HEADER TRANSFERASE 07-JUL-11 3SRZ TITLE CLOSTRIDIUM DIFFICILE TOXIN A (TCDA) GLUCOLSYLTRANSFERASE DOMAIN BOUND TITLE 2 TO UDP-GLUCOSE COMPND MOL_ID: 1; COMPND 2 MOLECULE: TOXIN A; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: GLUCOSYLTRANSFERASE DOMAIN (UNP RESIDUES 1-542); COMPND 5 EC: 2.4.1.-; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CLOSTRIDIUM DIFFICILE; SOURCE 3 ORGANISM_TAXID: 272563; SOURCE 4 STRAIN: 630; SOURCE 5 GENE: CD0663, CD630_06630, TCDA; SOURCE 6 EXPRESSION_SYSTEM: BACILLUS MEGATERIUM; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 1404; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: WH320; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PC-HIS1622 KEYWDS GLUCOSYLTRANSFERASE, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR R.N.PRUITT,N.M.CHUMBLER,M.A.FARROW,S.A.SEEBACK,D.B.FRIEDMAN, AUTHOR 2 B.W.SPILLER,D.B.LACY REVDAT 4 28-FEB-24 3SRZ 1 REMARK SEQADV LINK REVDAT 3 28-MAR-12 3SRZ 1 JRNL REVDAT 2 08-FEB-12 3SRZ 1 JRNL REVDAT 1 01-FEB-12 3SRZ 0 JRNL AUTH R.N.PRUITT,N.M.CHUMBLER,S.A.RUTHERFORD,M.A.FARROW, JRNL AUTH 2 D.B.FRIEDMAN,B.SPILLER,D.B.LACY JRNL TITL STRUCTURAL DETERMINANTS OF CLOSTRIDIUM DIFFICILE TOXIN A JRNL TITL 2 GLUCOSYLTRANSFERASE ACTIVITY. JRNL REF J.BIOL.CHEM. V. 287 8013 2012 JRNL REFN ISSN 0021-9258 JRNL PMID 22267739 JRNL DOI 10.1074/JBC.M111.298414 REMARK 2 REMARK 2 RESOLUTION. 2.58 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) : 2.58 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 40.93 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 96.2 REMARK 3 NUMBER OF REFLECTIONS : 22207 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.184 REMARK 3 R VALUE (WORKING SET) : 0.177 REMARK 3 FREE R VALUE : 0.248 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 8.620 REMARK 3 FREE R VALUE TEST SET COUNT : 1914 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 40.9332 - 6.2124 0.99 1551 143 0.1512 0.1974 REMARK 3 2 6.2124 - 4.9337 1.00 1537 140 0.1715 0.2383 REMARK 3 3 4.9337 - 4.3108 1.00 1503 142 0.1246 0.1687 REMARK 3 4 4.3108 - 3.9170 1.00 1511 149 0.1479 0.2282 REMARK 3 5 3.9170 - 3.6364 0.99 1484 140 0.1778 0.2404 REMARK 3 6 3.6364 - 3.4221 0.99 1510 142 0.1840 0.2455 REMARK 3 7 3.4221 - 3.2508 0.98 1457 136 0.1890 0.2602 REMARK 3 8 3.2508 - 3.1094 0.98 1470 139 0.2010 0.3104 REMARK 3 9 3.1094 - 2.9897 0.95 1425 140 0.2232 0.3342 REMARK 3 10 2.9897 - 2.8866 0.96 1426 129 0.2111 0.3254 REMARK 3 11 2.8866 - 2.7963 0.93 1393 141 0.2225 0.2863 REMARK 3 12 2.7963 - 2.7164 0.94 1388 131 0.2189 0.3041 REMARK 3 13 2.7164 - 2.6449 0.90 1359 125 0.2471 0.3439 REMARK 3 14 2.6449 - 2.5804 0.85 1279 117 0.2831 0.3864 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 : 0.30 REMARK 3 B_SOL : 23.25 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.870 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 25.290 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 42.50 REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 4.49570 REMARK 3 B22 (A**2) : 4.49570 REMARK 3 B33 (A**2) : -0.82310 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 : 0.007 4521 REMARK 3 ANGLE : 1.087 6111 REMARK 3 CHIRALITY : 0.068 687 REMARK 3 PLANARITY : 0.004 775 REMARK 3 DIHEDRAL : 16.713 1718 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 5 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: (CHAIN A AND RESID 2:87) REMARK 3 ORIGIN FOR THE GROUP (A): -72.6672 -51.7446 -25.0266 REMARK 3 T TENSOR REMARK 3 T11: 0.1009 T22: 0.2762 REMARK 3 T33: 0.0954 T12: 0.0673 REMARK 3 T13: -0.0752 T23: 0.0848 REMARK 3 L TENSOR REMARK 3 L11: 4.0565 L22: 1.7271 REMARK 3 L33: 3.3673 L12: 1.2904 REMARK 3 L13: 2.1104 L23: 0.0750 REMARK 3 S TENSOR REMARK 3 S11: 0.0783 S12: 0.0326 S13: -0.0114 REMARK 3 S21: -0.0459 S22: 0.1774 S23: 0.2625 REMARK 3 S31: 0.3193 S32: -0.3544 S33: -0.1993 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: (CHAIN A AND RESID 88:298) REMARK 3 ORIGIN FOR THE GROUP (A): -29.9081 -41.8312 -5.2902 REMARK 3 T TENSOR REMARK 3 T11: 0.1000 T22: 0.0312 REMARK 3 T33: 0.1553 T12: -0.0515 REMARK 3 T13: -0.1053 T23: 0.1085 REMARK 3 L TENSOR REMARK 3 L11: 1.5887 L22: 1.3947 REMARK 3 L33: 1.7102 L12: 0.1632 REMARK 3 L13: 0.4571 L23: -0.3287 REMARK 3 S TENSOR REMARK 3 S11: -0.0577 S12: 0.1039 S13: 0.2044 REMARK 3 S21: -0.0685 S22: -0.0915 S23: -0.2096 REMARK 3 S31: -0.3313 S32: 0.3532 S33: 0.0376 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: (CHAIN A AND RESID 299:390) REMARK 3 ORIGIN FOR THE GROUP (A): -32.1984 -30.0861 -29.9217 REMARK 3 T TENSOR REMARK 3 T11: 0.5103 T22: 0.3760 REMARK 3 T33: 0.2858 T12: -0.0782 REMARK 3 T13: -0.0486 T23: 0.1521 REMARK 3 L TENSOR REMARK 3 L11: 1.6884 L22: 1.4136 REMARK 3 L33: 1.1872 L12: 1.0856 REMARK 3 L13: -0.4008 L23: 0.5972 REMARK 3 S TENSOR REMARK 3 S11: -0.1326 S12: 0.5652 S13: 0.4816 REMARK 3 S21: -0.4574 S22: 0.2480 S23: 0.0180 REMARK 3 S31: -0.6403 S32: 0.1243 S33: -0.1351 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: (CHAIN A AND RESID 391:506) REMARK 3 ORIGIN FOR THE GROUP (A): -43.0382 -55.2475 -13.4580 REMARK 3 T TENSOR REMARK 3 T11: 0.1442 T22: 0.2022 REMARK 3 T33: 0.1115 T12: 0.0882 REMARK 3 T13: 0.0541 T23: -0.0126 REMARK 3 L TENSOR REMARK 3 L11: 1.6907 L22: 1.9142 REMARK 3 L33: 1.9689 L12: -0.7341 REMARK 3 L13: 1.7445 L23: -0.9686 REMARK 3 S TENSOR REMARK 3 S11: 0.1457 S12: 0.2528 S13: -0.0386 REMARK 3 S21: -0.1581 S22: -0.1171 S23: -0.0469 REMARK 3 S31: 0.0319 S32: 0.1612 S33: -0.0329 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: (CHAIN A AND RESID 507:538) REMARK 3 ORIGIN FOR THE GROUP (A): -20.1571 -47.1288 -18.9252 REMARK 3 T TENSOR REMARK 3 T11: 0.3971 T22: 0.8208 REMARK 3 T33: 0.6117 T12: 0.1232 REMARK 3 T13: 0.1944 T23: 0.3046 REMARK 3 L TENSOR REMARK 3 L11: 1.2040 L22: 1.2959 REMARK 3 L33: 1.0207 L12: -0.9199 REMARK 3 L13: 1.0598 L23: -1.0379 REMARK 3 S TENSOR REMARK 3 S11: -0.2344 S12: -0.3405 S13: -0.8522 REMARK 3 S21: 0.1492 S22: -0.1192 S23: -0.2047 REMARK 3 S31: 0.2199 S32: 0.7294 S33: 0.4212 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: PDB ENTRY 3SS1 REMARK 4 REMARK 4 3SRZ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 12-JUL-11. REMARK 100 THE DEPOSITION ID IS D_1000066578. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 09-APR-10 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 24-ID-C REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0094 REMARK 200 MONOCHROMATOR : KOHZU HLD8-24 REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 23039 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.580 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 6.100 REMARK 200 R MERGE (I) : 0.05700 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 21.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.58 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.67 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.4 REMARK 200 DATA REDUNDANCY IN SHELL : 5.80 REMARK 200 R MERGE FOR SHELL (I) : 0.54600 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.700 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER, PHENIX REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 56.90 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.85 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20% PEG6000, 0.1 M BICINE, PH 8.0, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 294K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 65 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/6 REMARK 290 6555 X-Y,X,Z+5/6 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 42.23400 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 21.11700 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 31.67550 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 10.55850 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 52.79250 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 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 1 REMARK 465 GLY A 539 REMARK 465 GLY A 540 REMARK 465 SER A 541 REMARK 465 LEU A 542 REMARK 465 HIS A 543 REMARK 465 ALA A 544 REMARK 465 GLY A 545 REMARK 465 LEU A 546 REMARK 465 ARG A 547 REMARK 465 GLY A 548 REMARK 465 SER A 549 REMARK 465 HIS A 550 REMARK 465 HIS A 551 REMARK 465 HIS A 552 REMARK 465 HIS A 553 REMARK 465 HIS A 554 REMARK 465 HIS A 555 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 OH TYR A 188 O HOH A 662 1.96 REMARK 500 O PHE A 135 O HOH A 655 2.06 REMARK 500 O THR A 246 O HOH A 644 2.07 REMARK 500 OG SER A 91 O HOH A 564 2.19 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 LEU A 27 -39.11 -38.57 REMARK 500 TYR A 62 56.48 -101.15 REMARK 500 GLU A 157 -38.09 -34.44 REMARK 500 GLU A 159 -19.36 -140.27 REMARK 500 GLN A 164 12.50 -63.29 REMARK 500 VAL A 198 66.42 34.12 REMARK 500 PRO A 290 157.13 -48.12 REMARK 500 THR A 330 153.02 -49.78 REMARK 500 SER A 331 16.28 -140.85 REMARK 500 GLN A 340 -33.12 -38.69 REMARK 500 GLU A 363 -143.41 55.75 REMARK 500 ALA A 377 120.31 -171.00 REMARK 500 ASN A 422 -178.89 -69.53 REMARK 500 LEU A 467 -69.78 -94.73 REMARK 500 GLN A 509 -175.44 -67.89 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 MN A1542 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 287 OD2 REMARK 620 2 GLU A 514 OE1 85.3 REMARK 620 3 UPG A 556 O1A 82.5 167.7 REMARK 620 4 UPG A 556 O1B 162.2 109.4 82.4 REMARK 620 5 HOH A 589 O 87.7 93.5 87.4 100.9 REMARK 620 6 HOH A 614 O 92.4 89.1 90.0 78.3 177.4 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 MN A 1542 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE UPG A 556 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3SS1 RELATED DB: PDB DBREF 3SRZ A 1 542 UNP Q189K5 Q189K5_CLOD6 1 542 SEQADV 3SRZ HIS A 543 UNP Q189K5 EXPRESSION TAG SEQADV 3SRZ ALA A 544 UNP Q189K5 EXPRESSION TAG SEQADV 3SRZ GLY A 545 UNP Q189K5 EXPRESSION TAG SEQADV 3SRZ LEU A 546 UNP Q189K5 EXPRESSION TAG SEQADV 3SRZ ARG A 547 UNP Q189K5 EXPRESSION TAG SEQADV 3SRZ GLY A 548 UNP Q189K5 EXPRESSION TAG SEQADV 3SRZ SER A 549 UNP Q189K5 EXPRESSION TAG SEQADV 3SRZ HIS A 550 UNP Q189K5 EXPRESSION TAG SEQADV 3SRZ HIS A 551 UNP Q189K5 EXPRESSION TAG SEQADV 3SRZ HIS A 552 UNP Q189K5 EXPRESSION TAG SEQADV 3SRZ HIS A 553 UNP Q189K5 EXPRESSION TAG SEQADV 3SRZ HIS A 554 UNP Q189K5 EXPRESSION TAG SEQADV 3SRZ HIS A 555 UNP Q189K5 EXPRESSION TAG SEQRES 1 A 555 MET SER LEU ILE SER LYS GLU GLU LEU ILE LYS LEU ALA SEQRES 2 A 555 TYR SER ILE ARG PRO ARG GLU ASN GLU TYR LYS THR ILE SEQRES 3 A 555 LEU THR ASN LEU ASP GLU TYR ASN LYS LEU THR THR ASN SEQRES 4 A 555 ASN ASN GLU ASN LYS TYR LEU GLN LEU LYS LYS LEU ASN SEQRES 5 A 555 GLU SER ILE ASP VAL PHE MET ASN LYS TYR LYS THR SER SEQRES 6 A 555 SER ARG ASN ARG ALA LEU SER ASN LEU LYS LYS ASP ILE SEQRES 7 A 555 LEU LYS GLU VAL ILE LEU ILE LYS ASN SER ASN THR SER SEQRES 8 A 555 PRO VAL GLU LYS ASN LEU HIS PHE VAL TRP ILE GLY GLY SEQRES 9 A 555 GLU VAL SER ASP ILE ALA LEU GLU TYR ILE LYS GLN TRP SEQRES 10 A 555 ALA ASP ILE ASN ALA GLU TYR ASN ILE LYS LEU TRP TYR SEQRES 11 A 555 ASP SER GLU ALA PHE LEU VAL ASN THR LEU LYS LYS ALA SEQRES 12 A 555 ILE VAL GLU SER SER THR THR GLU ALA LEU GLN LEU LEU SEQRES 13 A 555 GLU GLU GLU ILE GLN ASN PRO GLN PHE ASP ASN MET LYS SEQRES 14 A 555 PHE TYR LYS LYS ARG MET GLU PHE ILE TYR ASP ARG GLN SEQRES 15 A 555 LYS ARG PHE ILE ASN TYR TYR LYS SER GLN ILE ASN LYS SEQRES 16 A 555 PRO THR VAL PRO THR ILE ASP ASP ILE ILE LYS SER HIS SEQRES 17 A 555 LEU VAL SER GLU TYR ASN ARG ASP GLU THR VAL LEU GLU SEQRES 18 A 555 SER TYR ARG THR ASN SER LEU ARG LYS ILE ASN SER ASN SEQRES 19 A 555 HIS GLY ILE ASP ILE ARG ALA ASN SER LEU PHE THR GLU SEQRES 20 A 555 GLN GLU LEU LEU ASN ILE TYR SER GLN GLU LEU LEU ASN SEQRES 21 A 555 ARG GLY ASN LEU ALA ALA ALA SER ASP ILE VAL ARG LEU SEQRES 22 A 555 LEU ALA LEU LYS ASN PHE GLY GLY VAL TYR LEU ASP VAL SEQRES 23 A 555 ASP MET LEU PRO GLY ILE HIS SER ASP LEU PHE LYS THR SEQRES 24 A 555 ILE SER ARG PRO SER SER ILE GLY LEU ASP ARG TRP GLU SEQRES 25 A 555 MET ILE LYS LEU GLU ALA ILE MET LYS TYR LYS LYS TYR SEQRES 26 A 555 ILE ASN ASN TYR THR SER GLU ASN PHE ASP LYS LEU ASP SEQRES 27 A 555 GLN GLN LEU LYS ASP ASN PHE LYS LEU ILE ILE GLU SER SEQRES 28 A 555 LYS SER GLU LYS SER GLU ILE PHE SER LYS LEU GLU ASN SEQRES 29 A 555 LEU ASN VAL SER ASP LEU GLU ILE LYS ILE ALA PHE ALA SEQRES 30 A 555 LEU GLY SER VAL ILE ASN GLN ALA LEU ILE SER LYS GLN SEQRES 31 A 555 GLY SER TYR LEU THR ASN LEU VAL ILE GLU GLN VAL LYS SEQRES 32 A 555 ASN ARG TYR GLN PHE LEU ASN GLN HIS LEU ASN PRO ALA SEQRES 33 A 555 ILE GLU SER ASP ASN ASN PHE THR ASP THR THR LYS ILE SEQRES 34 A 555 PHE HIS ASP SER LEU PHE ASN SER ALA THR ALA GLU ASN SEQRES 35 A 555 SER MET PHE LEU THR LYS ILE ALA PRO TYR LEU GLN VAL SEQRES 36 A 555 GLY PHE MET PRO GLU ALA ARG SER THR ILE SER LEU SER SEQRES 37 A 555 GLY PRO GLY ALA TYR ALA SER ALA TYR TYR ASP PHE ILE SEQRES 38 A 555 ASN LEU GLN GLU ASN THR ILE GLU LYS THR LEU LYS ALA SEQRES 39 A 555 SER ASP LEU ILE GLU PHE LYS PHE PRO GLU ASN ASN LEU SEQRES 40 A 555 SER GLN LEU THR GLU GLN GLU ILE ASN SER LEU TRP SER SEQRES 41 A 555 PHE ASP GLN ALA SER ALA LYS TYR GLN PHE GLU LYS TYR SEQRES 42 A 555 VAL ARG ASP TYR THR GLY GLY SER LEU HIS ALA GLY LEU SEQRES 43 A 555 ARG GLY SER HIS HIS HIS HIS HIS HIS HET MN A1542 1 HET UPG A 556 36 HETNAM MN MANGANESE (II) ION HETNAM UPG URIDINE-5'-DIPHOSPHATE-GLUCOSE HETSYN UPG URIDINE-5'-MONOPHOSPHATE GLUCOPYRANOSYL-MONOPHOSPHATE HETSYN 2 UPG ESTER FORMUL 2 MN MN 2+ FORMUL 3 UPG C15 H24 N2 O17 P2 FORMUL 4 HOH *109(H2 O) HELIX 1 1 SER A 5 ALA A 13 1 9 HELIX 2 2 GLU A 20 LYS A 35 1 16 HELIX 3 3 ASN A 40 TYR A 62 1 23 HELIX 4 4 ARG A 67 ASN A 87 1 21 HELIX 5 5 SER A 107 ASN A 121 1 15 HELIX 6 6 LEU A 136 GLU A 157 1 22 HELIX 7 7 ASP A 166 ILE A 193 1 28 HELIX 8 8 THR A 200 TYR A 213 1 14 HELIX 9 9 ASP A 216 SER A 233 1 18 HELIX 10 10 ARG A 240 ASN A 242 5 3 HELIX 11 11 GLU A 247 LEU A 259 1 13 HELIX 12 12 ASN A 263 GLY A 280 1 18 HELIX 13 13 GLY A 307 LYS A 324 1 18 HELIX 14 14 ASP A 338 LYS A 352 1 15 HELIX 15 15 GLU A 354 ILE A 358 5 5 HELIX 16 16 SER A 392 SER A 419 1 28 HELIX 17 17 ASN A 422 SER A 437 1 16 HELIX 18 18 ASN A 442 ALA A 450 1 9 HELIX 19 19 PRO A 451 VAL A 455 5 5 HELIX 20 20 SER A 463 SER A 468 1 6 HELIX 21 21 GLY A 469 LEU A 483 1 15 HELIX 22 22 LEU A 497 LYS A 501 5 5 HELIX 23 23 PRO A 503 ASN A 505 5 3 HELIX 24 24 GLU A 512 ASN A 516 5 5 HELIX 25 25 ASP A 522 THR A 538 1 17 SHEET 1 A 2 SER A 91 PRO A 92 0 SHEET 2 A 2 ASN A 366 VAL A 367 -1 O VAL A 367 N SER A 91 SHEET 1 B 6 GLY A 236 ASP A 238 0 SHEET 2 B 6 ASN A 125 TYR A 130 1 N LEU A 128 O ILE A 237 SHEET 3 B 6 ASN A 96 VAL A 100 1 N LEU A 97 O ASN A 125 SHEET 4 B 6 GLY A 281 LEU A 284 1 O VAL A 282 N HIS A 98 SHEET 5 B 6 SER A 380 SER A 388 -1 O SER A 388 N GLY A 281 SHEET 6 B 6 ILE A 372 ALA A 377 -1 N LYS A 373 O ILE A 387 SHEET 1 C 2 LEU A 289 PRO A 290 0 SHEET 2 C 2 LEU A 507 SER A 508 -1 O SER A 508 N LEU A 289 LINK OD2 ASP A 287 MN MN A1542 1555 1555 2.18 LINK OE1 GLU A 514 MN MN A1542 1555 1555 2.10 LINK O1A UPG A 556 MN MN A1542 1555 1555 2.11 LINK O1B UPG A 556 MN MN A1542 1555 1555 2.17 LINK O HOH A 589 MN MN A1542 1555 1555 2.22 LINK O HOH A 614 MN MN A1542 1555 1555 2.26 CISPEP 1 ASN A 327 ASN A 328 0 -13.06 SITE 1 AC1 5 ASP A 287 GLU A 514 UPG A 556 HOH A 589 SITE 2 AC1 5 HOH A 614 SITE 1 AC2 26 VAL A 100 TRP A 101 ILE A 102 ASN A 138 SITE 2 AC2 26 LEU A 264 ALA A 265 SER A 268 ASP A 269 SITE 3 AC2 26 ARG A 272 TYR A 283 ASP A 285 VAL A 286 SITE 4 AC2 26 ASP A 287 ASN A 383 GLN A 384 THR A 464 SITE 5 AC2 26 GLY A 469 GLU A 514 SER A 517 LEU A 518 SITE 6 AC2 26 TRP A 519 HOH A 578 HOH A 589 HOH A 606 SITE 7 AC2 26 HOH A 614 MN A1542 CRYST1 141.779 141.779 63.351 90.00 90.00 120.00 P 65 6 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 0.007053 0.004072 0.000000 0.00000 SCALE2 0.000000 0.008144 0.000000 0.00000 SCALE3 0.000000 0.000000 0.015785 0.00000