PDB Short entry for 5I49 HEADER TRANSFERASE 11-FEB-16 5I49 TITLE RNA EDITING TUTASE 1 FROM TRYPANOSOMA BRUCEI IN COMPLEX WITH UTP TITLE 2 ANALOG UMPNPP COMPND MOL_ID: 1; COMPND 2 MOLECULE: 3' TERMINAL URIDYLYL TRANSFERASE; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: TRYPANOSOMA BRUCEI; SOURCE 3 ORGANISM_TAXID: 5691; SOURCE 4 GENE: 3' TUTASE; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS RNA EDITING TUTASE1, TRANSFERASE, TRYPANOSOMA BRUCEI EXPDTA X-RAY DIFFRACTION AUTHOR S.THORE,L.T.RAJAPPA REVDAT 4 10-JAN-24 5I49 1 REMARK REVDAT 3 16-OCT-19 5I49 1 REMARK REVDAT 2 28-DEC-16 5I49 1 JRNL REVDAT 1 09-NOV-16 5I49 0 JRNL AUTH L.RAJAPPA-TITU,T.SUEMATSU,P.MUNOZ-TELLO,M.LONG,O.DEMIR, JRNL AUTH 2 K.J.CHENG,J.R.STAGNO,H.LUECKE,R.E.AMARO,I.APHASIZHEVA, JRNL AUTH 3 R.APHASIZHEV,S.THORE JRNL TITL RNA EDITING TUTASE 1: STRUCTURAL FOUNDATION OF SUBSTRATE JRNL TITL 2 RECOGNITION, COMPLEX INTERACTIONS AND DRUG TARGETING. JRNL REF NUCLEIC ACIDS RES. V. 44 10862 2016 JRNL REFN ESSN 1362-4962 JRNL PMID 27744351 JRNL DOI 10.1093/NAR/GKW917 REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 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) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 46.40 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.370 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 47570 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.175 REMARK 3 R VALUE (WORKING SET) : 0.173 REMARK 3 FREE R VALUE : 0.207 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2379 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 46.4187 - 4.6270 1.00 2867 151 0.1730 0.1827 REMARK 3 2 4.6270 - 3.6730 1.00 2726 144 0.1455 0.1466 REMARK 3 3 3.6730 - 3.2089 1.00 2705 142 0.1554 0.2011 REMARK 3 4 3.2089 - 2.9155 1.00 2664 140 0.1752 0.2081 REMARK 3 5 2.9155 - 2.7066 1.00 2675 141 0.1772 0.2061 REMARK 3 6 2.7066 - 2.5470 1.00 2649 140 0.1772 0.1980 REMARK 3 7 2.5470 - 2.4195 1.00 2667 140 0.1801 0.2256 REMARK 3 8 2.4195 - 2.3142 1.00 2623 138 0.1814 0.2616 REMARK 3 9 2.3142 - 2.2251 1.00 2654 140 0.1798 0.2328 REMARK 3 10 2.2251 - 2.1483 1.00 2622 138 0.1785 0.2213 REMARK 3 11 2.1483 - 2.0811 1.00 2647 139 0.1761 0.2313 REMARK 3 12 2.0811 - 2.0216 1.00 2606 137 0.1871 0.2414 REMARK 3 13 2.0216 - 1.9684 1.00 2637 139 0.1955 0.2229 REMARK 3 14 1.9684 - 1.9204 1.00 2636 139 0.2007 0.2823 REMARK 3 15 1.9204 - 1.8767 1.00 2618 138 0.2004 0.2703 REMARK 3 16 1.8767 - 1.8368 1.00 2619 137 0.2045 0.2472 REMARK 3 17 1.8368 - 1.8000 0.99 2576 136 0.2089 0.2659 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) : 0.170 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 20.730 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 3947 REMARK 3 ANGLE : 1.081 5384 REMARK 3 CHIRALITY : 0.076 593 REMARK 3 PLANARITY : 0.005 690 REMARK 3 DIHEDRAL : 12.571 1461 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 5I49 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 12-FEB-16. REMARK 100 THE DEPOSITION ID IS D_1000218225. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 26-NOV-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SLS REMARK 200 BEAMLINE : X06DA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.000000 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 2M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 47571 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 13.10 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 31.7500 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) : 1.84 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.4 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 <I/SIGMA(I)> FOR SHELL : 86.40 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: 5HZD REMARK 200 REMARK 200 REMARK: PLATES REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.65 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.35 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M TRIS PH8.5, 19% PEG 3350,0.2M REMARK 280 LITHIUM CHLORIDE, 1MM MGCL2. CRYSTALS WERE SOAKED WITH 0.5MM REMARK 280 UMPNPP., VAPOR DIFFUSION, 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 64.69000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 29.21500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 64.69000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 29.21500 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 100 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 22420 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -8.0 KCAL/MOL 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 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 A1230 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 188 REMARK 465 GLY A 189 REMARK 465 ILE A 370 REMARK 465 LEU A 371 REMARK 465 THR A 372 REMARK 465 VAL A 373 REMARK 465 ALA A 374 REMARK 465 ARG A 375 REMARK 465 ARG A 376 REMARK 465 ASP A 377 REMARK 465 ALA A 378 REMARK 465 GLU A 379 REMARK 465 VAL A 625 REMARK 465 PRO A 626 REMARK 465 VAL A 627 REMARK 465 ALA A 628 REMARK 465 SER A 629 REMARK 465 THR A 630 REMARK 465 SER A 631 REMARK 465 VAL A 632 REMARK 465 SER A 633 REMARK 465 SER A 634 REMARK 465 GLY A 635 REMARK 465 GLY A 636 REMARK 465 GLY A 637 REMARK 465 GLY A 638 REMARK 465 SER A 639 REMARK 465 ASN A 640 REMARK 465 VAL A 641 REMARK 465 LYS A 642 REMARK 465 ARG A 643 REMARK 465 GLU A 690 REMARK 465 THR A 691 REMARK 465 ARG A 692 REMARK 465 SER A 693 REMARK 465 CYS A 694 REMARK 465 VAL A 695 REMARK 465 PHE A 696 REMARK 465 ALA A 697 REMARK 465 ALA A 698 REMARK 465 ALA A 699 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 A 817 O HOH A 1264 1.93 REMARK 500 O HOH A 1009 O HOH A 1036 2.00 REMARK 500 O HOH A 910 O HOH A 1040 2.01 REMARK 500 NH1 ARG A 263 O HOH A 801 2.01 REMARK 500 O HOH A 1170 O HOH A 1288 2.07 REMARK 500 O HOH A 1139 O HOH A 1270 2.08 REMARK 500 NH2 ARG A 335 O HOH A 802 2.10 REMARK 500 O HOH A 872 O HOH A 1292 2.11 REMARK 500 O HOH A 999 O HOH A 1047 2.12 REMARK 500 O HOH A 1045 O HOH A 1183 2.16 REMARK 500 ND2 ASN A 483 O2 2KH A 702 2.16 REMARK 500 O HOH A 1246 O HOH A 1256 2.17 REMARK 500 O HOH A 1069 O HOH A 1177 2.18 REMARK 500 OD1 ASN A 483 O HOH A 803 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 1153 O HOH A 1212 2515 1.94 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 ILE A 354 75.99 -117.84 REMARK 500 ASN A 515 70.61 -173.95 REMARK 500 TYR A 520 -156.77 -82.75 REMARK 500 ASP A 557 49.08 -94.04 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 A1310 DISTANCE = 5.90 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 ZN A 701 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 195 SG REMARK 620 2 CYS A 198 SG 124.3 REMARK 620 3 HIS A 212 NE2 104.2 108.5 REMARK 620 4 HIS A 217 NE2 102.2 113.3 101.8 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 703 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 2KH A 702 O1A REMARK 620 2 2KH A 702 O2B 89.4 REMARK 620 3 2KH A 702 O2G 94.4 89.7 REMARK 620 4 HOH A 848 O 166.5 87.2 98.6 REMARK 620 5 HOH A 858 O 90.9 98.7 170.2 76.7 REMARK 620 6 HOH A 998 O 96.5 172.9 86.0 87.9 85.2 REMARK 620 N 1 2 3 4 5 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 701 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 2KH A 702 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG A 703 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5HZD RELATED DB: PDB REMARK 900 THIS ENTRY IS THE SAME PROTEIN AS 5HZD BUT COMPLEXED WITH UMPNPP IN REMARK 900 THE ACTIVE SITE. DBREF 5I49 A 189 699 UNP Q8WQX5 Q8WQX5_9TRYP 189 699 SEQADV 5I49 MET A 188 UNP Q8WQX5 INITIATING METHIONINE SEQRES 1 A 512 MET GLY VAL ARG LEU TYR SER CYS ASP ALA CYS PRO HIS SEQRES 2 A 512 ALA VAL PHE THR THR HIS ALA ALA LEU LEU ALA HIS ALA SEQRES 3 A 512 GLU GLU HIS HIS ALA ASP LEU LEU PRO ASP HIS ALA ARG SEQRES 4 A 512 LEU ARG ARG ILE ALA GLN LYS LEU ASN PRO VAL TRP ASN SEQRES 5 A 512 ARG ALA LEU ASN ALA ARG ARG ASN THR ILE THR SER TRP SEQRES 6 A 512 GLY LYS LYS ILE PHE HIS VAL ALA ALA GLN ARG ASP ALA SEQRES 7 A 512 GLY GLU SER LYS MET GLN GLU ALA HIS ARG ALA ARG ALA SEQRES 8 A 512 GLN LEU GLU CYS VAL VAL ARG ARG TRP HIS ASP LYS ALA SEQRES 9 A 512 ARG VAL PHE ILE PHE GLY SER SER VAL ALA MET GLY VAL SEQRES 10 A 512 TRP ASP GLY THR ALA ASP ILE ASP PHE ALA VAL VAL ASP SEQRES 11 A 512 VAL ASP ALA MET GLU ARG GLY SER TRP PRO PRO LEU GLU SEQRES 12 A 512 LYS ASN ALA VAL ARG SER ILE THR GLU LEU LEU ARG ARG SEQRES 13 A 512 VAL GLY PHE SER PHE VAL ASN LEU GLU PRO ILE SER HIS SEQRES 14 A 512 ALA ARG VAL PRO ILE ILE LYS HIS HIS ALA SER SER PRO SEQRES 15 A 512 ILE LEU THR VAL ALA ARG ARG ASP ALA GLU ASP VAL VAL SEQRES 16 A 512 ALA ARG SER ILE ARG PHE ILE LEU ASN GLY PRO ALA THR SEQRES 17 A 512 ARG GLU ASP ARG LEU LEU LEU GLU GLY SER VAL ARG ASP SEQRES 18 A 512 ALA VAL GLY PRO THR GLY VAL GLN GLN VAL TRP TRP ASN SEQRES 19 A 512 ARG THR SER ASP MET MET SER ALA THR LEU GLU SER THR SEQRES 20 A 512 THR ALA ALA VAL ARG ALA ALA MET CYS SER PRO ALA LEU SEQRES 21 A 512 ALA SER ALA SER LEU ARG THR LYS VAL GLN PRO ALA HIS SEQRES 22 A 512 ASP GLU CYS ARG PRO GLU LEU TYR ASN ILE ASP PHE ASP SEQRES 23 A 512 LEU SER PHE ARG ALA PHE GLY ILE ARG ASN SER THR LEU SEQRES 24 A 512 LEU ARG LYS TYR LEU LEU SER HIS PRO CYS ALA ARG PRO SEQRES 25 A 512 GLY ALA ILE VAL LEU LYS ASP TRP SER LYS THR SER GLY SEQRES 26 A 512 VAL ASN ASN SER VAL ASN GLY TYR PHE THR SER TYR ALA SEQRES 27 A 512 ILE ASN ILE MET TRP ILE TYR TYR LEU VAL GLN LYS GLY SEQRES 28 A 512 TYR VAL PRO TYR VAL ASP PRO LEU GLU ILE PRO GLU SER SEQRES 29 A 512 LEU VAL ASN TYR THR ASP PHE ASP PRO ARG TYR THR PRO SEQRES 30 A 512 MET ILE ASP PRO GLU ILE THR ASN THR GLU ARG GLU GLU SEQRES 31 A 512 LEU TYR LYS ALA ALA GLY ASP MET LEU VAL GLY PHE PHE SEQRES 32 A 512 TYR PHE TYR SER PHE GLU PHE ASP TRP GLY HIS ASN VAL SEQRES 33 A 512 ILE SER LEU ASN ARG PRO GLY ILE THR THR LYS ARG MET SEQRES 34 A 512 LEU GLY TRP HIS VAL GLU ASP VAL VAL PRO VAL ALA SER SEQRES 35 A 512 THR SER VAL SER SER GLY GLY GLY GLY SER ASN VAL LYS SEQRES 36 A 512 ARG HIS PRO THR ARG TYR GLU LEU CYS ILE GLU ASP PRO SEQRES 37 A 512 TYR GLU GLU ASN LEU ASN LEU GLY ARG HIS ILE GLY VAL SEQRES 38 A 512 THR LYS SER LEU ARG VAL ARG THR GLU LEU TYR ARG GLY SEQRES 39 A 512 LEU LEU SER LEU LEU LYS GLU GLY GLU THR ARG SER CYS SEQRES 40 A 512 VAL PHE ALA ALA ALA HET ZN A 701 1 HET 2KH A 702 29 HET MG A 703 1 HETNAM ZN ZINC ION HETNAM 2KH 5'-O-[(S)-HYDROXY{[(S)-HYDROXY(PHOSPHONOOXY) HETNAM 2 2KH PHOSPHORYL]AMINO}PHOSPHORYL]URIDINE HETNAM MG MAGNESIUM ION FORMUL 2 ZN ZN 2+ FORMUL 3 2KH C9 H16 N3 O14 P3 FORMUL 4 MG MG 2+ FORMUL 5 HOH *510(H2 O) HELIX 1 AA1 THR A 205 HIS A 217 1 13 HELIX 2 AA2 ASP A 223 ASN A 235 1 13 HELIX 3 AA3 VAL A 237 ARG A 245 1 9 HELIX 4 AA4 ARG A 245 ASP A 264 1 20 HELIX 5 AA5 GLY A 266 HIS A 288 1 23 HELIX 6 AA6 GLY A 297 MET A 302 1 6 HELIX 7 AA7 ASP A 317 ARG A 323 1 7 HELIX 8 AA8 LEU A 329 VAL A 344 1 16 HELIX 9 AA9 VAL A 381 ALA A 383 5 3 HELIX 10 AB1 THR A 395 GLY A 411 1 17 HELIX 11 AB2 SER A 433 MET A 442 1 10 HELIX 12 AB3 PRO A 465 ILE A 470 5 6 HELIX 13 AB4 ALA A 478 LEU A 492 1 15 HELIX 14 AB5 CYS A 496 SER A 511 1 16 HELIX 15 AB6 ASN A 515 GLY A 519 5 5 HELIX 16 AB7 THR A 522 LYS A 537 1 16 HELIX 17 AB8 ASP A 544 ILE A 548 5 5 HELIX 18 AB9 THR A 571 GLU A 596 1 26 HELIX 19 AC1 ARG A 615 GLY A 618 5 4 HELIX 20 AC2 GLY A 667 LEU A 685 1 19 SHEET 1 AA1 2 TYR A 193 SER A 194 0 SHEET 2 AA1 2 VAL A 202 PHE A 203 -1 O PHE A 203 N TYR A 193 SHEET 1 AA2 5 ARG A 292 PHE A 296 0 SHEET 2 AA2 5 ILE A 311 VAL A 316 -1 O ALA A 314 N PHE A 294 SHEET 3 AA2 5 PHE A 472 SER A 475 1 O ASP A 473 N PHE A 313 SHEET 4 AA2 5 ILE A 361 HIS A 364 -1 N HIS A 364 O PHE A 472 SHEET 5 AA2 5 LEU A 351 ILE A 354 -1 N GLU A 352 O LYS A 363 SHEET 1 AA3 4 VAL A 415 TRP A 420 0 SHEET 2 AA3 4 MET A 426 LEU A 431 -1 O SER A 428 N TRP A 419 SHEET 3 AA3 4 SER A 385 LEU A 390 -1 N PHE A 388 O MET A 427 SHEET 4 AA3 4 THR A 454 PRO A 458 -1 O LYS A 455 N ILE A 389 SHEET 1 AA4 2 ASN A 602 VAL A 603 0 SHEET 2 AA4 2 THR A 612 THR A 613 -1 O THR A 612 N VAL A 603 LINK SG CYS A 195 ZN ZN A 701 1555 1555 2.42 LINK SG CYS A 198 ZN ZN A 701 1555 1555 2.52 LINK NE2 HIS A 212 ZN ZN A 701 1555 1555 2.18 LINK NE2 HIS A 217 ZN ZN A 701 1555 1555 2.23 LINK O1A 2KH A 702 MG MG A 703 1555 1555 1.97 LINK O2B 2KH A 702 MG MG A 703 1555 1555 2.11 LINK O2G 2KH A 702 MG MG A 703 1555 1555 2.06 LINK MG MG A 703 O HOH A 848 1555 1555 2.04 LINK MG MG A 703 O HOH A 858 1555 1555 2.32 LINK MG MG A 703 O HOH A 998 1555 1555 2.04 CISPEP 1 TRP A 326 PRO A 327 0 -1.49 SITE 1 AC1 4 CYS A 195 CYS A 198 HIS A 212 HIS A 217 SITE 1 AC2 20 SER A 298 PHE A 479 GLY A 480 ASN A 483 SITE 2 AC2 20 SER A 484 LYS A 505 LYS A 509 SER A 523 SITE 3 AC2 20 TYR A 524 MG A 703 HOH A 820 HOH A 848 SITE 4 AC2 20 HOH A 850 HOH A 858 HOH A 882 HOH A 932 SITE 5 AC2 20 HOH A 935 HOH A 963 HOH A 998 HOH A1141 SITE 1 AC3 4 2KH A 702 HOH A 848 HOH A 858 HOH A 998 CRYST1 129.380 58.430 66.600 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 0.007729 0.000000 0.000000 0.00000 SCALE2 0.000000 0.017114 0.000000 0.00000 SCALE3 0.000000 0.000000 0.015015 0.00000