HEADER HYDROLASE 06-APR-17 5XEV TITLE CRYSTAL STRUCTURE OF A NOVEL XAA-PRO DIPEPTIDASE FROM DEINOCOCCUS TITLE 2 RADIODURANS COMPND MOL_ID: 1; COMPND 2 MOLECULE: XAA-PRO DIPEPTIDASE,PEPTIDASE-RELATED PROTEIN; COMPND 3 CHAIN: A; COMPND 4 EC: 3.4.13.9; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: DEINOCOCCUS RADIODURANS R1; SOURCE 3 ORGANISM_TAXID: 243230; SOURCE 4 STRAIN: ATCC 13939 / DSM 20539 / JCM 16871 / LMG 4051 / NBRC 15346 / SOURCE 5 NCIMB 9279 / R1 / VKM B-1422; SOURCE 6 GENE: DR_0478; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)PLYSS; SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: PST50STRHIS KEYWDS XAA-PRO DIPEPTIDASE, PROLIDASE, M28B PEPTIDASE, DEINOCOCCUS KEYWDS 2 RADIODURANS, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR V.N.ARE,A.KUMAR,B.GHOSH,R.D.MAKDE REVDAT 3 27-MAR-24 5XEV 1 LINK REVDAT 2 29-NOV-17 5XEV 1 JRNL REVDAT 1 18-OCT-17 5XEV 0 JRNL AUTH V.N.ARE,S.N.JAMDAR,B.GHOSH,V.D.GOYAL,A.KUMAR,S.NEEMA, JRNL AUTH 2 R.GADRE,R.D.MAKDE JRNL TITL CRYSTAL STRUCTURE OF A NOVEL PROLIDASE FROM DEINOCOCCUS JRNL TITL 2 RADIODURANS IDENTIFIES NEW SUBFAMILY OF BACTERIAL JRNL TITL 3 PROLIDASES. JRNL REF PROTEINS V. 85 2239 2017 JRNL REFN ESSN 1097-0134 JRNL PMID 28929533 JRNL DOI 10.1002/PROT.25389 REMARK 2 REMARK 2 RESOLUTION. 1.40 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.10_2152) 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) : 1.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 31.96 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 85413 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.147 REMARK 3 R VALUE (WORKING SET) : 0.146 REMARK 3 FREE R VALUE : 0.164 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.840 REMARK 3 FREE R VALUE TEST SET COUNT : 4130 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 31.9631 - 4.3466 1.00 2766 149 0.1397 0.1472 REMARK 3 2 4.3466 - 3.4514 1.00 2739 129 0.1331 0.1521 REMARK 3 3 3.4514 - 3.0155 0.99 2723 142 0.1437 0.1594 REMARK 3 4 3.0155 - 2.7399 1.00 2723 128 0.1426 0.1581 REMARK 3 5 2.7399 - 2.5436 1.00 2694 151 0.1360 0.1425 REMARK 3 6 2.5436 - 2.3937 1.00 2697 144 0.1356 0.1492 REMARK 3 7 2.3937 - 2.2739 1.00 2729 144 0.1296 0.1451 REMARK 3 8 2.2739 - 2.1749 1.00 2722 136 0.1348 0.1542 REMARK 3 9 2.1749 - 2.0912 1.00 2706 135 0.1342 0.1668 REMARK 3 10 2.0912 - 2.0190 1.00 2747 124 0.1425 0.1963 REMARK 3 11 2.0190 - 1.9559 1.00 2710 121 0.1456 0.1483 REMARK 3 12 1.9559 - 1.9000 1.00 2728 132 0.1438 0.1588 REMARK 3 13 1.9000 - 1.8500 1.00 2715 130 0.1463 0.1713 REMARK 3 14 1.8500 - 1.8049 1.00 2714 128 0.1435 0.1662 REMARK 3 15 1.8049 - 1.7638 1.00 2732 134 0.1452 0.1458 REMARK 3 16 1.7638 - 1.7263 1.00 2653 156 0.1496 0.1686 REMARK 3 17 1.7263 - 1.6918 1.00 2717 135 0.1521 0.1683 REMARK 3 18 1.6918 - 1.6599 1.00 2707 161 0.1489 0.1729 REMARK 3 19 1.6599 - 1.6302 1.00 2705 150 0.1594 0.1759 REMARK 3 20 1.6302 - 1.6026 1.00 2692 140 0.1668 0.1896 REMARK 3 21 1.6026 - 1.5767 1.00 2685 137 0.1653 0.1956 REMARK 3 22 1.5767 - 1.5525 1.00 2730 126 0.1724 0.1739 REMARK 3 23 1.5525 - 1.5296 1.00 2692 139 0.1765 0.1989 REMARK 3 24 1.5296 - 1.5081 1.00 2707 135 0.1766 0.1939 REMARK 3 25 1.5081 - 1.4877 1.00 2733 129 0.1841 0.1908 REMARK 3 26 1.4877 - 1.4684 1.00 2683 135 0.1886 0.2191 REMARK 3 27 1.4684 - 1.4500 1.00 2680 147 0.2001 0.2064 REMARK 3 28 1.4500 - 1.4326 1.00 2716 135 0.2063 0.2350 REMARK 3 29 1.4326 - 1.4159 1.00 2634 143 0.2263 0.2739 REMARK 3 30 1.4159 - 1.4000 0.99 2704 135 0.2421 0.2940 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) : 0.120 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 15.770 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 3270 REMARK 3 ANGLE : 0.918 4468 REMARK 3 CHIRALITY : 0.072 477 REMARK 3 PLANARITY : 0.006 602 REMARK 3 DIHEDRAL : 14.183 1154 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 1 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: ALL REMARK 3 ORIGIN FOR THE GROUP (A): -21.9916 -21.9256 1.6981 REMARK 3 T TENSOR REMARK 3 T11: 0.1305 T22: 0.1087 REMARK 3 T33: 0.1270 T12: -0.0015 REMARK 3 T13: -0.0137 T23: 0.0008 REMARK 3 L TENSOR REMARK 3 L11: 0.6741 L22: 0.2732 REMARK 3 L33: 0.4129 L12: 0.3797 REMARK 3 L13: -0.3392 L23: -0.2199 REMARK 3 S TENSOR REMARK 3 S11: 0.0048 S12: -0.0140 S13: -0.0123 REMARK 3 S21: -0.0044 S22: -0.0079 S23: 0.0044 REMARK 3 S31: 0.0286 S32: -0.0223 S33: 0.0110 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 5XEV COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 13-APR-17. REMARK 100 THE DEPOSITION ID IS D_1300003409. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 29-DEC-16 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4.5-5.8 REMARK 200 NUMBER OF CRYSTALS USED : 1 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 : SI111 REMARK 200 OPTICS : MIRRORS 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 : 85429 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.400 REMARK 200 RESOLUTION RANGE LOW (A) : 45.940 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 6.700 REMARK 200 R MERGE (I) : 0.06600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 15.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.40 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.42 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.4 REMARK 200 DATA REDUNDANCY IN SHELL : 6.60 REMARK 200 R MERGE FOR SHELL (I) : 0.78900 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.300 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AUTOSOL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 49.72 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.45 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 40 MM KH2PO4, 10MM AMMONIUM CITRATE, REMARK 280 PH 4.8, 3 MM PHENYLALANINE, 1 MM MNCL2, 10 MM ZNCL2, 16% PEG8000, REMARK 280 20% GLYCEROL, MICROBATCH, TEMPERATURE 294K 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 45.33500 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 45.93950 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 45.33500 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 45.93950 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3670 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 31360 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -29.0 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 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 1.000000 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 763 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 866 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 882 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 969 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 GLY A 1 REMARK 465 ALA A 364 REMARK 465 SER A 365 REMARK 465 PRO A 366 REMARK 465 SER A 367 REMARK 465 GLY A 368 REMARK 465 GLN A 369 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 34 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 72 CG CD NE CZ NH1 NH2 REMARK 470 GLN A 226 CG CD OE1 NE2 REMARK 470 ARG A 227 CG 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 637 O HOH A 950 1.99 REMARK 500 O HOH A 894 O HOH A 905 2.06 REMARK 500 O HOH A 837 O HOH A 917 2.09 REMARK 500 O HOH A 620 O HOH A 937 2.11 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 850 O HOH A 932 4455 1.86 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 GLN A 26 -125.37 53.32 REMARK 500 HIS A 220 37.65 -97.55 REMARK 500 ASP A 252 112.28 -160.36 REMARK 500 PHE A 317 70.72 -111.09 REMARK 500 LEU A 318 55.76 -97.50 REMARK 500 TYR A 339 -70.52 -105.21 REMARK 500 GLU A 356 55.48 -145.15 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 PHE A 250 ALA A 251 149.18 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 A1017 DISTANCE = 5.86 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 502 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 240 OD1 REMARK 620 2 ASP A 252 OD1 106.8 REMARK 620 3 GLU A 377 OE1 108.1 98.7 REMARK 620 4 PO4 A 503 O1 130.2 104.1 104.7 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 501 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 252 OD2 REMARK 620 2 HIS A 323 NE2 92.8 REMARK 620 3 GLU A 356 OE2 160.8 85.9 REMARK 620 4 GLU A 377 OE2 86.6 129.9 79.7 REMARK 620 5 PO4 A 503 O1 94.9 130.4 100.5 99.5 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 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ZN A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PO4 A 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT A 504 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 505 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 506 REMARK 999 REMARK 999 SEQUENCE REMARK 999 THIS PROTEIN CORRESPONDS TO DATABASE(UNIPARC:UPI0002D66B97,GENBANK: REMARK 999 ANC72273). DBREF 5XEV A 1 104 PDB 5XEV 5XEV 1 104 DBREF 5XEV A 105 416 UNP Q9RX37 Q9RX37_DEIRA 1 312 SEQRES 1 A 416 GLY SER THR PRO ILE PRO ALA MET GLN ALA ALA LEU ALA SEQRES 2 A 416 ALA THR ASP LEU ASP GLY TRP LEU VAL TYR ASP PHE GLN SEQRES 3 A 416 GLY LEU ASN PRO HIS ALA ARG ARG VAL LEU GLY ILE GLY SEQRES 4 A 416 ASP ASP VAL PHE LEU THR ARG ARG PHE PHE VAL TRP VAL SEQRES 5 A 416 PRO ARG ALA GLY ARG ALA VAL VAL LEU HIS ASN HIS ILE SEQRES 6 A 416 GLU GLY GLY ASN TRP ASN ARG ILE THR GLN GLU TRP ASP SEQRES 7 A 416 ALA GLU LEU ARG PRO PHE GLY SER HIS ALA GLU LEU ASP SEQRES 8 A 416 ALA ALA LEU ARG GLY VAL VAL SER GLY GLN ARG LEU ALA SEQRES 9 A 416 MET GLU TYR SER PRO ASN GLY ALA VAL PRO TYR VAL SER SEQRES 10 A 416 ARG VAL ASP ALA GLY THR LEU GLU ARG VAL ARG GLY ALA SEQRES 11 A 416 GLY ALA ALA GLU VAL ALA SER SER ALA ASP LEU LEU GLN SEQRES 12 A 416 ALA PHE LEU VAL TRP THR PRO ASP ASP LEU ALA ALA HIS SEQRES 13 A 416 ARG ARG ALA ALA ALA LEU LEU MET ARG ALA LYS ASP ASP SEQRES 14 A 416 ALA PHE ARG LEU ILE HIS ASP ARG LEU ARG ALA GLY GLN SEQRES 15 A 416 SER VAL THR GLU TRP GLU VAL GLN GLN LEU ILE MET ASP SEQRES 16 A 416 GLN ILE ARG ALA ALA GLY MET GLN ALA GLY HIS ASP VAL SEQRES 17 A 416 ASN VAL SER PHE GLY VAL ASN ALA ALA ASP SER HIS TYR SEQRES 18 A 416 GLU PRO SER GLU GLN ARG SER ALA THR LEU HIS PRO GLY SEQRES 19 A 416 GLU CYS VAL LEU ILE ASP LEU TRP ALA GLN GLU PRO GLY SEQRES 20 A 416 ARG PRO PHE ALA ASP VAL THR TRP VAL GLY PHE ALA GLY SEQRES 21 A 416 GLU PRO GLY THR GLU TYR LEU ASP ALA TRP GLN ALA VAL SEQRES 22 A 416 ARG ALA ALA ARG GLU ALA ALA LEU GLU LEU LEU ARG SER SEQRES 23 A 416 ARG PHE VAL ALA GLU GLY TYR GLY ARG LEU GLN GLY TRP SEQRES 24 A 416 GLU LEU ASP ARG ALA ALA ARG ASP ALA MET GLY GLU ARG SEQRES 25 A 416 TRP ALA PRO HIS PHE LEU HIS ARG THR GLY HIS ASP LEU SEQRES 26 A 416 GLY VAL GLN ILE HIS GLY ALA GLY ALA ASN LEU ASP ASP SEQRES 27 A 416 TYR GLU THR ARG ASP THR ARG THR LEU THR PRO GLY LEU SEQRES 28 A 416 SER VAL THR VAL GLU PRO GLY THR TYR PRO ALA ALA ALA SEQRES 29 A 416 SER PRO SER GLY GLN GLY GLY PHE GLY ILE ARG SER GLU SEQRES 30 A 416 VAL ASP VAL TYR LEU ALA PRO ASP GLY PRO GLU VAL THR SEQRES 31 A 416 THR ASP LEU GLN GLN ALA PRO PHE ILE LEU GLY VAL GLY SEQRES 32 A 416 ASP TRP ASP ALA VAL ARG ALA ALA GLY TYR GLY GLU GLN HET ZN A 501 1 HET ZN A 502 1 HET PO4 A 503 5 HET ACT A 504 7 HET CL A 505 1 HET EDO A 506 10 HETNAM ZN ZINC ION HETNAM PO4 PHOSPHATE ION HETNAM ACT ACETATE ION HETNAM CL CHLORIDE ION HETNAM EDO 1,2-ETHANEDIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 2 ZN 2(ZN 2+) FORMUL 4 PO4 O4 P 3- FORMUL 5 ACT C2 H3 O2 1- FORMUL 6 CL CL 1- FORMUL 7 EDO C2 H6 O2 FORMUL 8 HOH *417(H2 O) HELIX 1 AA1 PRO A 4 ALA A 14 1 11 HELIX 2 AA2 ASN A 29 GLY A 37 1 9 HELIX 3 AA3 GLU A 66 THR A 74 1 9 HELIX 4 AA4 SER A 86 SER A 99 1 14 HELIX 5 AA5 SER A 108 ALA A 112 5 5 HELIX 6 AA6 ASP A 120 ALA A 130 1 11 HELIX 7 AA7 SER A 138 ALA A 144 1 7 HELIX 8 AA8 PHE A 145 VAL A 147 5 3 HELIX 9 AA9 THR A 149 GLY A 181 1 33 HELIX 10 AB1 THR A 185 ALA A 200 1 16 HELIX 11 AB2 VAL A 214 ASP A 218 5 5 HELIX 12 AB3 GLY A 263 GLY A 292 1 30 HELIX 13 AB4 GLN A 297 ALA A 314 1 18 HELIX 14 AB5 PRO A 315 PHE A 317 5 3 HELIX 15 AB6 ASP A 404 GLY A 414 1 11 SHEET 1 AA1 6 GLU A 80 PHE A 84 0 SHEET 2 AA1 6 VAL A 59 ASN A 63 1 N VAL A 60 O ARG A 82 SHEET 3 AA1 6 PHE A 48 PRO A 53 -1 N TRP A 51 O VAL A 59 SHEET 4 AA1 6 GLY A 19 ASP A 24 -1 N VAL A 22 O VAL A 50 SHEET 5 AA1 6 ARG A 102 MET A 105 1 O ALA A 104 N LEU A 21 SHEET 6 AA1 6 GLU A 134 SER A 137 1 O ALA A 136 N LEU A 103 SHEET 1 AA2 4 ASN A 209 PHE A 212 0 SHEET 2 AA2 4 CYS A 236 ALA A 243 -1 O LEU A 238 N SER A 211 SHEET 3 AA2 4 ALA A 251 ALA A 259 -1 O GLY A 257 N VAL A 237 SHEET 4 AA2 4 PHE A 398 LEU A 400 1 O LEU A 400 N PHE A 258 SHEET 1 AA3 3 SER A 352 VAL A 355 0 SHEET 2 AA3 3 VAL A 378 ALA A 383 -1 O VAL A 380 N VAL A 353 SHEET 3 AA3 3 GLY A 386 VAL A 389 -1 O GLU A 388 N TYR A 381 SHEET 1 AA4 2 GLY A 358 THR A 359 0 SHEET 2 AA4 2 ILE A 374 ARG A 375 -1 O ILE A 374 N THR A 359 LINK OD1 ASP A 240 ZN ZN A 502 1555 1555 1.96 LINK OD2 ASP A 252 ZN ZN A 501 1555 1555 2.10 LINK OD1 ASP A 252 ZN ZN A 502 1555 1555 2.02 LINK NE2 HIS A 323 ZN ZN A 501 1555 1555 2.01 LINK OE2 GLU A 356 ZN ZN A 501 1555 1555 2.25 LINK OE2 GLU A 377 ZN ZN A 501 1555 1555 2.07 LINK OE1 GLU A 377 ZN ZN A 502 1555 1555 2.00 LINK ZN ZN A 501 O1 PO4 A 503 1555 1555 2.00 LINK ZN ZN A 502 O1 PO4 A 503 1555 1555 2.00 SITE 1 AC1 6 ASP A 252 HIS A 323 GLU A 356 GLU A 377 SITE 2 AC1 6 ZN A 502 PO4 A 503 SITE 1 AC2 6 ASP A 240 ASP A 252 THR A 254 GLU A 377 SITE 2 AC2 6 ZN A 501 PO4 A 503 SITE 1 AC3 11 ASP A 240 ASP A 252 HIS A 323 HIS A 330 SITE 2 AC3 11 GLU A 356 GLU A 377 ZN A 501 ZN A 502 SITE 3 AC3 11 HOH A 618 HOH A 647 HOH A 742 SITE 1 AC4 5 THR A 149 ASP A 151 ARG A 248 HOH A 725 SITE 2 AC4 5 HOH A 816 SITE 1 AC5 3 ARG A 46 ARG A 47 HOH A 960 SITE 1 AC6 5 ARG A 172 HIS A 175 ASP A 176 ASP A 404 SITE 2 AC6 5 TRP A 405 CRYST1 90.670 91.879 53.849 90.00 98.78 90.00 C 1 2 1 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 0.011029 0.000000 0.001704 0.00000 SCALE2 0.000000 0.010884 0.000000 0.00000 SCALE3 0.000000 0.000000 0.018791 0.00000