HEADER HYDROLASE/RNA 10-SEP-15 5DO4 TITLE THROMBIN-RNA APTAMER COMPLEX COMPND MOL_ID: 1; COMPND 2 MOLECULE: THROMBIN LIGHT CHAIN; COMPND 3 CHAIN: L; COMPND 4 SYNONYM: COAGULATION FACTOR II; COMPND 5 EC: 3.4.21.5; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: THROMBIN HEAVY CHAIN; COMPND 8 CHAIN: H; COMPND 9 SYNONYM: COAGULATION FACTOR II; COMPND 10 EC: 3.4.21.5; COMPND 11 MOL_ID: 3; COMPND 12 MOLECULE: RNA (25-MER); COMPND 13 CHAIN: A; COMPND 14 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 MOL_ID: 2; SOURCE 6 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 7 ORGANISM_COMMON: HUMAN; SOURCE 8 ORGANISM_TAXID: 9606; SOURCE 9 MOL_ID: 3; SOURCE 10 SYNTHETIC: YES; SOURCE 11 ORGANISM_SCIENTIFIC: UNIDENTIFIED; SOURCE 12 ORGANISM_TAXID: 32644 KEYWDS THROMBIN-RNA APTAMER, PHOSPHORODITHIOATE RNA, PS2-RNA, PS2 LINKAGE, KEYWDS 2 HYDROLASE-RNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR P.S.PALLAN,M.EGLI REVDAT 5 27-SEP-23 5DO4 1 HETSYN REVDAT 4 29-JUL-20 5DO4 1 COMPND REMARK HETNAM LINK REVDAT 4 2 1 SITE REVDAT 3 26-OCT-16 5DO4 1 REMARK REVDAT 2 12-OCT-16 5DO4 1 JRNL REVDAT 1 14-SEP-16 5DO4 0 JRNL AUTH N.D.ABEYDEERA,M.EGLI,N.COX,K.MERCIER,J.N.CONDE,P.S.PALLAN, JRNL AUTH 2 D.M.MIZURINI,M.SIERANT,F.E.HIBTI,T.HASSELL,T.WANG,F.W.LIU, JRNL AUTH 3 H.M.LIU,C.MARTINEZ,A.K.SOOD,T.P.LYBRAND,C.FRYDMAN, JRNL AUTH 4 R.Q.MONTEIRO,R.H.GOMER,B.NAWROT,X.YANG JRNL TITL EVOKING PICOMOLAR BINDING IN RNA BY A SINGLE JRNL TITL 2 PHOSPHORODITHIOATE LINKAGE. JRNL REF NUCLEIC ACIDS RES. V. 44 8052 2016 JRNL REFN ESSN 1362-4962 JRNL PMID 27566147 JRNL DOI 10.1093/NAR/GKW725 REMARK 2 REMARK 2 RESOLUTION. 1.86 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0131 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) : 1.86 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 42.30 REMARK 3 DATA CUTOFF (SIGMA(F)) : 3.500 REMARK 3 COMPLETENESS FOR RANGE (%) : 95.8 REMARK 3 NUMBER OF REFLECTIONS : 40248 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) : 0.191 REMARK 3 R VALUE (WORKING SET) : 0.189 REMARK 3 FREE R VALUE : 0.224 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.900 REMARK 3 FREE R VALUE TEST SET COUNT : 2515 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) : 1.86 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.91 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2402 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 79.38 REMARK 3 BIN R VALUE (WORKING SET) : 0.3140 REMARK 3 BIN FREE R VALUE SET COUNT : 154 REMARK 3 BIN FREE R VALUE : 0.2930 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2312 REMARK 3 NUCLEIC ACID ATOMS : 535 REMARK 3 HETEROGEN ATOMS : 82 REMARK 3 SOLVENT ATOMS : 163 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 34.45 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -3.14000 REMARK 3 B22 (A**2) : 5.93000 REMARK 3 B33 (A**2) : -2.79000 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 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.121 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.119 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.118 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.428 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.957 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.948 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3058 ; 0.018 ; 0.018 REMARK 3 BOND LENGTHS OTHERS (A): 2618 ; 0.003 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4240 ; 1.431 ; 1.960 REMARK 3 BOND ANGLES OTHERS (DEGREES): 6039 ; 0.798 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 285 ; 7.700 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 113 ;34.898 ;23.274 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 430 ;15.055 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 21 ;14.114 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 445 ; 0.149 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2989 ; 0.012 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 700 ; 0.002 ; 0.020 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): 1152 ; 2.622 ; 2.943 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1153 ; 2.621 ; 2.943 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1433 ; 3.831 ; 4.386 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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 5DO4 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 11-SEP-15. REMARK 100 THE DEPOSITION ID IS D_1000213333. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 18-JUL-15 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 21-ID-G REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97857 REMARK 200 MONOCHROMATOR : C(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MAR SCANNER 300 MM PLATE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 40685 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.859 REMARK 200 RESOLUTION RANGE LOW (A) : 42.300 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 3.500 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.9 REMARK 200 DATA REDUNDANCY : 5.600 REMARK 200 R MERGE (I) : 0.13900 REMARK 200 R SYM (I) : 0.13900 REMARK 200 FOR THE DATA SET : 22.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.86 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.90 REMARK 200 COMPLETENESS FOR SHELL (%) : 85.6 REMARK 200 DATA REDUNDANCY IN SHELL : 5.10 REMARK 200 R MERGE FOR SHELL (I) : 0.41700 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.910 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: 3DD2 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 60.86 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.14 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 5% [W/V] PEG-6000, 2.5% V/V (+/-)-2 REMARK 280 -METHYL-2,4-PENTANEDIOL, 50 MM HEPES, PH 7.5, VAPOR DIFFUSION, REMARK 280 SITTING DROP, TEMPERATURE 291K 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 41.83150 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 69.58300 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 41.83150 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 69.58300 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 8460 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 15510 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -22.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: L, H, 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 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 THR L 1 REMARK 465 PHE L 2 REMARK 465 GLY L 3 REMARK 465 SER L 4 REMARK 465 TRP H 148 REMARK 465 THR H 149 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 ARG L 26 CG CD NE CZ NH1 NH2 REMARK 470 LEU L 29 CG CD1 CD2 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 PHE L 15 -84.51 -129.97 REMARK 500 ASP L 34 -123.02 97.69 REMARK 500 TYR H 47 86.18 -151.06 REMARK 500 ASN H 53 80.65 -160.01 REMARK 500 HIS H 66 -58.96 -124.14 REMARK 500 ILE H 75 -61.74 -122.53 REMARK 500 GLU H 94 -76.90 -96.38 REMARK 500 SER H 226 -55.88 -124.73 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 CA H 309 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ARG H 233 O REMARK 620 2 LYS H 236 O 87.9 REMARK 620 3 HOH H 405 O 107.8 163.9 REMARK 620 4 HOH H 442 O 88.6 96.0 88.6 REMARK 620 5 HOH H 463 O 155.0 69.1 96.0 84.4 REMARK 620 6 HOH H 504 O 92.7 79.5 95.4 175.2 92.5 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 102 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 A A 8 OP2 REMARK 620 2 A A 9 OP2 84.2 REMARK 620 3 HOH A 202 O 93.0 171.0 REMARK 620 4 HOH A 210 O 174.4 101.4 81.5 REMARK 620 5 HOH A 211 O 92.0 88.2 83.3 88.2 REMARK 620 6 HOH A 215 O 96.4 90.7 98.2 83.7 171.5 REMARK 620 N 1 2 3 4 5 REMARK 630 REMARK 630 MOLECULE TYPE: PEPTIDE-LIKE INHIBITOR REMARK 630 MOLECULE NAME: D-PHENYLALANYL-N-[(2S,3S)-6-{[AMINO(IMINIO)METHYL] REMARK 630 AMINO}-1-CHLORO-2-HYDROXYHEXAN-3-YL]-L-PROLINAMIDE REMARK 630 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 630 SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 630 REMARK 630 M RES C SSSEQI REMARK 630 0G6 H 301 REMARK 630 SOURCE: NULL REMARK 630 TAXONOMY: NULL REMARK 630 SUBCOMP: DPN PRO AR7 0QE REMARK 630 DETAILS: NULL DBREF 5DO4 L 1 36 UNP P00734 THRB_HUMAN 328 363 DBREF 5DO4 H 1 258 UNP P00734 THRB_HUMAN 364 621 DBREF 5DO4 A 1 25 PDB 5DO4 5DO4 1 25 SEQRES 1 L 36 THR PHE GLY SER GLY GLU ALA ASP CYS GLY LEU ARG PRO SEQRES 2 L 36 LEU PHE GLU LYS LYS SER LEU GLU ASP LYS THR GLU ARG SEQRES 3 L 36 GLU LEU LEU GLU SER TYR ILE ASP GLY ARG SEQRES 1 H 258 ILE VAL GLU GLY SER ASP ALA GLU ILE GLY MET SER PRO SEQRES 2 H 258 TRP GLN VAL MET LEU PHE ARG LYS SER PRO GLN GLU LEU SEQRES 3 H 258 LEU CYS GLY ALA SER LEU ILE SER ASP ARG TRP VAL LEU SEQRES 4 H 258 THR ALA ALA HIS CYS LEU LEU TYR PRO PRO TRP ASP LYS SEQRES 5 H 258 ASN PHE THR GLU ASN ASP LEU LEU VAL ARG ILE GLY LYS SEQRES 6 H 258 HIS SER ARG THR ARG TYR GLU ARG ASN ILE GLU LYS ILE SEQRES 7 H 258 SER MET LEU GLU LYS ILE TYR ILE HIS PRO ARG TYR ASN SEQRES 8 H 258 TRP ARG GLU ASN LEU ASP ARG ASP ILE ALA LEU MET LYS SEQRES 9 H 258 LEU LYS LYS PRO VAL ALA PHE SER ASP TYR ILE HIS PRO SEQRES 10 H 258 VAL CYS LEU PRO ASP ARG GLU THR ALA ALA SER LEU LEU SEQRES 11 H 258 GLN ALA GLY TYR LYS GLY ARG VAL THR GLY TRP GLY ASN SEQRES 12 H 258 LEU LYS GLU THR TRP THR ALA ASN VAL GLY LYS GLY GLN SEQRES 13 H 258 PRO SER VAL LEU GLN VAL VAL ASN LEU PRO ILE VAL GLU SEQRES 14 H 258 ARG PRO VAL CYS LYS ASP SER THR ARG ILE ARG ILE THR SEQRES 15 H 258 ASP ASN MET PHE CYS ALA GLY TYR LYS PRO ASP GLU GLY SEQRES 16 H 258 LYS ARG GLY ASP ALA CYS GLU GLY ASP SER GLY GLY PRO SEQRES 17 H 258 PHE VAL MET LYS SER PRO PHE ASN ASN ARG TRP TYR GLN SEQRES 18 H 258 MET GLY ILE VAL SER TRP GLY GLU GLY CYS ASP ARG ASP SEQRES 19 H 258 GLY LYS TYR GLY PHE TYR THR HIS VAL PHE ARG LEU LYS SEQRES 20 H 258 LYS TRP ILE GLN LYS VAL ILE ASP GLN PHE GLY SEQRES 1 A 25 G G G A A CFZ A A A G CFZ UMS G SEQRES 2 A 25 A A G UFT ADS CFZ UFT UMS A CFZ CFZ CFZ HET CFZ A 6 20 HET CFZ A 11 20 HET UMS A 12 21 HET UFT A 17 20 HET ADS A 18 22 HET CFZ A 19 20 HET UFT A 20 20 HET UMS A 21 21 HET CFZ A 23 20 HET CFZ A 24 20 HET CFZ A 25 20 HET 0G6 H 301 30 HET NAG H 302 14 HET EDO H 303 4 HET EDO H 304 4 HET EDO H 305 4 HET EDO H 306 4 HET GOL H 307 6 HET GOL H 308 6 HET CA H 309 1 HET MRD A 101 8 HET MG A 102 1 HETNAM CFZ 2'-DEOXY-2'-FLUOROCYTIDINE 5'-(DIHYDROGEN PHOSPHATE) HETNAM UMS 2'-METHYLSELENYL-2'-DEOXYURIDINE-5'-PHOSPHATE HETNAM UFT 2'-DEOXY-2'-FLUOROURIDINE 5'-(DIHYDROGEN PHOSPHATE) HETNAM ADS ADENOSINE-5'-(DITHIO)PHOSPHATE HETNAM 0G6 D-PHENYLALANYL-N-[(2S,3S)-6-{[AMINO(IMINIO) HETNAM 2 0G6 METHYL]AMINO}-1-CHLORO-2-HYDROXYHEXAN-3-YL]-L- HETNAM 3 0G6 PROLINAMIDE HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM EDO 1,2-ETHANEDIOL HETNAM GOL GLYCEROL HETNAM CA CALCIUM ION HETNAM MRD (4R)-2-METHYLPENTANE-2,4-DIOL HETNAM MG MAGNESIUM ION HETSYN 0G6 PPACK HETSYN NAG N-ACETYL-BETA-D-GLUCOSAMINE; 2-ACETAMIDO-2-DEOXY-BETA- HETSYN 2 NAG D-GLUCOSE; 2-ACETAMIDO-2-DEOXY-D-GLUCOSE; 2-ACETAMIDO- HETSYN 3 NAG 2-DEOXY-GLUCOSE; N-ACETYL-D-GLUCOSAMINE HETSYN EDO ETHYLENE GLYCOL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 CFZ 6(C9 H13 F N3 O7 P) FORMUL 3 UMS 2(C10 H15 N2 O8 P SE) FORMUL 3 UFT 2(C9 H12 F N2 O8 P) FORMUL 3 ADS C10 H14 N5 O5 P S2 FORMUL 4 0G6 C21 H34 CL N6 O3 1+ FORMUL 5 NAG C8 H15 N O6 FORMUL 6 EDO 4(C2 H6 O2) FORMUL 10 GOL 2(C3 H8 O3) FORMUL 12 CA CA 2+ FORMUL 13 MRD C6 H14 O2 FORMUL 14 MG MG 2+ FORMUL 15 HOH *163(H2 O) HELIX 1 AA1 PHE L 15 SER L 19 5 5 HELIX 2 AA2 THR L 24 TYR L 32 1 9 HELIX 3 AA3 ALA H 41 CYS H 44 5 4 HELIX 4 AA4 PRO H 48 ASP H 51 5 4 HELIX 5 AA5 THR H 55 ASN H 57 5 3 HELIX 6 AA6 ASP H 122 LEU H 130 1 9 HELIX 7 AA7 VAL H 152 GLN H 156 5 5 HELIX 8 AA8 GLU H 169 SER H 176 1 8 HELIX 9 AA9 LYS H 191 GLY H 195 5 5 HELIX 10 AB1 LEU H 246 GLY H 258 1 13 SHEET 1 AA1 7 SER H 5 ASP H 6 0 SHEET 2 AA1 7 GLN H 161 PRO H 166 -1 O VAL H 162 N SER H 5 SHEET 3 AA1 7 LYS H 135 GLY H 140 -1 N VAL H 138 O VAL H 163 SHEET 4 AA1 7 PRO H 208 LYS H 212 -1 O VAL H 210 N ARG H 137 SHEET 5 AA1 7 TRP H 219 TRP H 227 -1 O TYR H 220 N MET H 211 SHEET 6 AA1 7 GLY H 238 HIS H 242 -1 O PHE H 239 N TRP H 227 SHEET 7 AA1 7 MET H 185 ALA H 188 -1 N PHE H 186 O TYR H 240 SHEET 1 AA2 7 GLN H 15 ARG H 20 0 SHEET 2 AA2 7 GLU H 25 LEU H 32 -1 O GLU H 25 N ARG H 20 SHEET 3 AA2 7 TRP H 37 THR H 40 -1 O LEU H 39 N SER H 31 SHEET 4 AA2 7 ALA H 101 LEU H 105 -1 O MET H 103 N VAL H 38 SHEET 5 AA2 7 LYS H 77 ILE H 86 -1 N TYR H 85 O LEU H 102 SHEET 6 AA2 7 LEU H 59 ILE H 63 -1 N ILE H 63 O LYS H 77 SHEET 7 AA2 7 GLN H 15 ARG H 20 -1 N PHE H 19 O LEU H 60 SHEET 1 AA3 2 LEU H 46 TYR H 47 0 SHEET 2 AA3 2 LYS H 52 ASN H 53 -1 O LYS H 52 N TYR H 47 SSBOND 1 CYS L 9 CYS H 119 1555 1555 2.12 SSBOND 2 CYS H 28 CYS H 44 1555 1555 2.10 SSBOND 3 CYS H 173 CYS H 187 1555 1555 2.05 SSBOND 4 CYS H 201 CYS H 231 1555 1555 2.12 LINK NE2 HIS H 43 C3 0G6 H 301 1555 1555 1.50 LINK ND2 ASN H 53 C1 NAG H 302 1555 1555 1.44 LINK OG SER H 205 C2 0G6 H 301 1555 1555 1.39 LINK O3' A A 5 P CFZ A 6 1555 1555 1.60 LINK O3' CFZ A 6 P A A 7 1555 1555 1.59 LINK O3' G A 10 P CFZ A 11 1555 1555 1.59 LINK O3' CFZ A 11 P UMS A 12 1555 1555 1.57 LINK O3' UMS A 12 P G A 13 1555 1555 1.57 LINK O3' G A 16 P UFT A 17 1555 1555 1.59 LINK O3' UFT A 17 P ADS A 18 1555 1555 1.60 LINK O3' ADS A 18 P CFZ A 19 1555 1555 1.61 LINK O3' CFZ A 19 P UFT A 20 1555 1555 1.58 LINK O3' UFT A 20 P UMS A 21 1555 1555 1.58 LINK O3' UMS A 21 P A A 22 1555 1555 1.58 LINK O3' A A 22 P CFZ A 23 1555 1555 1.62 LINK O3' CFZ A 23 P CFZ A 24 1555 1555 1.57 LINK O3' CFZ A 24 P CFZ A 25 1555 1555 1.60 LINK O ARG H 233 CA CA H 309 1555 1555 2.52 LINK O LYS H 236 CA CA H 309 1555 1555 2.40 LINK CA CA H 309 O HOH H 405 1555 1555 2.42 LINK CA CA H 309 O HOH H 442 1555 1555 2.62 LINK CA CA H 309 O HOH H 463 1555 1555 2.47 LINK CA CA H 309 O HOH H 504 1555 1555 2.49 LINK OP2 A A 8 MG MG A 102 1555 1555 2.26 LINK OP2 A A 9 MG MG A 102 1555 1555 2.20 LINK MG MG A 102 O HOH A 202 1555 1555 2.53 LINK MG MG A 102 O HOH A 210 1555 1555 2.28 LINK MG MG A 102 O HOH A 211 1555 1555 2.09 LINK MG MG A 102 O HOH A 215 1555 1555 2.16 CISPEP 1 GLY L 5 GLU L 6 0 -1.00 CISPEP 2 GLY L 35 ARG L 36 0 -16.51 CISPEP 3 SER H 22 PRO H 23 0 -12.40 CRYST1 83.663 139.166 44.511 90.00 90.00 90.00 P 21 21 2 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 0.011953 0.000000 0.000000 0.00000 SCALE2 0.000000 0.007186 0.000000 0.00000 SCALE3 0.000000 0.000000 0.022466 0.00000