HEADER CELL ADHESION 28-JUN-16 5LDY TITLE STRUCTURE OF YERSINIA PSEUDOTUBERCULOSIS INVD COMPND MOL_ID: 1; COMPND 2 MOLECULE: IG DOMAIN PROTEIN GROUP 1 DOMAIN PROTEIN; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: YERSINIA PSEUDOTUBERCULOSIS; SOURCE 3 ORGANISM_TAXID: 502800; SOURCE 4 STRAIN: YPIII; SOURCE 5 VARIANT: SEROTYPE O:3; SOURCE 6 GENE: YPK_1315; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS ADHESIN, AUTOTRANSPORTER, CELL ADHESION EXPDTA X-RAY DIFFRACTION AUTHOR P.SADANA,A.SCRIMA REVDAT 2 17-JUN-20 5LDY 1 JRNL REVDAT 1 14-JUN-17 5LDY 0 JRNL AUTH P.SADANA,R.GEYER,J.PEZOLDT,S.HELMSING,J.HUEHN,M.HUST, JRNL AUTH 2 P.DERSCH,A.SCRIMA JRNL TITL THE INVASIN D PROTEIN FROM YERSINIA PSEUDOTUBERCULOSIS JRNL TITL 2 SELECTIVELY BINDS THE FAB REGION OF HOST ANTIBODIES AND JRNL TITL 3 AFFECTS COLONIZATION OF THE INTESTINE JRNL REF J.BIOL.CHEM. 2018 JRNL REFN ESSN 1083-351X JRNL DOI 10.1074/JBC.RA117.001068 REMARK 2 REMARK 2 RESOLUTION. 2.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.10_2155 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) : 44.70 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.390 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 28540 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.233 REMARK 3 R VALUE (WORKING SET) : 0.230 REMARK 3 FREE R VALUE : 0.253 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1427 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 41.6539 - 5.5983 0.95 2744 145 0.2041 0.2293 REMARK 3 2 5.5983 - 4.4452 0.95 2725 143 0.1760 0.1819 REMARK 3 3 4.4452 - 3.8838 0.95 2697 142 0.1877 0.2352 REMARK 3 4 3.8838 - 3.5289 0.95 2726 144 0.2318 0.2517 REMARK 3 5 3.5289 - 3.2760 0.95 2674 140 0.2662 0.2910 REMARK 3 6 3.2760 - 3.0830 0.95 2701 143 0.2748 0.2961 REMARK 3 7 3.0830 - 2.9286 0.95 2725 143 0.2886 0.3115 REMARK 3 8 2.9286 - 2.8011 0.95 2675 141 0.3115 0.3264 REMARK 3 9 2.8011 - 2.6933 0.95 2701 142 0.3272 0.3811 REMARK 3 10 2.6933 - 2.6004 0.95 2726 144 0.3570 0.3538 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) : NULL REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 30.220 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 67.41 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: 0.5000 REMARK 3 OPERATOR: H,-K,-L REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.002 4917 REMARK 3 ANGLE : 0.470 6746 REMARK 3 CHIRALITY : 0.045 870 REMARK 3 PLANARITY : 0.002 869 REMARK 3 DIHEDRAL : 8.190 2896 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 1642 THROUGH 1767 ) REMARK 3 ORIGIN FOR THE GROUP (A): -7.2889 0.7244 -22.2518 REMARK 3 T TENSOR REMARK 3 T11: 0.4140 T22: 0.7231 REMARK 3 T33: 0.2552 T12: -0.0410 REMARK 3 T13: -0.0054 T23: -0.0375 REMARK 3 L TENSOR REMARK 3 L11: 2.7810 L22: 1.1172 REMARK 3 L33: 0.1760 L12: 0.1335 REMARK 3 L13: 0.2504 L23: -0.4754 REMARK 3 S TENSOR REMARK 3 S11: -0.2718 S12: 0.1520 S13: 0.4278 REMARK 3 S21: -0.2961 S22: 0.0516 S23: 0.1487 REMARK 3 S31: -0.2335 S32: 0.2138 S33: 0.1720 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 1768 THROUGH 1976 ) REMARK 3 ORIGIN FOR THE GROUP (A): 32.5052 2.1595 25.1549 REMARK 3 T TENSOR REMARK 3 T11: 0.3937 T22: 0.8280 REMARK 3 T33: 0.2900 T12: -0.0237 REMARK 3 T13: -0.0212 T23: 0.0101 REMARK 3 L TENSOR REMARK 3 L11: 1.7229 L22: 0.5225 REMARK 3 L33: 3.5014 L12: -0.2343 REMARK 3 L13: 2.8215 L23: -0.0117 REMARK 3 S TENSOR REMARK 3 S11: -0.1290 S12: -0.1537 S13: 0.0571 REMARK 3 S21: 0.1234 S22: -0.1442 S23: 0.0730 REMARK 3 S31: 0.1264 S32: -0.4074 S33: 0.3054 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 1638 THROUGH 1702 ) REMARK 3 ORIGIN FOR THE GROUP (A): 74.2753 0.7340 34.2285 REMARK 3 T TENSOR REMARK 3 T11: 0.5247 T22: 1.2940 REMARK 3 T33: 0.4503 T12: 0.0286 REMARK 3 T13: -0.0210 T23: 0.0042 REMARK 3 L TENSOR REMARK 3 L11: 0.9369 L22: 0.6347 REMARK 3 L33: 3.4527 L12: 0.6910 REMARK 3 L13: 1.4881 L23: 1.4459 REMARK 3 S TENSOR REMARK 3 S11: -0.0088 S12: -1.4208 S13: 0.2600 REMARK 3 S21: 0.5541 S22: -0.1745 S23: 0.0753 REMARK 3 S31: 0.0199 S32: -0.3243 S33: 0.1379 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 1703 THROUGH 1730 ) REMARK 3 ORIGIN FOR THE GROUP (A): 73.8935 -0.7744 26.7195 REMARK 3 T TENSOR REMARK 3 T11: 0.3808 T22: 0.8709 REMARK 3 T33: 0.3570 T12: -0.0394 REMARK 3 T13: -0.0645 T23: -0.1200 REMARK 3 L TENSOR REMARK 3 L11: 6.2667 L22: 3.2478 REMARK 3 L33: 7.9673 L12: -4.3186 REMARK 3 L13: 6.9611 L23: -4.8267 REMARK 3 S TENSOR REMARK 3 S11: -0.1327 S12: -0.3488 S13: 0.4739 REMARK 3 S21: 0.0488 S22: -0.3741 S23: -0.1842 REMARK 3 S31: 0.3513 S32: 0.0918 S33: 0.4186 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 1731 THROUGH 1976 ) REMARK 3 ORIGIN FOR THE GROUP (A): 29.6317 2.0692 -20.5961 REMARK 3 T TENSOR REMARK 3 T11: 0.5369 T22: 0.8819 REMARK 3 T33: 0.2947 T12: 0.0056 REMARK 3 T13: -0.0886 T23: 0.0079 REMARK 3 L TENSOR REMARK 3 L11: 0.5074 L22: 0.2131 REMARK 3 L33: 3.1057 L12: 0.0662 REMARK 3 L13: 1.8668 L23: 0.1033 REMARK 3 S TENSOR REMARK 3 S11: -0.0813 S12: 0.2724 S13: 0.0753 REMARK 3 S21: -0.1586 S22: -0.0297 S23: -0.0434 REMARK 3 S31: 0.0999 S32: 0.6757 S33: 0.1318 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 5LDY COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 28-JUN-16. REMARK 100 THE DEPOSITION ID IS D_1200000595. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 14-FEB-14 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 : 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) : 1.0000 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 2M-F REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 28540 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.600 REMARK 200 RESOLUTION RANGE LOW (A) : 44.701 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 11.30 REMARK 200 R MERGE (I) : 0.06300 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 26.6200 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) : 2.70 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.41600 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 5.860 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: PHENIX REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 64.08 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.42 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.9 M AMMONIUM DIHYDROGEN PHOSPHATE; REMARK 280 0.1 M TRIS-HCL PH 8.0, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 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,X,Z+3/4 REMARK 290 4555 Y,-X,Z+1/4 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 137.29500 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 205.94250 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 68.64750 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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 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 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 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 1620 REMARK 465 GLY A 1621 REMARK 465 HIS A 1622 REMARK 465 HIS A 1623 REMARK 465 HIS A 1624 REMARK 465 HIS A 1625 REMARK 465 HIS A 1626 REMARK 465 HIS A 1627 REMARK 465 VAL A 1628 REMARK 465 ASP A 1629 REMARK 465 GLU A 1630 REMARK 465 ASN A 1631 REMARK 465 LEU A 1632 REMARK 465 TYR A 1633 REMARK 465 PHE A 1634 REMARK 465 GLN A 1635 REMARK 465 GLY A 1636 REMARK 465 GLY A 1637 REMARK 465 GLY A 1638 REMARK 465 ARG A 1639 REMARK 465 GLY A 1640 REMARK 465 ASN A 1641 REMARK 465 MET B 1620 REMARK 465 GLY B 1621 REMARK 465 HIS B 1622 REMARK 465 HIS B 1623 REMARK 465 HIS B 1624 REMARK 465 HIS B 1625 REMARK 465 HIS B 1626 REMARK 465 HIS B 1627 REMARK 465 VAL B 1628 REMARK 465 ASP B 1629 REMARK 465 GLU B 1630 REMARK 465 ASN B 1631 REMARK 465 LEU B 1632 REMARK 465 TYR B 1633 REMARK 465 PHE B 1634 REMARK 465 GLN B 1635 REMARK 465 GLY B 1636 REMARK 465 GLY B 1637 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 GLN B1936 CG CD OE1 NE2 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 HH22 ARG B 1917 O PRO B 1922 1.51 REMARK 500 OD1 ASP B 1770 H ASN B 1774 1.53 REMARK 500 O LEU B 1878 H ILE B 1886 1.55 REMARK 500 O ALA A 1756 HH21 ARG A 1759 1.56 REMARK 500 H GLY B 1680 OE2 GLU B 1697 1.57 REMARK 500 O CYS A 1859 HE21 GLN A 1936 1.58 REMARK 500 HG1 THR A 1837 O HOH A 2103 1.60 REMARK 500 O ILE A 1886 O HOH A 2101 2.03 REMARK 500 O HOH A 2103 O HOH A 2141 2.08 REMARK 500 N GLY B 1680 OE2 GLU B 1697 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 OD1 ASP A 1662 OG SER B 1700 3544 1.98 REMARK 500 O GLY A 1914 NH1 ARG B 1639 1455 2.08 REMARK 500 NH2 ARG A 1918 O VAL B 1683 1455 2.09 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 ASN A1675 -6.42 73.94 REMARK 500 PRO A1752 0.17 -66.25 REMARK 500 MET A1793 -166.57 -100.57 REMARK 500 HIS A1798 3.98 -67.11 REMARK 500 ASP A1800 20.70 -148.77 REMARK 500 ALA A1805 143.17 -176.30 REMARK 500 ALA A1827 -81.74 -91.08 REMARK 500 CYS A1859 71.88 61.38 REMARK 500 SER A1861 106.38 -55.24 REMARK 500 SER A1862 -70.05 -96.71 REMARK 500 SER A1863 49.71 -97.04 REMARK 500 ALA A1896 88.62 -65.15 REMARK 500 SER A1904 -8.58 88.40 REMARK 500 PRO A1922 -175.79 -68.01 REMARK 500 ALA A1932 33.67 -162.37 REMARK 500 ASN A1966 79.17 -164.03 REMARK 500 ARG B1639 89.02 75.68 REMARK 500 SER B1660 -9.28 76.75 REMARK 500 VAL B1729 137.94 -171.76 REMARK 500 ASP B1770 -176.77 -63.02 REMARK 500 MET B1793 -158.07 -95.50 REMARK 500 ASN B1799 -2.23 67.81 REMARK 500 SER B1822 -121.07 57.10 REMARK 500 ASN B1842 93.12 -69.24 REMARK 500 CYS B1859 77.35 61.84 REMARK 500 SER B1863 41.47 -102.03 REMARK 500 SER B1904 32.47 73.52 REMARK 500 SER B1912 141.07 -172.03 REMARK 500 ALA B1932 43.28 -146.91 REMARK 500 ASP B1958 -169.79 -100.55 REMARK 500 PHE B1960 -72.49 -134.55 REMARK 500 ASN B1966 66.82 -155.57 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 B2136 DISTANCE = 6.05 ANGSTROMS REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PO4 A 2001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PO4 B 2001 DBREF1 5LDY A 1640 1976 UNP A0A0H3B1G5_YERPY DBREF2 5LDY A A0A0H3B1G5 1640 1976 DBREF1 5LDY B 1640 1976 UNP A0A0H3B1G5_YERPY DBREF2 5LDY B A0A0H3B1G5 1640 1976 SEQADV 5LDY MET A 1620 UNP A0A0H3B1G INITIATING METHIONINE SEQADV 5LDY GLY A 1621 UNP A0A0H3B1G EXPRESSION TAG SEQADV 5LDY HIS A 1622 UNP A0A0H3B1G EXPRESSION TAG SEQADV 5LDY HIS A 1623 UNP A0A0H3B1G EXPRESSION TAG SEQADV 5LDY HIS A 1624 UNP A0A0H3B1G EXPRESSION TAG SEQADV 5LDY HIS A 1625 UNP A0A0H3B1G EXPRESSION TAG SEQADV 5LDY HIS A 1626 UNP A0A0H3B1G EXPRESSION TAG SEQADV 5LDY HIS A 1627 UNP A0A0H3B1G EXPRESSION TAG SEQADV 5LDY VAL A 1628 UNP A0A0H3B1G EXPRESSION TAG SEQADV 5LDY ASP A 1629 UNP A0A0H3B1G EXPRESSION TAG SEQADV 5LDY GLU A 1630 UNP A0A0H3B1G EXPRESSION TAG SEQADV 5LDY ASN A 1631 UNP A0A0H3B1G EXPRESSION TAG SEQADV 5LDY LEU A 1632 UNP A0A0H3B1G EXPRESSION TAG SEQADV 5LDY TYR A 1633 UNP A0A0H3B1G EXPRESSION TAG SEQADV 5LDY PHE A 1634 UNP A0A0H3B1G EXPRESSION TAG SEQADV 5LDY GLN A 1635 UNP A0A0H3B1G EXPRESSION TAG SEQADV 5LDY GLY A 1636 UNP A0A0H3B1G EXPRESSION TAG SEQADV 5LDY GLY A 1637 UNP A0A0H3B1G EXPRESSION TAG SEQADV 5LDY GLY A 1638 UNP A0A0H3B1G EXPRESSION TAG SEQADV 5LDY ARG A 1639 UNP A0A0H3B1G EXPRESSION TAG SEQADV 5LDY MET B 1620 UNP A0A0H3B1G INITIATING METHIONINE SEQADV 5LDY GLY B 1621 UNP A0A0H3B1G EXPRESSION TAG SEQADV 5LDY HIS B 1622 UNP A0A0H3B1G EXPRESSION TAG SEQADV 5LDY HIS B 1623 UNP A0A0H3B1G EXPRESSION TAG SEQADV 5LDY HIS B 1624 UNP A0A0H3B1G EXPRESSION TAG SEQADV 5LDY HIS B 1625 UNP A0A0H3B1G EXPRESSION TAG SEQADV 5LDY HIS B 1626 UNP A0A0H3B1G EXPRESSION TAG SEQADV 5LDY HIS B 1627 UNP A0A0H3B1G EXPRESSION TAG SEQADV 5LDY VAL B 1628 UNP A0A0H3B1G EXPRESSION TAG SEQADV 5LDY ASP B 1629 UNP A0A0H3B1G EXPRESSION TAG SEQADV 5LDY GLU B 1630 UNP A0A0H3B1G EXPRESSION TAG SEQADV 5LDY ASN B 1631 UNP A0A0H3B1G EXPRESSION TAG SEQADV 5LDY LEU B 1632 UNP A0A0H3B1G EXPRESSION TAG SEQADV 5LDY TYR B 1633 UNP A0A0H3B1G EXPRESSION TAG SEQADV 5LDY PHE B 1634 UNP A0A0H3B1G EXPRESSION TAG SEQADV 5LDY GLN B 1635 UNP A0A0H3B1G EXPRESSION TAG SEQADV 5LDY GLY B 1636 UNP A0A0H3B1G EXPRESSION TAG SEQADV 5LDY GLY B 1637 UNP A0A0H3B1G EXPRESSION TAG SEQADV 5LDY GLY B 1638 UNP A0A0H3B1G EXPRESSION TAG SEQADV 5LDY ARG B 1639 UNP A0A0H3B1G EXPRESSION TAG SEQRES 1 A 357 MET GLY HIS HIS HIS HIS HIS HIS VAL ASP GLU ASN LEU SEQRES 2 A 357 TYR PHE GLN GLY GLY GLY ARG GLY ASN LEU SER THR THR SEQRES 3 A 357 ASN SER THR LEU VAL ALA ALA PRO VAL ASN ILE GLU ALA SEQRES 4 A 357 ASN SER SER ASP THR SER VAL VAL THR LEU THR LEU ARG SEQRES 5 A 357 ASP ASN ASN ASN ASN PRO VAL THR GLY GLN THR VAL VAL SEQRES 6 A 357 PHE THR SER THR LEU GLY THR LEU GLY ASN VAL THR GLU SEQRES 7 A 357 GLN ALA SER GLY LEU TYR THR ALA THR LEU THR ALA GLY SEQRES 8 A 357 THR VAL SER GLY VAL ALA SER LEU SER VAL SER VAL GLY SEQRES 9 A 357 GLY ASN ALA LEU GLY VAL THR GLY ASN ILE THR LEU ALA SEQRES 10 A 357 PRO GLY ALA LEU ASP ALA ALA ARG SER ILE LEU ALA VAL SEQRES 11 A 357 ASN LYS PRO SER ILE ASN ALA ASP ASP ARG ILE GLY SER SEQRES 12 A 357 THR ILE THR PHE THR ALA GLN ASP ALA GLN GLY ASN ALA SEQRES 13 A 357 ILE THR GLY LEU ASP ILE ALA PHE MET THR ASP LEU GLU SEQRES 14 A 357 ASN SER GLN ILE MET THR LEU VAL ASP HIS ASN ASP GLY SEQRES 15 A 357 THR TYR THR ALA ASN ILE ASN GLY THR GLN THR GLY ILE SEQRES 16 A 357 ALA ASN ILE ALA VAL GLN SER SER GLY ALA THR ILE ALA SEQRES 17 A 357 GLY LEU ALA ALA THR MET VAL THR ILE THR PRO GLY ALA SEQRES 18 A 357 TRP ASN THR THR GLN ALA THR PRO VAL MET THR VAL ALA SEQRES 19 A 357 LEU PRO ILE THR THR CYS GLN SER SER SER GLY VAL TYR SEQRES 20 A 357 LYS ARG TYR TYR ILE GLY ILE VAL THR HIS GLU LEU TYR SEQRES 21 A 357 ASP ASN TYR GLY ASN GLU ILE SER GLY ILE LEU THR TYR SEQRES 22 A 357 ASN LEU GLY ALA GLY ARG TYR THR THR VAL THR SER GLN SEQRES 23 A 357 ASN SER SER VAL SER GLY SER ASN GLY LEU THR ARG ARG SEQRES 24 A 357 SER ASN SER PRO VAL SER HIS PHE ILE LEU THR SER ASP SEQRES 25 A 357 ALA TYR THR SER GLN ALA ALA CYS TYR ALA GLU ARG ILE SEQRES 26 A 357 ALA ASN VAL ASN VAL THR ILE THR VAL THR ALA ILE THR SEQRES 27 A 357 ASP ASP PHE LYS THR SER ALA VAL ASN LYS VAL PHE ILE SEQRES 28 A 357 LEU GLY THR GLY SER ASN SEQRES 1 B 357 MET GLY HIS HIS HIS HIS HIS HIS VAL ASP GLU ASN LEU SEQRES 2 B 357 TYR PHE GLN GLY GLY GLY ARG GLY ASN LEU SER THR THR SEQRES 3 B 357 ASN SER THR LEU VAL ALA ALA PRO VAL ASN ILE GLU ALA SEQRES 4 B 357 ASN SER SER ASP THR SER VAL VAL THR LEU THR LEU ARG SEQRES 5 B 357 ASP ASN ASN ASN ASN PRO VAL THR GLY GLN THR VAL VAL SEQRES 6 B 357 PHE THR SER THR LEU GLY THR LEU GLY ASN VAL THR GLU SEQRES 7 B 357 GLN ALA SER GLY LEU TYR THR ALA THR LEU THR ALA GLY SEQRES 8 B 357 THR VAL SER GLY VAL ALA SER LEU SER VAL SER VAL GLY SEQRES 9 B 357 GLY ASN ALA LEU GLY VAL THR GLY ASN ILE THR LEU ALA SEQRES 10 B 357 PRO GLY ALA LEU ASP ALA ALA ARG SER ILE LEU ALA VAL SEQRES 11 B 357 ASN LYS PRO SER ILE ASN ALA ASP ASP ARG ILE GLY SER SEQRES 12 B 357 THR ILE THR PHE THR ALA GLN ASP ALA GLN GLY ASN ALA SEQRES 13 B 357 ILE THR GLY LEU ASP ILE ALA PHE MET THR ASP LEU GLU SEQRES 14 B 357 ASN SER GLN ILE MET THR LEU VAL ASP HIS ASN ASP GLY SEQRES 15 B 357 THR TYR THR ALA ASN ILE ASN GLY THR GLN THR GLY ILE SEQRES 16 B 357 ALA ASN ILE ALA VAL GLN SER SER GLY ALA THR ILE ALA SEQRES 17 B 357 GLY LEU ALA ALA THR MET VAL THR ILE THR PRO GLY ALA SEQRES 18 B 357 TRP ASN THR THR GLN ALA THR PRO VAL MET THR VAL ALA SEQRES 19 B 357 LEU PRO ILE THR THR CYS GLN SER SER SER GLY VAL TYR SEQRES 20 B 357 LYS ARG TYR TYR ILE GLY ILE VAL THR HIS GLU LEU TYR SEQRES 21 B 357 ASP ASN TYR GLY ASN GLU ILE SER GLY ILE LEU THR TYR SEQRES 22 B 357 ASN LEU GLY ALA GLY ARG TYR THR THR VAL THR SER GLN SEQRES 23 B 357 ASN SER SER VAL SER GLY SER ASN GLY LEU THR ARG ARG SEQRES 24 B 357 SER ASN SER PRO VAL SER HIS PHE ILE LEU THR SER ASP SEQRES 25 B 357 ALA TYR THR SER GLN ALA ALA CYS TYR ALA GLU ARG ILE SEQRES 26 B 357 ALA ASN VAL ASN VAL THR ILE THR VAL THR ALA ILE THR SEQRES 27 B 357 ASP ASP PHE LYS THR SER ALA VAL ASN LYS VAL PHE ILE SEQRES 28 B 357 LEU GLY THR GLY SER ASN HET PO4 A2001 5 HET PO4 B2001 5 HETNAM PO4 PHOSPHATE ION FORMUL 3 PO4 2(O4 P 3-) FORMUL 5 HOH *84(H2 O) HELIX 1 AA1 SER A 1935 ALA A 1941 1 7 HELIX 2 AA2 ASP B 1741 SER B 1745 5 5 HELIX 3 AA3 SER B 1935 GLU B 1942 1 8 SHEET 1 AA1 4 THR A1648 ALA A1652 0 SHEET 2 AA1 4 THR A1663 THR A1669 -1 O THR A1667 N VAL A1650 SHEET 3 AA1 4 LEU A1702 THR A1708 -1 O LEU A1707 N SER A1664 SHEET 4 AA1 4 THR A1691 LEU A1692 -1 N THR A1691 O THR A1708 SHEET 1 AA2 4 THR A1648 ALA A1652 0 SHEET 2 AA2 4 THR A1663 THR A1669 -1 O THR A1667 N VAL A1650 SHEET 3 AA2 4 LEU A1702 THR A1708 -1 O LEU A1707 N SER A1664 SHEET 4 AA2 4 THR A1696 GLU A1697 -1 N THR A1696 O THR A1704 SHEET 1 AA3 3 ASN A1655 GLU A1657 0 SHEET 2 AA3 3 ASN A1732 ALA A1736 1 O ALA A1736 N ILE A1656 SHEET 3 AA3 3 GLY A1714 SER A1717 -1 N GLY A1714 O LEU A1735 SHEET 1 AA4 3 VAL A1683 THR A1686 0 SHEET 2 AA4 3 SER A1719 VAL A1722 -1 O SER A1719 N THR A1686 SHEET 3 AA4 3 ASN A1725 ALA A1726 -1 O ASN A1725 N VAL A1722 SHEET 1 AA5 4 ILE A1746 VAL A1749 0 SHEET 2 AA5 4 SER A1762 THR A1767 -1 O THR A1765 N ALA A1748 SHEET 3 AA5 4 THR A1802 GLY A1809 -1 O ALA A1805 N ILE A1764 SHEET 4 AA5 4 SER A1790 ILE A1792 -1 N GLN A1791 O ASN A1808 SHEET 1 AA6 4 ILE A1746 VAL A1749 0 SHEET 2 AA6 4 SER A1762 THR A1767 -1 O THR A1765 N ALA A1748 SHEET 3 AA6 4 THR A1802 GLY A1809 -1 O ALA A1805 N ILE A1764 SHEET 4 AA6 4 VAL A1796 ASP A1797 -1 N VAL A1796 O THR A1804 SHEET 1 AA7 3 SER A1753 ASN A1755 0 SHEET 2 AA7 3 THR A1835 THR A1837 1 O THR A1837 N ILE A1754 SHEET 3 AA7 3 GLY A1813 ILE A1814 -1 N GLY A1813 O ILE A1836 SHEET 1 AA8 2 ILE A1781 THR A1785 0 SHEET 2 AA8 2 ILE A1817 SER A1821 -1 O GLN A1820 N ALA A1782 SHEET 1 AA9 3 MET A1850 ALA A1853 0 SHEET 2 AA9 3 TYR A1869 THR A1875 -1 O VAL A1874 N THR A1851 SHEET 3 AA9 3 SER A1924 ILE A1927 -1 O PHE A1926 N TYR A1870 SHEET 1 AB1 2 GLN A1860 SER A1861 0 SHEET 2 AB1 2 TYR A1866 LYS A1867 -1 O LYS A1867 N GLN A1860 SHEET 1 AB2 2 LEU A1878 TYR A1879 0 SHEET 2 AB2 2 GLU A1885 ILE A1886 -1 O ILE A1886 N LEU A1878 SHEET 1 AB3 5 ASN A1906 VAL A1909 0 SHEET 2 AB3 5 GLY A1897 THR A1901 -1 N GLY A1897 O VAL A1909 SHEET 3 AB3 5 ILE A1944 THR A1957 -1 O ASN A1948 N ARG A1898 SHEET 4 AB3 5 ILE A1889 LEU A1894 -1 N THR A1891 O THR A1954 SHEET 5 AB3 5 SER A1912 ARG A1918 -1 O ARG A1917 N LEU A1890 SHEET 1 AB4 4 ASN A1906 VAL A1909 0 SHEET 2 AB4 4 GLY A1897 THR A1901 -1 N GLY A1897 O VAL A1909 SHEET 3 AB4 4 ILE A1944 THR A1957 -1 O ASN A1948 N ARG A1898 SHEET 4 AB4 4 THR A1962 LEU A1971 -1 O LYS A1967 N VAL A1953 SHEET 1 AB5 4 VAL B1650 ALA B1652 0 SHEET 2 AB5 4 THR B1663 THR B1667 -1 O VAL B1665 N ALA B1652 SHEET 3 AB5 4 TYR B1703 THR B1708 -1 O ALA B1705 N VAL B1666 SHEET 4 AB5 4 THR B1691 LEU B1692 -1 N THR B1691 O THR B1708 SHEET 1 AB6 4 VAL B1650 ALA B1652 0 SHEET 2 AB6 4 THR B1663 THR B1667 -1 O VAL B1665 N ALA B1652 SHEET 3 AB6 4 TYR B1703 THR B1708 -1 O ALA B1705 N VAL B1666 SHEET 4 AB6 4 THR B1696 GLU B1697 -1 N THR B1696 O THR B1704 SHEET 1 AB7 4 ASN B1655 GLU B1657 0 SHEET 2 AB7 4 GLY B1731 ALA B1736 1 O ALA B1736 N ILE B1656 SHEET 3 AB7 4 GLY B1714 VAL B1722 -1 N GLY B1714 O LEU B1735 SHEET 4 AB7 4 VAL B1683 SER B1687 -1 N VAL B1684 O SER B1721 SHEET 1 AB8 4 ASN B1655 GLU B1657 0 SHEET 2 AB8 4 GLY B1731 ALA B1736 1 O ALA B1736 N ILE B1656 SHEET 3 AB8 4 GLY B1714 VAL B1722 -1 N GLY B1714 O LEU B1735 SHEET 4 AB8 4 ASN B1725 ALA B1726 -1 O ASN B1725 N VAL B1722 SHEET 1 AB9 4 ILE B1746 VAL B1749 0 SHEET 2 AB9 4 SER B1762 THR B1767 -1 O THR B1765 N ALA B1748 SHEET 3 AB9 4 THR B1802 GLY B1809 -1 O ALA B1805 N ILE B1764 SHEET 4 AB9 4 SER B1790 ILE B1792 -1 N GLN B1791 O ASN B1808 SHEET 1 AC1 4 ILE B1746 VAL B1749 0 SHEET 2 AC1 4 SER B1762 THR B1767 -1 O THR B1765 N ALA B1748 SHEET 3 AC1 4 THR B1802 GLY B1809 -1 O ALA B1805 N ILE B1764 SHEET 4 AC1 4 VAL B1796 ASP B1797 -1 N VAL B1796 O THR B1804 SHEET 1 AC2 4 SER B1753 ASN B1755 0 SHEET 2 AC2 4 MET B1833 THR B1837 1 O THR B1835 N ILE B1754 SHEET 3 AC2 4 GLY B1813 SER B1821 -1 N GLY B1813 O ILE B1836 SHEET 4 AC2 4 PHE B1783 THR B1785 -1 N MET B1784 O ALA B1818 SHEET 1 AC3 4 SER B1753 ASN B1755 0 SHEET 2 AC3 4 MET B1833 THR B1837 1 O THR B1835 N ILE B1754 SHEET 3 AC3 4 GLY B1813 SER B1821 -1 N GLY B1813 O ILE B1836 SHEET 4 AC3 4 ALA B1824 THR B1825 -1 O ALA B1824 N SER B1821 SHEET 1 AC4 3 MET B1850 ALA B1853 0 SHEET 2 AC4 3 TYR B1869 THR B1875 -1 O VAL B1874 N THR B1851 SHEET 3 AC4 3 SER B1921 ILE B1927 -1 O PHE B1926 N TYR B1870 SHEET 1 AC5 2 LEU B1878 TYR B1879 0 SHEET 2 AC5 2 GLU B1885 ILE B1886 -1 O ILE B1886 N LEU B1878 SHEET 1 AC6 5 ASN B1906 VAL B1909 0 SHEET 2 AC6 5 GLY B1897 THR B1901 -1 N GLY B1897 O VAL B1909 SHEET 3 AC6 5 ILE B1944 THR B1957 -1 O ALA B1945 N THR B1900 SHEET 4 AC6 5 ILE B1889 LEU B1894 -1 N THR B1891 O THR B1954 SHEET 5 AC6 5 SER B1912 ARG B1918 -1 O LEU B1915 N TYR B1892 SHEET 1 AC7 4 ASN B1906 VAL B1909 0 SHEET 2 AC7 4 GLY B1897 THR B1901 -1 N GLY B1897 O VAL B1909 SHEET 3 AC7 4 ILE B1944 THR B1957 -1 O ALA B1945 N THR B1900 SHEET 4 AC7 4 THR B1962 LEU B1971 -1 O SER B1963 N ILE B1956 SSBOND 1 CYS A 1859 CYS A 1939 1555 1555 2.03 SSBOND 2 CYS B 1859 CYS B 1939 1555 1555 2.03 CISPEP 1 ALA A 1652 PRO A 1653 0 -1.46 CISPEP 2 ALA B 1652 PRO B 1653 0 -0.74 SITE 1 AC1 2 ARG A1898 SER A1908 SITE 1 AC2 3 ILE B1856 THR B1857 HIS B1925 CRYST1 58.900 58.900 274.590 90.00 90.00 90.00 P 43 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 0.016978 0.000000 0.000000 0.00000 SCALE2 0.000000 0.016978 0.000000 0.00000 SCALE3 0.000000 0.000000 0.003642 0.00000