HEADER RNA BINDING PROTEIN/RNA 28-JUN-18 6A6J TITLE CRYSTAL STRUCTURE OF ZEBRA FISH Y-BOX PROTEIN1 (YB-1) COLD-SHOCK TITLE 2 DOMAIN IN COMPLEX WITH 6MER M5C RNA COMPND MOL_ID: 1; COMPND 2 MOLECULE: ZEBRA FISH Y-BOX PROTEIN1 (YB-1); COMPND 3 CHAIN: A, C; COMPND 4 FRAGMENT: COLD-SHOCK DOMAIN; COMPND 5 SYNONYM: YBX1 PROTEIN; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: RNA (5'-R(P*CP*AP*UP*(5MC)P*U)-3'); COMPND 9 CHAIN: B, D; COMPND 10 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: DANIO RERIO; SOURCE 3 ORGANISM_COMMON: ZEBRAFISH; SOURCE 4 ORGANISM_TAXID: 7955; SOURCE 5 GENE: YBX1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 MOL_ID: 2; SOURCE 9 SYNTHETIC: YES; SOURCE 10 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 11 ORGANISM_TAXID: 9606 KEYWDS OB-FOLD, RNA BINDING PROTEIN-RNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR M.M.ZHANG,B.X.WU,Y.HUANG,J.B.MA REVDAT 6 27-MAR-24 6A6J 1 LINK REVDAT 5 02-OCT-19 6A6J 1 JRNL REVDAT 4 21-AUG-19 6A6J 1 JRNL REVDAT 3 14-AUG-19 6A6J 1 AUTHOR JRNL REVDAT 2 26-JUN-19 6A6J 1 COMPND SOURCE DBREF REVDAT 1 19-JUN-19 6A6J 0 JRNL AUTH Y.YANG,L.WANG,X.HAN,W.L.YANG,M.ZHANG,H.L.MA,B.F.SUN,A.LI, JRNL AUTH 2 J.XIA,J.CHEN,J.HENG,B.WU,Y.S.CHEN,J.W.XU,X.YANG,H.YAO,J.SUN, JRNL AUTH 3 C.LYU,H.L.WANG,Y.HUANG,Y.P.SUN,Y.L.ZHAO,A.MENG,J.MA,F.LIU, JRNL AUTH 4 Y.G.YANG JRNL TITL RNA 5-METHYLCYTOSINE FACILITATES THE MATERNAL-TO-ZYGOTIC JRNL TITL 2 TRANSITION BY PREVENTING MATERNAL MRNA DECAY. JRNL REF MOL.CELL V. 75 1188 2019 JRNL REFN ISSN 1097-2765 JRNL PMID 31399345 JRNL DOI 10.1016/J.MOLCEL.2019.06.033 REMARK 2 REMARK 2 RESOLUTION. 2.26 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.8.4_1496 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.26 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 27.21 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 44.0 REMARK 3 NUMBER OF REFLECTIONS : 7519 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.230 REMARK 3 R VALUE (WORKING SET) : 0.225 REMARK 3 FREE R VALUE : 0.272 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.030 REMARK 3 FREE R VALUE TEST SET COUNT : 754 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 27.2115 - 3.8531 0.49 1493 168 0.1988 0.2220 REMARK 3 2 3.8531 - 3.0596 0.48 1468 163 0.2181 0.2852 REMARK 3 3 3.0596 - 2.6733 0.49 1536 156 0.2512 0.3116 REMARK 3 4 2.6733 - 2.4290 0.44 1337 160 0.2706 0.3610 REMARK 3 5 2.4290 - 2.2550 0.30 931 107 0.2691 0.2965 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL 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) : 0.330 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 30.460 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 : 0.004 1636 REMARK 3 ANGLE : 1.133 2248 REMARK 3 CHIRALITY : 0.131 254 REMARK 3 PLANARITY : 0.003 262 REMARK 3 DIHEDRAL : 16.120 620 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 6A6J COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 05-JUL-18. REMARK 100 THE DEPOSITION ID IS D_1300008229. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 19-NOV-17 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRF REMARK 200 BEAMLINE : BL17U1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97914 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 7519 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.250 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.6 REMARK 200 DATA REDUNDANCY : 6.300 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 7.3800 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.25 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.33 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: PHENIX REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 37.16 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.96 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.05M ZINC ACETATE, 22% PEG 3350, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 291.15K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z REMARK 290 4555 -X+1/2,Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 31.10050 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 30.43300 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 31.10050 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 30.43300 REMARK 290 SMTRY3 4 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: 1790 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 5780 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -39.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 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: 1790 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 5770 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -41.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 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 GLY A 30 REMARK 465 ASP A 31 REMARK 465 LYS A 32 REMARK 465 U B 1 REMARK 465 GLY C 30 REMARK 465 ASP C 31 REMARK 465 LYS C 32 REMARK 465 U D 1 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 OD1 ASN C 74 O HOH C 301 2.04 REMARK 500 OP1 C D 2 O HOH D 101 2.11 REMARK 500 O HOH A 318 O HOH A 320 2.13 REMARK 500 O ALA C 120 O HOH C 302 2.15 REMARK 500 O HOH A 312 O HOH A 321 2.16 REMARK 500 O ASN C 58 O HOH C 303 2.16 REMARK 500 O HOH C 304 O HOH D 106 2.16 REMARK 500 NH2 ARG A 49 O HOH A 301 2.17 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 U B 6 O3' - P - OP2 ANGL. DEV. = -25.6 DEGREES REMARK 500 U B 6 O3' - P - OP1 ANGL. DEV. = -20.5 DEGREES REMARK 500 U B 6 OP1 - P - OP2 ANGL. DEV. = 10.8 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 LYS A 38 49.10 32.01 REMARK 500 ASN A 104 54.04 38.38 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 ZN A 201 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 97 OE1 REMARK 620 2 GLU A 101 OE1 125.6 REMARK 620 3 C B 2 N3 107.1 110.5 REMARK 620 4 HOH B 103 O 123.7 88.4 97.6 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN C 201 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU C 97 OE1 REMARK 620 2 GLU C 101 OE1 125.1 REMARK 620 3 GLU C 101 OE2 80.3 59.6 REMARK 620 4 HOH C 313 O 100.3 85.0 133.5 REMARK 620 5 C D 2 N3 112.2 115.6 109.7 112.6 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 ZN A 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN C 201 DBREF 6A6J A 30 122 UNP B5DE31 B5DE31_DANRE 30 122 DBREF 6A6J B 1 6 PDB 6A6J 6A6J 1 6 DBREF 6A6J C 30 122 UNP B5DE31 B5DE31_DANRE 30 122 DBREF 6A6J D 1 6 PDB 6A6J 6A6J 1 6 SEQRES 1 A 93 GLY ASP LYS LYS VAL ILE ALA THR LYS VAL LEU GLY THR SEQRES 2 A 93 VAL LYS TRP PHE ASN VAL ARG ASN GLY TYR GLY PHE ILE SEQRES 3 A 93 ASN ARG ASN ASP THR LYS GLU ASP VAL PHE VAL HIS GLN SEQRES 4 A 93 THR ALA ILE LYS LYS ASN ASN PRO ARG LYS TYR LEU ARG SEQRES 5 A 93 SER VAL GLY ASP GLY GLU THR VAL GLU PHE ASP VAL VAL SEQRES 6 A 93 GLU GLY GLU LYS GLY ALA GLU ALA ALA ASN VAL THR GLY SEQRES 7 A 93 PRO GLY GLY VAL PRO VAL GLN GLY SER LYS TYR ALA ALA SEQRES 8 A 93 ASP ARG SEQRES 1 B 6 U C A U 5MC U SEQRES 1 C 93 GLY ASP LYS LYS VAL ILE ALA THR LYS VAL LEU GLY THR SEQRES 2 C 93 VAL LYS TRP PHE ASN VAL ARG ASN GLY TYR GLY PHE ILE SEQRES 3 C 93 ASN ARG ASN ASP THR LYS GLU ASP VAL PHE VAL HIS GLN SEQRES 4 C 93 THR ALA ILE LYS LYS ASN ASN PRO ARG LYS TYR LEU ARG SEQRES 5 C 93 SER VAL GLY ASP GLY GLU THR VAL GLU PHE ASP VAL VAL SEQRES 6 C 93 GLU GLY GLU LYS GLY ALA GLU ALA ALA ASN VAL THR GLY SEQRES 7 C 93 PRO GLY GLY VAL PRO VAL GLN GLY SER LYS TYR ALA ALA SEQRES 8 C 93 ASP ARG SEQRES 1 D 6 U C A U 5MC U HET 5MC B 5 21 HET 5MC D 5 21 HET ZN A 201 1 HET ZN C 201 1 HETNAM 5MC 5-METHYLCYTIDINE-5'-MONOPHOSPHATE HETNAM ZN ZINC ION FORMUL 2 5MC 2(C10 H16 N3 O8 P) FORMUL 5 ZN 2(ZN 2+) FORMUL 7 HOH *51(H2 O) HELIX 1 AA1 THR A 69 ILE A 71 5 3 HELIX 2 AA2 GLY A 107 VAL A 111 5 5 HELIX 3 AA3 THR C 69 ILE C 71 5 3 SHEET 1 AA1 6 VAL A 34 ASN A 47 0 SHEET 2 AA1 6 TYR A 52 ARG A 57 -1 O ASN A 56 N THR A 42 SHEET 3 AA1 6 ASP A 63 HIS A 67 -1 O VAL A 64 N ILE A 55 SHEET 4 AA1 6 GLY A 99 THR A 106 1 O ALA A 102 N PHE A 65 SHEET 5 AA1 6 THR A 88 GLY A 96 -1 N VAL A 94 O GLU A 101 SHEET 6 AA1 6 VAL A 34 ASN A 47 -1 N ILE A 35 O VAL A 93 SHEET 1 AA2 6 VAL C 34 ASN C 47 0 SHEET 2 AA2 6 TYR C 52 ARG C 57 -1 O ASN C 56 N THR C 42 SHEET 3 AA2 6 ASP C 63 HIS C 67 -1 O VAL C 64 N ILE C 55 SHEET 4 AA2 6 ALA C 100 THR C 106 1 O ALA C 102 N PHE C 65 SHEET 5 AA2 6 THR C 88 GLU C 95 -1 N GLU C 90 O THR C 106 SHEET 6 AA2 6 VAL C 34 ASN C 47 -1 N ILE C 35 O VAL C 93 LINK O3' U B 4 P 5MC B 5 1555 1555 1.61 LINK O3' 5MC B 5 P U B 6 1555 1555 1.62 LINK O3' U D 4 P 5MC D 5 1555 1555 1.61 LINK O3' 5MC D 5 P U D 6 1555 1555 1.61 LINK OE1 GLU A 97 ZN L ZN A 201 1555 1555 1.99 LINK OE1 GLU A 101 ZN L ZN A 201 1555 1555 2.16 LINK ZN L ZN A 201 N3 C B 2 1555 1555 2.05 LINK ZN L ZN A 201 O HOH B 103 1555 1555 2.21 LINK OE1 GLU C 97 ZN L ZN C 201 1555 1555 2.05 LINK OE1 GLU C 101 ZN L ZN C 201 1555 1555 2.19 LINK OE2 GLU C 101 ZN L ZN C 201 1555 1555 2.22 LINK ZN L ZN C 201 O HOH C 313 1555 1555 2.19 LINK ZN L ZN C 201 N3 C D 2 1555 1555 2.31 SITE 1 AC1 4 GLU A 97 GLU A 101 C B 2 HOH B 103 SITE 1 AC2 4 GLU C 97 GLU C 101 HOH C 313 C D 2 CRYST1 62.201 60.866 56.513 90.00 118.97 90.00 C 1 2 1 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 0.016077 0.000000 0.008900 0.00000 SCALE2 0.000000 0.016430 0.000000 0.00000 SCALE3 0.000000 0.000000 0.020225 0.00000