HEADER HYDROLASE 13-MAY-16 5JY0 TITLE CRYSTAL STRUCTURE OF PORPHYROMONAS ENDODONTALIS DPP11 IN COMPLEX WITH TITLE 2 SUBSTRATE COMPND MOL_ID: 1; COMPND 2 MOLECULE: ASP/GLU-SPECIFIC DIPEPTIDYL-PEPTIDASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: DIPEPTIDYL-PEPTIDASE 11,DPP11; COMPND 5 EC: 3.4.14.-; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: LEU-ASP-VAL; COMPND 9 CHAIN: B; COMPND 10 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PORPHYROMONAS ENDODONTALIS; SOURCE 3 ORGANISM_TAXID: 28124; SOURCE 4 GENE: DPP11, PEDPP11; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 MOL_ID: 2; SOURCE 8 SYNTHETIC: YES; SOURCE 9 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 10 ORGANISM_TAXID: 32630 KEYWDS PEPTIDASE, BACTERIAL ENZYME, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR G.A.BEZERRA,I.CORNACIU,G.HOFFMANN,K.DJINOVIC-CARUGO,J.A.MARQUEZ REVDAT 2 21-JUN-17 5JY0 1 JRNL REVDAT 1 14-JUN-17 5JY0 0 JRNL AUTH G.A.BEZERRA,Y.OHARA-NEMOTO,I.CORNACIU,S.FEDOSYUK,G.HOFFMANN, JRNL AUTH 2 A.ROUND,J.A.MARQUEZ,T.K.NEMOTO,K.DJINOVIC-CARUGO JRNL TITL BACTERIAL PROTEASE USES DISTINCT THERMODYNAMIC SIGNATURES JRNL TITL 2 FOR SUBSTRATE RECOGNITION. JRNL REF SCI REP V. 7 2848 2017 JRNL REFN ESSN 2045-2322 JRNL PMID 28588213 JRNL DOI 10.1038/S41598-017-03220-Y REMARK 2 REMARK 2 RESOLUTION. 2.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 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) : 2.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 43.58 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.330 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.1 REMARK 3 NUMBER OF REFLECTIONS : 31977 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.219 REMARK 3 R VALUE (WORKING SET) : 0.217 REMARK 3 FREE R VALUE : 0.248 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.070 REMARK 3 FREE R VALUE TEST SET COUNT : 1622 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 43.5902 - 5.9449 1.00 2599 131 0.1526 0.2129 REMARK 3 2 5.9449 - 4.7204 1.00 2564 136 0.1789 0.1727 REMARK 3 3 4.7204 - 4.1243 1.00 2567 132 0.1664 0.1889 REMARK 3 4 4.1243 - 3.7474 1.00 2511 157 0.1970 0.2124 REMARK 3 5 3.7474 - 3.4789 1.00 2540 140 0.2272 0.2458 REMARK 3 6 3.4789 - 3.2739 1.00 2533 126 0.2487 0.2953 REMARK 3 7 3.2739 - 3.1100 1.00 2552 123 0.2774 0.3561 REMARK 3 8 3.1100 - 2.9746 1.00 2557 121 0.3032 0.3495 REMARK 3 9 2.9746 - 2.8601 1.00 2536 129 0.2995 0.3368 REMARK 3 10 2.8601 - 2.7615 1.00 2501 149 0.3066 0.3514 REMARK 3 11 2.7615 - 2.6751 1.00 2554 148 0.3212 0.3638 REMARK 3 12 2.6751 - 2.5987 0.92 2341 130 0.3421 0.3850 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) : 0.410 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 29.550 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 52.98 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 51.98 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 : 0.014 5553 REMARK 3 ANGLE : 1.119 7503 REMARK 3 CHIRALITY : 0.058 789 REMARK 3 PLANARITY : 0.005 985 REMARK 3 DIHEDRAL : 15.243 2067 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 4 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 22 THROUGH 273 ) REMARK 3 ORIGIN FOR THE GROUP (A): 27.2414 -3.4016 21.9234 REMARK 3 T TENSOR REMARK 3 T11: 0.2853 T22: 0.4155 REMARK 3 T33: 0.3879 T12: -0.0021 REMARK 3 T13: -0.0611 T23: 0.0249 REMARK 3 L TENSOR REMARK 3 L11: 1.8981 L22: 1.1200 REMARK 3 L33: 3.6817 L12: 0.1456 REMARK 3 L13: 0.0215 L23: 0.1912 REMARK 3 S TENSOR REMARK 3 S11: 0.1249 S12: -0.3945 S13: -0.2101 REMARK 3 S21: 0.2268 S22: -0.0224 S23: -0.3766 REMARK 3 S31: 0.0852 S32: 0.7195 S33: -0.0907 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 274 THROUGH 422 ) REMARK 3 ORIGIN FOR THE GROUP (A): 7.6663 12.2490 25.0119 REMARK 3 T TENSOR REMARK 3 T11: 0.4598 T22: 0.4890 REMARK 3 T33: 0.4946 T12: 0.0207 REMARK 3 T13: -0.0001 T23: -0.0400 REMARK 3 L TENSOR REMARK 3 L11: 3.2577 L22: 3.4118 REMARK 3 L33: 3.1856 L12: 1.3741 REMARK 3 L13: -0.4579 L23: -0.8083 REMARK 3 S TENSOR REMARK 3 S11: 0.0058 S12: 0.1215 S13: 0.3870 REMARK 3 S21: -0.1077 S22: 0.2027 S23: 0.3924 REMARK 3 S31: -0.2057 S32: -0.6029 S33: -0.2072 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 423 THROUGH 717 ) REMARK 3 ORIGIN FOR THE GROUP (A): 17.6474 8.8829 15.1673 REMARK 3 T TENSOR REMARK 3 T11: 0.1959 T22: 0.2897 REMARK 3 T33: 0.2652 T12: 0.0146 REMARK 3 T13: -0.0280 T23: 0.0384 REMARK 3 L TENSOR REMARK 3 L11: 1.1338 L22: 1.8529 REMARK 3 L33: 1.4848 L12: 0.1451 REMARK 3 L13: 0.0496 L23: 0.6578 REMARK 3 S TENSOR REMARK 3 S11: 0.0637 S12: -0.0612 S13: 0.0854 REMARK 3 S21: -0.0442 S22: -0.0213 S23: -0.1618 REMARK 3 S31: -0.1491 S32: -0.0032 S33: -0.0334 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 1 THROUGH 3 ) REMARK 3 ORIGIN FOR THE GROUP (A): 16.0566 3.2955 14.8519 REMARK 3 T TENSOR REMARK 3 T11: 0.5975 T22: 0.3526 REMARK 3 T33: 0.5524 T12: -0.1803 REMARK 3 T13: 0.0200 T23: 0.0281 REMARK 3 L TENSOR REMARK 3 L11: 2.0000 L22: 1.9996 REMARK 3 L33: 5.4377 L12: 1.9997 REMARK 3 L13: -8.0522 L23: -9.1840 REMARK 3 S TENSOR REMARK 3 S11: 0.1110 S12: 0.5831 S13: 1.5709 REMARK 3 S21: 0.0659 S22: 1.0423 S23: -0.6704 REMARK 3 S31: -0.8786 S32: -0.2600 S33: -1.1365 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 5JY0 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 14-MAY-16. REMARK 100 THE DEPOSITION ID IS D_1000221405. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 10-SEP-15 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 : ESRF REMARK 200 BEAMLINE : MASSIF-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.966 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 2M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : SCALA 3.3.20 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 32005 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.599 REMARK 200 RESOLUTION RANGE LOW (A) : 106.775 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 200 DATA REDUNDANCY : 3.400 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.13000 REMARK 200 FOR THE DATA SET : 7.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.74 REMARK 200 COMPLETENESS FOR SHELL (%) : 95.9 REMARK 200 DATA REDUNDANCY IN SHELL : 3.50 REMARK 200 R MERGE FOR SHELL (I) : 1.21100 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 0.600 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: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 62.91 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.32 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M TRIS-HCL PH 7.5, 15% PEG 6000, REMARK 280 VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K 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 43.89350 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 56.66550 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 43.89350 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 56.66550 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: 1320 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 28510 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 8.0 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 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 942 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 21 REMARK 465 ASP A 316 REMARK 465 PRO A 317 REMARK 465 LYS A 318 REMARK 465 ASN A 442 REMARK 465 LYS A 443 REMARK 465 ASP A 444 REMARK 465 TYR A 445 REMARK 465 SER A 446 REMARK 465 PRO A 447 REMARK 465 GLU A 448 REMARK 465 VAL A 449 REMARK 465 GLU A 450 REMARK 465 HIS A 718 REMARK 465 HIS A 719 REMARK 465 HIS A 720 REMARK 465 HIS A 721 REMARK 465 HIS A 722 REMARK 465 HIS A 723 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 141 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 143 CG CD CE NZ REMARK 470 LYS A 144 CG CD CE NZ REMARK 470 LYS A 166 CG CD CE NZ REMARK 470 LYS A 167 CG CD CE NZ REMARK 470 SER A 170 OG REMARK 470 ARG A 171 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 236 CG CD CE NZ REMARK 470 LEU A 310 CG CD1 CD2 REMARK 470 ILE A 321 CG1 CG2 CD1 REMARK 470 GLN A 453 CD OE1 NE2 REMARK 470 LYS A 509 CD CE NZ REMARK 470 GLU A 611 O REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 VAL B 3 C O 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 ASN A 640 O HOH A 901 2.13 REMARK 500 OD2 ASP A 214 NE2 GLN A 331 2.13 REMARK 500 OD1 ASP A 307 NH1 ARG A 311 2.14 REMARK 500 O THR A 277 N TRS A 801 2.16 REMARK 500 OE2 GLU A 114 NH2 ARG A 708 2.17 REMARK 500 OG SER A 474 OH TYR A 488 2.19 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 PRO A 118 C - N - CA ANGL. DEV. = 11.1 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 HIS A 99 -77.52 -81.71 REMARK 500 LYS A 144 70.67 51.70 REMARK 500 SER A 170 -95.63 -125.99 REMARK 500 ARG A 171 116.47 -39.49 REMARK 500 PRO A 240 147.01 -37.77 REMARK 500 ILE A 293 -80.15 -104.25 REMARK 500 ASP A 307 -72.71 -76.20 REMARK 500 ARG A 311 -9.67 -59.36 REMARK 500 ILE A 400 -54.38 -122.38 REMARK 500 PRO A 423 -27.41 -38.68 REMARK 500 ASN A 571 41.90 -153.07 REMARK 500 VAL A 589 -18.57 80.83 REMARK 500 VAL A 639 -66.66 -125.20 REMARK 500 PHE A 668 -14.46 -149.70 REMARK 500 ASP A 701 -72.13 -63.99 REMARK 500 GLN A 714 70.03 51.05 REMARK 500 ASP B 2 37.34 -92.68 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue TRS A 801 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue TRS A 802 DBREF 5JY0 A 22 717 UNP F8WQK8 DPP11_POREA 22 717 DBREF 5JY0 B 1 3 PDB 5JY0 5JY0 1 3 SEQADV 5JY0 MET A 21 UNP F8WQK8 INITIATING METHIONINE SEQADV 5JY0 ALA A 652 UNP F8WQK8 SER 652 ENGINEERED MUTATION SEQADV 5JY0 HIS A 718 UNP F8WQK8 EXPRESSION TAG SEQADV 5JY0 HIS A 719 UNP F8WQK8 EXPRESSION TAG SEQADV 5JY0 HIS A 720 UNP F8WQK8 EXPRESSION TAG SEQADV 5JY0 HIS A 721 UNP F8WQK8 EXPRESSION TAG SEQADV 5JY0 HIS A 722 UNP F8WQK8 EXPRESSION TAG SEQADV 5JY0 HIS A 723 UNP F8WQK8 EXPRESSION TAG SEQRES 1 A 703 MET ASP GLY GLY MET TRP LEU MET GLN GLN ILE ASN GLY SEQRES 2 A 703 GLN VAL ALA ARG MET LYS SER LEU GLY MET GLN LEU GLU SEQRES 3 A 703 ALA ALA ASP ILE TYR ASN PRO ASN GLY SER SER LEU LYS SEQRES 4 A 703 ASP ALA VAL VAL MET PHE ASP GLY GLY CYS THR GLY VAL SEQRES 5 A 703 LEU VAL SER ASN GLN GLY LEU LEU LEU THR ASN HIS HIS SEQRES 6 A 703 CYS GLY TYR ASP GLN ILE GLN LYS HIS SER SER VAL GLN SEQRES 7 A 703 HIS ASN TYR LEU LYS ASP GLY PHE TRP SER TYR SER LEU SEQRES 8 A 703 ALA GLU GLU LEU VAL ASN PRO GLY LEU GLU VAL GLU ILE SEQRES 9 A 703 VAL ASP GLU ILE THR ASP VAL THR ALA ALA VAL LYS LYS SEQRES 10 A 703 GLU LEU GLU ARG ILE LYS LYS PRO SER GLY LEU GLU PHE SEQRES 11 A 703 LEU SER PRO ARG TYR LEU SER SER LEU ALA PRO GLU ILE SEQRES 12 A 703 VAL GLY LYS LYS ALA ALA SER ARG PRO GLY TYR ARG TYR SEQRES 13 A 703 GLU ILE LYS ALA PHE TYR GLY GLY ASN ARG TYR TYR MET SEQRES 14 A 703 PHE THR LYS LYS VAL PHE ARG ASP VAL ARG LEU VAL ALA SEQRES 15 A 703 ALA PRO PRO SER SER ILE GLY LYS PHE GLY SER ASP THR SEQRES 16 A 703 ASP ASN TRP ALA TRP PRO ARG HIS THR GLY ASP PHE SER SEQRES 17 A 703 ILE PHE ARG LEU TYR ALA ASP LYS ASN GLY ASN PRO ALA SEQRES 18 A 703 GLU TYR SER LYS ASP ASN VAL PRO TYR ARG PRO LYS ARG SEQRES 19 A 703 TRP VAL LYS VAL ASN ALA GLN GLY VAL LYS GLU GLY ASP SEQRES 20 A 703 PHE ALA LEU ILE MET GLY TYR PRO GLY THR THR TYR LYS SEQRES 21 A 703 PHE PHE THR ALA ASP GLU VAL THR GLU TRP SER GLU ILE SEQRES 22 A 703 ASP ASN ASN ILE ARG ILE GLU MET ARG GLY ILE LEU GLN SEQRES 23 A 703 ASP VAL MET LEU ARG GLU MET LEU ALA ASP PRO LYS ILE SEQRES 24 A 703 ASN ILE MET TYR ALA ALA LYS TYR ALA SER SER GLN ASN SEQRES 25 A 703 GLY TYR LYS ARG ALA GLN GLY ALA ASN TRP ALA ILE ARG SEQRES 26 A 703 ARG ARG SER LEU ARG GLU ILE LYS LEU ALA GLN GLN GLN SEQRES 27 A 703 GLU VAL LEU ALA TRP ALA LYS GLN LYS GLY ILE ALA THR SEQRES 28 A 703 THR GLU GLU ALA VAL ARG ALA ILE SER LYS ALA ILE GLU SEQRES 29 A 703 GLY ARG GLN ASP LEU ARG MET ARG GLN ARG TYR LEU LEU SEQRES 30 A 703 GLU GLY ILE LEU MET GLY ILE GLU MET SER ASN ALA PRO SEQRES 31 A 703 ALA ALA ASP SER ASP ILE ALA ASP HIS TRP ASP ASP PRO SEQRES 32 A 703 ALA ARG ARG GLU ALA GLY LEU GLN SER ILE ARG LYS GLN SEQRES 33 A 703 PHE GLU ALA PHE PHE ASN LYS ASP TYR SER PRO GLU VAL SEQRES 34 A 703 GLU LYS ASP GLN LEU ALA ILE ALA LEU LEU THR ARG TYR SEQRES 35 A 703 ALA GLU ARG ILE PRO ALA GLU LYS GLN PRO ILE SER ILE SEQRES 36 A 703 ARG GLU GLY ILE ALA GLU TYR GLY SER ALA LYS ALA TYR SEQRES 37 A 703 VAL GLU MET ILE PHE ASP LYS SER ILE TYR ALA SER ARG SEQRES 38 A 703 GLU ARG PHE GLU GLU PHE MET LYS ASN PRO ASP ARG ASP SEQRES 39 A 703 ARG LEU LEU ARG ASP PRO MET SER ARG PHE ALA ALA SER SEQRES 40 A 703 VAL ALA TYR GLU HIS GLN LYS LEU ALA LYS GLU VAL ALA SEQRES 41 A 703 ALA PHE ASP ALA PRO LEU ALA ALA ALA GLN ARG SER TYR SEQRES 42 A 703 VAL ALA SER VAL LEU ASP MET LYS GLY GLN PRO ASN LEU SEQRES 43 A 703 ALA PRO ASP ALA ASN LEU THR LEU ARG PHE THR TYR GLY SEQRES 44 A 703 GLU ILE LYS GLY TYR GLN PRO ARG ASP VAL VAL THR TYR SEQRES 45 A 703 GLY ALA LYS SER THR LEU GLU GLY VAL MET GLU LYS GLU SEQRES 46 A 703 ASP PRO ASN ASN TRP GLU TYR VAL VAL ASP PRO LYS LEU SEQRES 47 A 703 LYS ALA LEU TYR GLU ALA LYS ASN TYR GLY ARG TYR ALA SEQRES 48 A 703 ASN SER ASP GLY SER MET PRO VAL ASN PHE CYS ALA THR SEQRES 49 A 703 THR HIS THR THR GLY GLY ASN ALA GLY SER PRO VAL MET SEQRES 50 A 703 ASN ALA ARG GLY GLU LEU ILE GLY LEU ASN PHE ASP ARG SEQRES 51 A 703 ASN TRP GLU GLY VAL GLY GLY ASP ILE GLU TYR LEU PRO SEQRES 52 A 703 ASN TYR GLN ARG SER ILE ILE LEU ASP ILE ARG TYR LEU SEQRES 53 A 703 LEU PHE ILE ILE ASP LYS PHE ALA GLY CYS GLN ARG LEU SEQRES 54 A 703 ILE ASP GLU ILE GLN PRO GLN PHE HIS HIS HIS HIS HIS SEQRES 55 A 703 HIS SEQRES 1 B 3 LEU ASP VAL HET TRS A 801 8 HET TRS A 802 8 HETNAM TRS 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL HETSYN TRS TRIS BUFFER FORMUL 3 TRS 2(C4 H12 N O3 1+) FORMUL 5 HOH *52(H2 O) HELIX 1 AA1 GLN A 30 LEU A 41 1 12 HELIX 2 AA2 GLU A 46 TYR A 51 1 6 HELIX 3 AA3 SER A 57 ASP A 60 5 4 HELIX 4 AA4 GLY A 87 SER A 95 1 9 HELIX 5 AA5 ASN A 100 GLY A 105 1 6 HELIX 6 AA6 VAL A 131 GLU A 140 1 10 HELIX 7 AA7 SER A 152 SER A 158 1 7 HELIX 8 AA8 ALA A 160 GLY A 165 1 6 HELIX 9 AA9 LYS A 166 ALA A 168 5 3 HELIX 10 AB1 TYR A 182 ASN A 185 5 4 HELIX 11 AB2 PRO A 205 LYS A 210 1 6 HELIX 12 AB3 THR A 283 ILE A 293 1 11 HELIX 13 AB4 ILE A 293 MET A 309 1 17 HELIX 14 AB5 ASN A 320 TYR A 323 5 4 HELIX 15 AB6 ALA A 324 ARG A 347 1 24 HELIX 16 AB7 SER A 348 LYS A 367 1 20 HELIX 17 AB8 ALA A 370 ARG A 386 1 17 HELIX 18 AB9 ARG A 386 ILE A 400 1 15 HELIX 19 AC1 ILE A 404 ALA A 409 5 6 HELIX 20 AC2 ASP A 413 HIS A 419 1 7 HELIX 21 AC3 ASP A 422 PHE A 441 1 20 HELIX 22 AC4 ASP A 452 ILE A 466 1 15 HELIX 23 AC5 PRO A 467 GLN A 471 5 5 HELIX 24 AC6 PRO A 472 GLY A 483 1 12 HELIX 25 AC7 SER A 484 SER A 496 1 13 HELIX 26 AC8 SER A 500 ASN A 510 1 11 HELIX 27 AC9 ASP A 512 ARG A 518 1 7 HELIX 28 AD1 ASP A 519 VAL A 539 1 21 HELIX 29 AD2 VAL A 539 LYS A 561 1 23 HELIX 30 AD3 GLY A 562 LEU A 566 5 5 HELIX 31 AD4 LEU A 598 GLU A 605 1 8 HELIX 32 AD5 ASP A 615 GLU A 623 1 9 HELIX 33 AD6 TRP A 672 ILE A 679 5 8 HELIX 34 AD7 ILE A 693 LYS A 702 1 10 HELIX 35 AD8 CYS A 706 GLN A 714 1 9 SHEET 1 AA1 8 TRP A 26 LEU A 27 0 SHEET 2 AA1 8 ARG A 575 GLU A 580 -1 O PHE A 576 N TRP A 26 SHEET 3 AA1 8 PHE A 268 GLY A 273 -1 N ILE A 271 O THR A 577 SHEET 4 AA1 8 PRO A 655 MET A 657 -1 O MET A 657 N LEU A 270 SHEET 5 AA1 8 LEU A 663 ARG A 670 -1 O GLY A 665 N VAL A 656 SHEET 6 AA1 8 SER A 688 ASP A 692 -1 O LEU A 691 N LEU A 666 SHEET 7 AA1 8 PRO A 638 ALA A 643 -1 N PHE A 641 O ILE A 690 SHEET 8 AA1 8 LYS A 595 THR A 597 -1 N SER A 596 O VAL A 639 SHEET 1 AA2 9 PHE A 106 TRP A 107 0 SHEET 2 AA2 9 VAL A 198 ALA A 203 -1 O ALA A 203 N PHE A 106 SHEET 3 AA2 9 SER A 228 ALA A 234 -1 O ILE A 229 N ALA A 202 SHEET 4 AA2 9 LEU A 79 THR A 82 -1 N LEU A 80 O PHE A 230 SHEET 5 AA2 9 CYS A 69 LEU A 73 -1 N VAL A 72 O LEU A 81 SHEET 6 AA2 9 VAL A 62 PHE A 65 -1 N PHE A 65 O CYS A 69 SHEET 7 AA2 9 VAL A 122 VAL A 125 -1 O GLU A 123 N MET A 64 SHEET 8 AA2 9 ARG A 186 PHE A 195 -1 O LYS A 193 N ILE A 124 SHEET 9 AA2 9 TYR A 174 PHE A 181 -1 N ARG A 175 O LYS A 192 SHEET 1 AA3 8 THR A 129 ASP A 130 0 SHEET 2 AA3 8 ARG A 186 PHE A 195 -1 O MET A 189 N THR A 129 SHEET 3 AA3 8 VAL A 122 VAL A 125 -1 N ILE A 124 O LYS A 193 SHEET 4 AA3 8 VAL A 62 PHE A 65 -1 N MET A 64 O GLU A 123 SHEET 5 AA3 8 CYS A 69 LEU A 73 -1 O CYS A 69 N PHE A 65 SHEET 6 AA3 8 LEU A 79 THR A 82 -1 O LEU A 81 N VAL A 72 SHEET 7 AA3 8 SER A 228 ALA A 234 -1 O PHE A 230 N LEU A 80 SHEET 8 AA3 8 VAL A 248 PRO A 249 -1 O VAL A 248 N ALA A 234 SSBOND 1 CYS A 69 CYS A 86 1555 1555 2.00 CISPEP 1 TRP A 220 PRO A 221 0 -0.16 SITE 1 AC1 5 THR A 277 ARG A 336 THR A 648 GLY A 649 SITE 2 AC1 5 ASP A 678 SITE 1 AC2 7 GLN A 261 GLY A 262 VAL A 263 LYS A 595 SITE 2 AC2 7 ASN A 632 SER A 633 ARG A 694 CRYST1 87.787 113.331 111.226 90.00 106.26 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 0.011391 0.000000 0.003323 0.00000 SCALE2 0.000000 0.008824 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009365 0.00000