471 3470 3472 CONECT 3472 3471 3473 3477 CONECT 3473 3472 3474 3475 CONECT 3474 3473 CONECT 3475 3473 3476 3480 CONECT 3476 3475 3477 CONECT 3477 3472 3476 3478 CONECT 3478 3477 3479 CONECT 3479 3478 CONECT 3480 3475 3481 3482 CONECT 3481 3480 3484 3490 CONECT 3482 3480 3483 CONECT 3483 3482 3484 CONECT 3484 3481 3483 3485 CONECT 3485 3484 3486 CONECT 3486 3485 3487 3488 CONECT 3487 3486 CONECT 3488 3486 3489 3490 CONECT 3489 3488 CONECT 3490 3481 3488 CONECT 3491 3492 CONECT 3492 3400 3491 CONECT 3493 3494 CONECT 3494 3493 3495 CONECT 3495 3494 3496 CONECT 3496 3495 3497 CONECT 3497 3496 3498 CONECT 3498 3497 CONECT 3499 3500 3501 3502 3503 CONECT 3500 3499 3504 CONECT 3501 3499 3505 CONECT 3502 3499 3506 CONECT 3503 3499 CONECT 3504 3500 CONECT 3505 3501 CONECT 3506 3502 CONECT 3507 1652 3630 3716 CONECT 3508 1871 1892 CONECT 3509 3703 3713 CONECT 3510 2107 3673 3686 CONECT 3511 2332 3656 3672 3729 CONECT 3512 3682 3717 3739 CONECT 3513 2690 2885 3709 3712 CONECT 3514 1740 CONECT 3515 3638 3683 3687 3705 CONECT 3516 3021 CONECT 3539 3398 CONECT 3541 3392 CONECT 3551 3398 CONECT 3552 3392 CONECT 3565 3398 CONECT 3566 3394 CONECT 3567 3392 CONECT 3571 3392 CONECT 3581 3399 CONECT 3586 3393 CONECT 3591 3395 CONECT 3593 3396 CONECT 3603 3390 CONECT 3630 3507 CONECT 3638 3515 CONECT 3656 3511 CONECT 3672 3511 CONECT 3673 3510 CONECT 3682 3512 CONECT 3683 3515 CONECT 3686 3510 CONECT 3687 3515 CONECT 3703 3509 CONECT 3705 3515 CONECT 3709 3513 CONECT 3712 3513 CONECT 3713 3509 CONECT 3716 3507 CONECT 3717 3512 CONECT 3729 3511 CONECT 3739 3512 MASTER 405 0 28 0 0 0 0 6 3768 2 350 12 END