HEADER HYDROLASE 05-JUL-15 5CDV TITLE PROLINE DIPEPTIDASE FROM DEINOCOCCUS RADIODURANS R1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROLINE DIPEPTIDASE; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: DEINOCOCCUS RADIODURANS (STRAIN ATCC 13939 / SOURCE 3 DSM 20539 / JCM 16871 / LMG 4051 / NBRC 15346 / NCIMB 9279 / R1 / SOURCE 4 VKM B-1422); SOURCE 5 ORGANISM_TAXID: 243230; SOURCE 6 STRAIN: ATCC 13939 / DSM 20539 / JCM 16871 / LMG 4051 / NBRC 15346 / SOURCE 7 NCIMB 9279 / R1 / VKM B-1422; SOURCE 8 ATCC: 13939; SOURCE 9 GENE: DR_1246; SOURCE 10 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 11 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 12 EXPRESSION_SYSTEM_STRAIN: BL21(DE3) PLYSS; SOURCE 13 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 14 EXPRESSION_SYSTEM_PLASMID: PST50TR KEYWDS XAA-PRO PEPTIDASE, PROLIDASE, DEINOCOCCUS RADIODURANS, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR A.KUMAR,V.ARE,B.GHOSH,S.JAMDAR,R.MAKDE REVDAT 3 08-NOV-23 5CDV 1 LINK REVDAT 2 04-JUL-18 5CDV 1 REMARK REVDAT 1 10-AUG-16 5CDV 0 JRNL AUTH A.KUMAR,V.ARE,B.GHOSH,S.JAMDAR,R.MAKDE JRNL TITL PROLINE DIPEPTIDASE FROM DEINOCOCCUS RADIODURANS R1 AT 1.45 JRNL TITL 2 ANGSTROM RESOLUTION JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.45 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.9_1692 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) : 1.45 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 39.48 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.9 REMARK 3 NUMBER OF REFLECTIONS : 67444 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.183 REMARK 3 R VALUE (WORKING SET) : 0.182 REMARK 3 FREE R VALUE : 0.198 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.990 REMARK 3 FREE R VALUE TEST SET COUNT : 3366 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 39.4956 - 4.1810 0.98 2959 149 0.1722 0.1740 REMARK 3 2 4.1810 - 3.3191 1.00 2801 142 0.1591 0.1710 REMARK 3 3 3.3191 - 2.8997 1.00 2768 139 0.1792 0.1983 REMARK 3 4 2.8997 - 2.6346 1.00 2730 159 0.1867 0.2101 REMARK 3 5 2.6346 - 2.4458 1.00 2704 163 0.1770 0.2009 REMARK 3 6 2.4458 - 2.3016 1.00 2699 155 0.1860 0.1848 REMARK 3 7 2.3016 - 2.1864 0.99 2677 146 0.2382 0.2587 REMARK 3 8 2.1864 - 2.0912 1.00 2694 120 0.1654 0.1795 REMARK 3 9 2.0912 - 2.0107 0.99 2692 148 0.1734 0.1835 REMARK 3 10 2.0107 - 1.9413 1.00 2666 146 0.1810 0.1888 REMARK 3 11 1.9413 - 1.8806 0.99 2673 123 0.2674 0.2640 REMARK 3 12 1.8806 - 1.8269 1.00 2684 129 0.1762 0.1946 REMARK 3 13 1.8269 - 1.7788 1.00 2666 132 0.1674 0.1959 REMARK 3 14 1.7788 - 1.7354 1.00 2647 144 0.1642 0.1788 REMARK 3 15 1.7354 - 1.6959 1.00 2669 162 0.1707 0.2089 REMARK 3 16 1.6959 - 1.6598 1.00 2667 141 0.1646 0.1968 REMARK 3 17 1.6598 - 1.6266 1.00 2662 144 0.1612 0.2041 REMARK 3 18 1.6266 - 1.5959 1.00 2628 125 0.1716 0.1811 REMARK 3 19 1.5959 - 1.5674 1.00 2700 140 0.1693 0.1827 REMARK 3 20 1.5674 - 1.5409 1.00 2611 166 0.1701 0.1884 REMARK 3 21 1.5409 - 1.5160 1.00 2617 149 0.1780 0.2307 REMARK 3 22 1.5160 - 1.4927 0.96 2605 114 0.1811 0.2053 REMARK 3 23 1.4927 - 1.4707 0.94 2494 105 0.2200 0.2776 REMARK 3 24 1.4707 - 1.4500 0.89 2365 125 0.2105 0.2191 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) : 0.130 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 17.290 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 : 0.009 2662 REMARK 3 ANGLE : 1.291 3622 REMARK 3 CHIRALITY : 0.047 416 REMARK 3 PLANARITY : 0.006 477 REMARK 3 DIHEDRAL : 11.916 969 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 3 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 1 THROUGH 128 ) REMARK 3 ORIGIN FOR THE GROUP (A): 4.8400 -16.9141 -0.6354 REMARK 3 T TENSOR REMARK 3 T11: 0.0745 T22: 0.0737 REMARK 3 T33: 0.0887 T12: 0.0080 REMARK 3 T13: -0.0172 T23: -0.0029 REMARK 3 L TENSOR REMARK 3 L11: 0.3433 L22: 0.2215 REMARK 3 L33: 0.4976 L12: 0.1786 REMARK 3 L13: 0.4862 L23: 0.2315 REMARK 3 S TENSOR REMARK 3 S11: 0.0824 S12: 0.0497 S13: -0.0515 REMARK 3 S21: 0.0707 S22: 0.0161 S23: -0.0555 REMARK 3 S31: 0.0907 S32: 0.0116 S33: 0.0753 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 129 THROUGH 232 ) REMARK 3 ORIGIN FOR THE GROUP (A): -27.4777 -26.7010 -12.2493 REMARK 3 T TENSOR REMARK 3 T11: 0.0488 T22: 0.1321 REMARK 3 T33: 0.0893 T12: 0.0249 REMARK 3 T13: -0.0024 T23: 0.0160 REMARK 3 L TENSOR REMARK 3 L11: 0.3414 L22: 0.0369 REMARK 3 L33: 0.4032 L12: 0.0480 REMARK 3 L13: -0.3863 L23: 0.2100 REMARK 3 S TENSOR REMARK 3 S11: 0.0019 S12: 0.1423 S13: 0.0275 REMARK 3 S21: 0.0793 S22: -0.0046 S23: -0.0385 REMARK 3 S31: -0.0181 S32: -0.1532 S33: 0.0069 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 233 THROUGH 349 ) REMARK 3 ORIGIN FOR THE GROUP (A): -17.8616 -20.3075 -26.3209 REMARK 3 T TENSOR REMARK 3 T11: 0.0624 T22: 0.1191 REMARK 3 T33: 0.0761 T12: 0.0335 REMARK 3 T13: -0.0059 T23: 0.0154 REMARK 3 L TENSOR REMARK 3 L11: 0.1455 L22: 0.0352 REMARK 3 L33: 0.9092 L12: 0.3840 REMARK 3 L13: -0.2817 L23: -0.4000 REMARK 3 S TENSOR REMARK 3 S11: -0.0044 S12: 0.1096 S13: 0.0489 REMARK 3 S21: 0.0013 S22: 0.1257 S23: -0.0062 REMARK 3 S31: -0.1591 S32: -0.1633 S33: 0.0728 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 5CDV COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 09-JUL-15. REMARK 100 THE DEPOSITION ID IS D_1000211453. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 08-AUG-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.0 REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : RRCAT INDUS-2 REMARK 200 BEAMLINE : PX-BL21 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97947 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 67571 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.450 REMARK 200 RESOLUTION RANGE LOW (A) : 39.480 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.1 REMARK 200 DATA REDUNDANCY : 6.200 REMARK 200 R MERGE (I) : 0.04800 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 24.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.45 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.45 REMARK 200 COMPLETENESS FOR SHELL (%) : 90.3 REMARK 200 DATA REDUNDANCY IN SHELL : 3.30 REMARK 200 R MERGE FOR SHELL (I) : 0.18700 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 5.700 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: 3Q6D REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.95 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.51 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M HEPES PH 7.5, 0.8M NAH2PO4, 0.8M REMARK 280 KH2PO4, 10MM TRIS-CL PH 8.0, 100MM NACL, PH 5.0, MICROBATCH, REMARK 280 TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+3/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+3/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 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 101.39200 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 30.30950 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 30.30950 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 152.08800 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 30.30950 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 30.30950 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 50.69600 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 30.30950 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 30.30950 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 152.08800 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 30.30950 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 30.30950 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 50.69600 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 101.39200 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4730 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 27810 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -91.0 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 350 BIOMT1 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 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 A 851 LIES ON A SPECIAL POSITION. 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 A 85 CD NE CZ NH1 NH2 REMARK 470 HIS A 193 CG ND1 CD2 CE1 NE2 REMARK 470 GLU A 277 CG CD OE1 OE2 REMARK 470 ARG A 298 CD NE CZ NH1 NH2 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 801 O HOH A 834 2.12 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 SER A 35 52.56 -116.37 REMARK 500 TRP A 108 62.43 -119.56 REMARK 500 ARG A 117 -86.44 -102.03 REMARK 500 HIS A 193 -6.86 78.22 REMARK 500 HIS A 195 -115.13 -112.33 REMARK 500 LEU A 297 55.49 -107.51 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 A 401 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 210 OD1 REMARK 620 2 ASP A 221 OD1 100.9 REMARK 620 3 MET A 222 O 90.9 101.6 REMARK 620 4 THR A 223 OG1 87.3 170.4 73.1 REMARK 620 5 GLU A 328 OE1 174.4 80.5 94.1 91.8 REMARK 620 6 PO4 A 403 O1 87.2 93.8 164.6 91.5 87.3 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 402 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 221 O REMARK 620 2 GLU A 328 OE1 86.9 REMARK 620 3 ASP A 329 O 132.8 139.6 REMARK 620 N 1 2 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 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PO4 A 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PO4 A 404 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PO4 A 405 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PO4 A 406 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PO4 A 407 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5CDL RELATED DB: PDB REMARK 900 RELATED ID: 5CDE RELATED DB: PDB DBREF 5CDV A 2 349 UNP Q9RUY4 Q9RUY4_DEIRA 2 349 SEQADV 5CDV SER A 1 UNP Q9RUY4 EXPRESSION TAG SEQRES 1 A 349 SER SER LYS MET ASP GLN LEU ARG PRO VAL LEU GLY ARG SEQRES 2 A 349 ALA GLY VAL ASP ALA LEU TRP VAL SER ALA PRO ALA ASN SEQRES 3 A 349 VAL ARG TRP LEU SER GLY PHE THR SER ALA GLU ASP GLY SEQRES 4 A 349 LYS VAL LEU VAL SER PRO ASP GLY ALA THR LEU TYR THR SEQRES 5 A 349 ASP ALA ARG TYR THR VAL GLN ALA GLN GLU GLU SER SER SEQRES 6 A 349 LEU PRO GLN TYR ILE ALA ARG PRO PRO ALA THR TYR GLU SEQRES 7 A 349 HIS ALA ALA ASP THR VAL ARG GLY LEU ARG VAL GLY PHE SEQRES 8 A 349 GLU ALA GLU SER LEU THR VAL ALA GLU LEU GLU ASP LEU SEQRES 9 A 349 ARG GLN ALA TRP PRO ASN SER THR LEU VAL ALA LEU ARG SEQRES 10 A 349 GLY THR LEU GLY GLY LEU ARG ALA VAL LYS THR PRO GLU SEQRES 11 A 349 GLU ILE GLY ALA ILE ARG ALA ALA GLN ASP LEU ALA ASP SEQRES 12 A 349 ARG VAL TYR THR GLU VAL ARG PRO MET ILE ARG ALA GLY SEQRES 13 A 349 VAL ARG GLU LEU ASP VAL ALA VAL GLU ILE GLU THR ARG SEQRES 14 A 349 LEU ARG ARG ALA GLY GLY GLU SER ALA PHE GLU LEU ILE SEQRES 15 A 349 VAL ALA SER GLY PRO ASN GLY ALA LYS PRO HIS GLY HIS SEQRES 16 A 349 ALA SER LYS ARG VAL ILE GLU ASP GLY ASP LEU VAL THR SEQRES 17 A 349 ILE ASP MET GLY ALA ARG LEU GLY GLY TYR ASN SER ASP SEQRES 18 A 349 MET THR ARG THR VAL ALA VAL GLY THR PRO SER ALA GLU SEQRES 19 A 349 MET LYS ARG VAL TYR ASP ALA VAL LEU GLU ALA GLU GLU SEQRES 20 A 349 ALA ALA ILE ALA ALA ILE ARG PRO GLY VAL ARG ALA ALA SEQRES 21 A 349 ASP LEU ASP LYS LEU ALA ARG ASP LEU LEU THR ARG HIS SEQRES 22 A 349 GLY LEU GLY GLU ALA PHE ALA HIS SER LEU GLY HIS GLY SEQRES 23 A 349 VAL GLY LEU GLU VAL HIS GLU GLY PRO GLY LEU ARG GLY SEQRES 24 A 349 THR SER GLN ASP VAL LEU GLU ALA GLY MET VAL ILE THR SEQRES 25 A 349 ILE GLU PRO GLY ALA TYR LEU PRO GLY VAL GLY GLY VAL SEQRES 26 A 349 ARG ILE GLU ASP LEU ILE LEU VAL THR GLU ASP GLY TYR SEQRES 27 A 349 GLU VAL LEU SER HIS SER ALA LYS GLU SER VAL HET MN A 401 1 HET NA A 402 1 HET PO4 A 403 5 HET PO4 A 404 5 HET PO4 A 405 5 HET PO4 A 406 5 HET PO4 A 407 5 HETNAM MN MANGANESE (II) ION HETNAM NA SODIUM ION HETNAM PO4 PHOSPHATE ION FORMUL 2 MN MN 2+ FORMUL 3 NA NA 1+ FORMUL 4 PO4 5(O4 P 3-) FORMUL 9 HOH *371(H2 O) HELIX 1 AA1 SER A 2 ALA A 14 1 13 HELIX 2 AA2 ALA A 23 GLY A 32 1 10 HELIX 3 AA3 SER A 35 GLU A 37 5 3 HELIX 4 AA4 TYR A 56 SER A 64 1 9 HELIX 5 AA5 PRO A 74 ALA A 81 1 8 HELIX 6 AA6 ASP A 82 ARG A 85 5 4 HELIX 7 AA7 THR A 97 TRP A 108 1 12 HELIX 8 AA8 THR A 128 ARG A 150 1 23 HELIX 9 AA9 PRO A 151 ILE A 153 5 3 HELIX 10 AB1 ARG A 158 ALA A 173 1 16 HELIX 11 AB2 PRO A 187 LYS A 191 5 5 HELIX 12 AB3 SER A 232 ALA A 252 1 21 HELIX 13 AB4 ARG A 258 HIS A 273 1 16 SHEET 1 AA1 6 GLN A 68 ILE A 70 0 SHEET 2 AA1 6 GLY A 47 THR A 52 1 N LEU A 50 O TYR A 69 SHEET 3 AA1 6 GLY A 39 SER A 44 -1 N LYS A 40 O TYR A 51 SHEET 4 AA1 6 ALA A 18 VAL A 21 -1 N VAL A 21 O VAL A 41 SHEET 5 AA1 6 ARG A 88 GLU A 92 1 O GLY A 90 N ALA A 18 SHEET 6 AA1 6 THR A 112 LEU A 116 1 O THR A 112 N VAL A 89 SHEET 1 AA2 3 GLU A 176 SER A 177 0 SHEET 2 AA2 3 ALA A 213 LEU A 215 -1 O ARG A 214 N GLU A 176 SHEET 3 AA2 3 TYR A 218 ASN A 219 -1 O TYR A 218 N LEU A 215 SHEET 1 AA3 3 ILE A 182 SER A 185 0 SHEET 2 AA3 3 LEU A 206 MET A 211 -1 O THR A 208 N ALA A 184 SHEET 3 AA3 3 MET A 222 ALA A 227 -1 O ARG A 224 N ILE A 209 SHEET 1 AA4 2 SER A 282 GLY A 286 0 SHEET 2 AA4 2 GLU A 293 ARG A 298 -1 O LEU A 297 N LEU A 283 SHEET 1 AA5 3 VAL A 310 ILE A 313 0 SHEET 2 AA5 3 ASP A 329 THR A 334 -1 O ILE A 331 N ILE A 311 SHEET 3 AA5 3 GLY A 337 VAL A 340 -1 O GLU A 339 N LEU A 332 SHEET 1 AA6 2 GLY A 316 LEU A 319 0 SHEET 2 AA6 2 GLY A 323 ARG A 326 -1 O GLY A 323 N LEU A 319 LINK OD1 ASP A 210 MN MN A 401 1555 1555 2.29 LINK OD1 ASP A 221 MN MN A 401 1555 1555 2.34 LINK O ASP A 221 NA NA A 402 1555 1555 2.35 LINK O MET A 222 MN MN A 401 1555 1555 2.58 LINK OG1 THR A 223 MN MN A 401 1555 1555 2.50 LINK OE1 GLU A 328 MN MN A 401 1555 1555 2.27 LINK OE1 GLU A 328 NA NA A 402 1555 1555 2.74 LINK O ASP A 329 NA NA A 402 1555 1555 3.00 LINK MN MN A 401 O1 PO4 A 403 1555 1555 2.39 CISPEP 1 PRO A 73 PRO A 74 0 5.95 CISPEP 2 GLY A 294 PRO A 295 0 0.35 SITE 1 AC1 6 ASP A 210 ASP A 221 MET A 222 THR A 223 SITE 2 AC1 6 GLU A 328 PO4 A 403 SITE 1 AC2 6 ASP A 221 MET A 222 THR A 312 GLU A 328 SITE 2 AC2 6 ASP A 329 LEU A 330 SITE 1 AC3 9 ASP A 210 ASP A 221 THR A 223 HIS A 285 SITE 2 AC3 9 HIS A 292 GLU A 314 GLU A 328 MN A 401 SITE 3 AC3 9 HOH A 605 SITE 1 AC4 11 GLY A 121 GLY A 122 ARG A 124 GLU A 290 SITE 2 AC4 11 GLU A 293 GLY A 294 PO4 A 405 HOH A 536 SITE 3 AC4 11 HOH A 543 HOH A 546 HOH A 683 SITE 1 AC5 10 ASN A 26 GLU A 92 GLU A 94 LEU A 120 SITE 2 AC5 10 PO4 A 404 HOH A 536 HOH A 586 HOH A 653 SITE 3 AC5 10 HOH A 658 HOH A 691 SITE 1 AC6 4 PHE A 91 GLU A 102 ARG A 105 HOH A 730 SITE 1 AC7 5 ARG A 28 GLY A 216 GLY A 217 HOH A 502 SITE 2 AC7 5 HOH A 703 CRYST1 60.619 60.619 202.784 90.00 90.00 90.00 P 43 21 2 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 0.016496 0.000000 0.000000 0.00000 SCALE2 0.000000 0.016496 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004931 0.00000