HEADER HYDROLASE 26-DEC-16 5MRS TITLE CRYSTAL STRUCTURE OF L1 PROTEASE LYSOBACTER SP. XL1 IN COMPLEX WITH TITLE 2 AEBSF COMPND MOL_ID: 1; COMPND 2 MOLECULE: LYTIC ENDOPEPTIDASE PREPROENZYME; COMPND 3 CHAIN: A, B, C, D; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: LYSOBACTER SP. (STRAIN XL1); SOURCE 3 ORGANISM_TAXID: 186334; SOURCE 4 GENE: ALPA; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS BACTERIOLYTIC PROTEASE L1, LYSOBACTER SP. XL1, CRYSTALS, HYDROLASE, KEYWDS 2 AEBSF EXPDTA X-RAY DIFFRACTION AUTHOR A.GABDULKHAKOV,S.TISHCHENKO,A.LISOV,A.LEONTIEVSKY REVDAT 3 23-OCT-24 5MRS 1 REMARK REVDAT 2 17-JAN-24 5MRS 1 REMARK REVDAT 1 17-JAN-18 5MRS 0 JRNL AUTH A.GABDULKHAKOV,S.TISHCHENKO,A.LISOV,A.LEONTIEVSKY JRNL TITL CRYSTAL STRUCTURE OF L1 PROTEASE LYSOBACTER SP. XL1 IN JRNL TITL 2 COMPLEX WITH AEBSF JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.11.1_2575: ???) 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) : 1.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 48.21 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.290 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.7 REMARK 3 NUMBER OF REFLECTIONS : 61461 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.203 REMARK 3 R VALUE (WORKING SET) : 0.201 REMARK 3 FREE R VALUE : 0.242 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.080 REMARK 3 FREE R VALUE TEST SET COUNT : 6124 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 48.2227 - 5.9003 0.99 3856 186 0.1748 0.1994 REMARK 3 2 5.9003 - 4.6845 1.00 3856 207 0.1397 0.1760 REMARK 3 3 4.6845 - 4.0927 0.98 3797 207 0.1194 0.1414 REMARK 3 4 4.0927 - 3.7186 1.00 3843 228 0.1395 0.1829 REMARK 3 5 3.7186 - 3.4522 1.00 3814 206 0.1637 0.1889 REMARK 3 6 3.4522 - 3.2487 1.00 3893 191 0.1848 0.2162 REMARK 3 7 3.2487 - 3.0860 0.97 3762 184 0.1973 0.2247 REMARK 3 8 3.0860 - 2.9517 0.99 3787 232 0.2043 0.2840 REMARK 3 9 2.9517 - 2.8381 0.99 3941 175 0.2026 0.2358 REMARK 3 10 2.8381 - 2.7402 0.99 3820 228 0.1989 0.2501 REMARK 3 11 2.7402 - 2.6545 1.00 3838 199 0.2036 0.2506 REMARK 3 12 2.6545 - 2.5786 1.00 3853 202 0.2182 0.3147 REMARK 3 13 2.5786 - 2.5107 1.00 3868 219 0.2286 0.3049 REMARK 3 14 2.5107 - 2.4495 0.97 3686 198 0.2283 0.2964 REMARK 3 15 2.4495 - 2.3938 0.96 3739 186 0.2318 0.2831 REMARK 3 16 2.3938 - 2.3429 0.98 3791 215 0.2186 0.2567 REMARK 3 17 2.3429 - 2.2960 0.99 3885 207 0.2333 0.2765 REMARK 3 18 2.2960 - 2.2527 0.99 3806 222 0.2367 0.3172 REMARK 3 19 2.2527 - 2.2124 1.00 3792 217 0.2372 0.2846 REMARK 3 20 2.2124 - 2.1749 0.99 3877 238 0.2559 0.3218 REMARK 3 21 2.1749 - 2.1399 1.00 3879 212 0.2494 0.2776 REMARK 3 22 2.1399 - 2.1069 1.00 3808 190 0.2635 0.3187 REMARK 3 23 2.1069 - 2.0759 1.00 3840 229 0.2741 0.2941 REMARK 3 24 2.0759 - 2.0467 0.99 3925 185 0.2624 0.2873 REMARK 3 25 2.0467 - 2.0190 0.96 3628 218 0.2808 0.3159 REMARK 3 26 2.0190 - 1.9928 0.95 3625 161 0.2882 0.3168 REMARK 3 27 1.9928 - 1.9679 0.98 3889 200 0.3132 0.3587 REMARK 3 28 1.9679 - 1.9442 0.98 3837 184 0.3135 0.3197 REMARK 3 29 1.9442 - 1.9216 0.99 3821 193 0.3204 0.3828 REMARK 3 30 1.9216 - 1.9000 0.99 3736 205 0.3131 0.3664 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) : 0.270 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 26.680 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 : 0.008 6025 REMARK 3 ANGLE : 0.881 8172 REMARK 3 CHIRALITY : 0.059 894 REMARK 3 PLANARITY : 0.005 1085 REMARK 3 DIHEDRAL : 11.599 4426 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL 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 5MRS COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 26-DEC-16. REMARK 100 THE DEPOSITION ID IS D_1200002912. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 10-JUL-15 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : BESSY REMARK 200 BEAMLINE : 14.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.96863 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 S 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 65564 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.860 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 200 DATA REDUNDANCY : 4.750 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 8.1300 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.86 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.97 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.5 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 1.700 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: 5MRR REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 51.24 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.52 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1,4M LITHIUM SULPHATE, 0,1M BISTRIS,, REMARK 280 PH 6.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 295K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 61.27650 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3, 4 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 350 REMARK 350 BIOMOLECULE: 3 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: C 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: 4 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: D 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 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 OG SER A 144 S AES A 204 1.85 REMARK 500 O GLU B 94 O HOH B 301 2.06 REMARK 500 OG SER D 144 O2S AES D 203 2.08 REMARK 500 OG SER C 144 F AES C 202 2.09 REMARK 500 OH TYR A 110 O HOH A 301 2.09 REMARK 500 OG SER B 144 F AES B 202 2.14 REMARK 500 NH2 ARG A 90 O HOH B 301 2.16 REMARK 500 OG SER C 144 O2S AES C 202 2.16 REMARK 500 O4 SO4 A 203 O HOH A 302 2.18 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 THR A 33 -168.58 -164.03 REMARK 500 PHE A 59 131.32 -172.00 REMARK 500 PRO A 60 -147.39 -82.28 REMARK 500 ASN A 62 -166.95 -105.62 REMARK 500 ASP A 63 78.37 -157.96 REMARK 500 SER A 83 31.02 -144.07 REMARK 500 PHE B 59 131.50 -174.04 REMARK 500 PRO B 60 -145.14 -77.74 REMARK 500 ALA C 14 -32.34 -136.21 REMARK 500 PRO C 60 -149.61 -83.38 REMARK 500 ASN C 62 -169.04 -101.65 REMARK 500 ASP C 63 78.35 -152.59 REMARK 500 TYR C 82 19.17 59.77 REMARK 500 THR D 33 -167.01 -166.65 REMARK 500 PRO D 60 -145.10 -79.78 REMARK 500 TYR D 82 17.49 56.09 REMARK 500 ASN D 123 79.63 -107.72 REMARK 500 REMARK 500 REMARK: NULL REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 AES A 204 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 203 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue AES A 204 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 205 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 206 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PGE A 207 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 B 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue AES B 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL B 203 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PEG B 204 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PEG B 205 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PEG B 206 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 C 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue AES C 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL C 203 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL C 204 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PEG C 205 REMARK 800 REMARK 800 SITE_IDENTIFIER: AE1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 D 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AE2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 D 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AE3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue AES D 203 REMARK 800 REMARK 800 SITE_IDENTIFIER: AE4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL D 204 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5MRR RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF L1 PROTEASE OF LYSOBACTER SP. XL1 DBREF 5MRS A 1 199 UNP D2K8B3 D2K8B3_LYSSX 200 398 DBREF 5MRS B 1 199 UNP D2K8B3 D2K8B3_LYSSX 200 398 DBREF 5MRS C 1 199 UNP D2K8B3 D2K8B3_LYSSX 200 398 DBREF 5MRS D 1 199 UNP D2K8B3 D2K8B3_LYSSX 200 398 SEQRES 1 A 199 VAL ASN VAL LEU GLY GLY ILE GLU TYR SER ILE ASN ASN SEQRES 2 A 199 ALA THR LEU CYS SER VAL GLY PHE SER VAL THR ARG GLY SEQRES 3 A 199 ALA THR LYS GLY PHE VAL THR ALA GLY HIS CYS GLY GLY SEQRES 4 A 199 VAL GLY ALA ILE VAL ARG ILE GLY GLY THR GLN VAL GLY SEQRES 5 A 199 SER PHE ALA ALA ARG VAL PHE PRO GLY ASN ASP ARG ALA SEQRES 6 A 199 TRP VAL SER VAL GLY SER ALA HIS THR LEU GLN GLY ALA SEQRES 7 A 199 VAL SER ASN TYR SER GLY GLY THR ILE ALA ILE ARG GLY SEQRES 8 A 199 SER ALA GLU ALA ALA ILE GLY ALA ALA VAL CYS ARG SER SEQRES 9 A 199 GLY ARG THR THR GLY TYR ARG CYS GLY ASN ILE THR ALA SEQRES 10 A 199 LYS ASN VAL THR ALA ASN TYR ALA GLU GLY ALA VAL ARG SEQRES 11 A 199 GLY LEU THR GLN GLY ASN ALA CYS MET GLY ARG GLY ASP SEQRES 12 A 199 SER GLY GLY SER TRP PHE THR SER ALA GLY GLN ALA GLN SEQRES 13 A 199 GLY VAL MET SER GLY GLY ASN VAL GLN SER ASN GLY ASN SEQRES 14 A 199 ASN CYS GLY ILE PRO ALA SER GLN ARG SER SER LEU PHE SEQRES 15 A 199 GLU ARG VAL GLY PRO ILE LEU SER GLN TYR GLY LEU SER SEQRES 16 A 199 LEU VAL THR SER SEQRES 1 B 199 VAL ASN VAL LEU GLY GLY ILE GLU TYR SER ILE ASN ASN SEQRES 2 B 199 ALA THR LEU CYS SER VAL GLY PHE SER VAL THR ARG GLY SEQRES 3 B 199 ALA THR LYS GLY PHE VAL THR ALA GLY HIS CYS GLY GLY SEQRES 4 B 199 VAL GLY ALA ILE VAL ARG ILE GLY GLY THR GLN VAL GLY SEQRES 5 B 199 SER PHE ALA ALA ARG VAL PHE PRO GLY ASN ASP ARG ALA SEQRES 6 B 199 TRP VAL SER VAL GLY SER ALA HIS THR LEU GLN GLY ALA SEQRES 7 B 199 VAL SER ASN TYR SER GLY GLY THR ILE ALA ILE ARG GLY SEQRES 8 B 199 SER ALA GLU ALA ALA ILE GLY ALA ALA VAL CYS ARG SER SEQRES 9 B 199 GLY ARG THR THR GLY TYR ARG CYS GLY ASN ILE THR ALA SEQRES 10 B 199 LYS ASN VAL THR ALA ASN TYR ALA GLU GLY ALA VAL ARG SEQRES 11 B 199 GLY LEU THR GLN GLY ASN ALA CYS MET GLY ARG GLY ASP SEQRES 12 B 199 SER GLY GLY SER TRP PHE THR SER ALA GLY GLN ALA GLN SEQRES 13 B 199 GLY VAL MET SER GLY GLY ASN VAL GLN SER ASN GLY ASN SEQRES 14 B 199 ASN CYS GLY ILE PRO ALA SER GLN ARG SER SER LEU PHE SEQRES 15 B 199 GLU ARG VAL GLY PRO ILE LEU SER GLN TYR GLY LEU SER SEQRES 16 B 199 LEU VAL THR SER SEQRES 1 C 199 VAL ASN VAL LEU GLY GLY ILE GLU TYR SER ILE ASN ASN SEQRES 2 C 199 ALA THR LEU CYS SER VAL GLY PHE SER VAL THR ARG GLY SEQRES 3 C 199 ALA THR LYS GLY PHE VAL THR ALA GLY HIS CYS GLY GLY SEQRES 4 C 199 VAL GLY ALA ILE VAL ARG ILE GLY GLY THR GLN VAL GLY SEQRES 5 C 199 SER PHE ALA ALA ARG VAL PHE PRO GLY ASN ASP ARG ALA SEQRES 6 C 199 TRP VAL SER VAL GLY SER ALA HIS THR LEU GLN GLY ALA SEQRES 7 C 199 VAL SER ASN TYR SER GLY GLY THR ILE ALA ILE ARG GLY SEQRES 8 C 199 SER ALA GLU ALA ALA ILE GLY ALA ALA VAL CYS ARG SER SEQRES 9 C 199 GLY ARG THR THR GLY TYR ARG CYS GLY ASN ILE THR ALA SEQRES 10 C 199 LYS ASN VAL THR ALA ASN TYR ALA GLU GLY ALA VAL ARG SEQRES 11 C 199 GLY LEU THR GLN GLY ASN ALA CYS MET GLY ARG GLY ASP SEQRES 12 C 199 SER GLY GLY SER TRP PHE THR SER ALA GLY GLN ALA GLN SEQRES 13 C 199 GLY VAL MET SER GLY GLY ASN VAL GLN SER ASN GLY ASN SEQRES 14 C 199 ASN CYS GLY ILE PRO ALA SER GLN ARG SER SER LEU PHE SEQRES 15 C 199 GLU ARG VAL GLY PRO ILE LEU SER GLN TYR GLY LEU SER SEQRES 16 C 199 LEU VAL THR SER SEQRES 1 D 199 VAL ASN VAL LEU GLY GLY ILE GLU TYR SER ILE ASN ASN SEQRES 2 D 199 ALA THR LEU CYS SER VAL GLY PHE SER VAL THR ARG GLY SEQRES 3 D 199 ALA THR LYS GLY PHE VAL THR ALA GLY HIS CYS GLY GLY SEQRES 4 D 199 VAL GLY ALA ILE VAL ARG ILE GLY GLY THR GLN VAL GLY SEQRES 5 D 199 SER PHE ALA ALA ARG VAL PHE PRO GLY ASN ASP ARG ALA SEQRES 6 D 199 TRP VAL SER VAL GLY SER ALA HIS THR LEU GLN GLY ALA SEQRES 7 D 199 VAL SER ASN TYR SER GLY GLY THR ILE ALA ILE ARG GLY SEQRES 8 D 199 SER ALA GLU ALA ALA ILE GLY ALA ALA VAL CYS ARG SER SEQRES 9 D 199 GLY ARG THR THR GLY TYR ARG CYS GLY ASN ILE THR ALA SEQRES 10 D 199 LYS ASN VAL THR ALA ASN TYR ALA GLU GLY ALA VAL ARG SEQRES 11 D 199 GLY LEU THR GLN GLY ASN ALA CYS MET GLY ARG GLY ASP SEQRES 12 D 199 SER GLY GLY SER TRP PHE THR SER ALA GLY GLN ALA GLN SEQRES 13 D 199 GLY VAL MET SER GLY GLY ASN VAL GLN SER ASN GLY ASN SEQRES 14 D 199 ASN CYS GLY ILE PRO ALA SER GLN ARG SER SER LEU PHE SEQRES 15 D 199 GLU ARG VAL GLY PRO ILE LEU SER GLN TYR GLY LEU SER SEQRES 16 D 199 LEU VAL THR SER HET SO4 A 201 5 HET SO4 A 202 5 HET SO4 A 203 5 HET AES A 204 12 HET GOL A 205 6 HET GOL A 206 6 HET PGE A 207 10 HET SO4 B 201 5 HET AES B 202 13 HET CL B 203 1 HET PEG B 204 7 HET PEG B 205 7 HET PEG B 206 7 HET SO4 C 201 5 HET AES C 202 13 HET CL C 203 1 HET GOL C 204 6 HET PEG C 205 7 HET SO4 D 201 5 HET SO4 D 202 5 HET AES D 203 13 HET GOL D 204 6 HETNAM SO4 SULFATE ION HETNAM AES 4-(2-AMINOETHYL)BENZENESULFONYL FLUORIDE HETNAM GOL GLYCEROL HETNAM PGE TRIETHYLENE GLYCOL HETNAM CL CHLORIDE ION HETNAM PEG DI(HYDROXYETHYL)ETHER HETSYN AES AEBSF HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 5 SO4 7(O4 S 2-) FORMUL 8 AES 4(C8 H10 F N O2 S) FORMUL 9 GOL 4(C3 H8 O3) FORMUL 11 PGE C6 H14 O4 FORMUL 14 CL 2(CL 1-) FORMUL 15 PEG 4(C4 H10 O3) FORMUL 27 HOH *310(H2 O) HELIX 1 AA1 ALA A 34 GLY A 38 5 5 HELIX 2 AA2 PRO A 174 ARG A 178 5 5 HELIX 3 AA3 VAL A 185 GLY A 193 1 9 HELIX 4 AA4 ALA B 34 GLY B 38 5 5 HELIX 5 AA5 PRO B 174 ARG B 178 5 5 HELIX 6 AA6 VAL B 185 TYR B 192 1 8 HELIX 7 AA7 ALA C 34 GLY C 38 5 5 HELIX 8 AA8 PRO C 174 ARG C 178 5 5 HELIX 9 AA9 VAL C 185 GLY C 193 1 9 HELIX 10 AB1 ALA D 34 GLY D 38 5 5 HELIX 11 AB2 PRO D 174 ARG D 178 5 5 HELIX 12 AB3 VAL D 185 GLY D 193 1 9 SHEET 1 AA1 3 ASN A 2 GLY A 5 0 SHEET 2 AA1 3 THR A 74 SER A 80 1 O THR A 74 N VAL A 3 SHEET 3 AA1 3 THR A 86 ALA A 88 -1 O ILE A 87 N VAL A 79 SHEET 1 AA2 8 THR A 15 SER A 18 0 SHEET 2 AA2 8 GLU A 8 ILE A 11 -1 N ILE A 11 O THR A 15 SHEET 3 AA2 8 ILE A 43 ILE A 46 -1 O ARG A 45 N SER A 10 SHEET 4 AA2 8 THR A 49 VAL A 58 -1 O GLY A 52 N VAL A 44 SHEET 5 AA2 8 ARG A 64 VAL A 69 -1 O ARG A 64 N VAL A 58 SHEET 6 AA2 8 THR A 28 THR A 33 -1 N LYS A 29 O VAL A 69 SHEET 7 AA2 8 PHE A 21 ARG A 25 -1 N VAL A 23 O GLY A 30 SHEET 8 AA2 8 SER A 195 LEU A 196 -1 O SER A 195 N THR A 24 SHEET 1 AA3 7 ALA A 100 GLY A 105 0 SHEET 2 AA3 7 GLY A 109 TYR A 124 -1 O GLY A 113 N VAL A 101 SHEET 3 AA3 7 GLY A 127 GLY A 135 -1 O LEU A 132 N VAL A 120 SHEET 4 AA3 7 SER A 180 ARG A 184 -1 O SER A 180 N GLY A 135 SHEET 5 AA3 7 ALA A 155 GLY A 162 -1 N GLY A 161 O LEU A 181 SHEET 6 AA3 7 SER A 147 PHE A 149 -1 N TRP A 148 O GLN A 156 SHEET 7 AA3 7 ALA A 100 GLY A 105 -1 N CYS A 102 O PHE A 149 SHEET 1 AA4 3 ASN B 2 GLY B 5 0 SHEET 2 AA4 3 THR B 74 SER B 80 1 O THR B 74 N VAL B 3 SHEET 3 AA4 3 THR B 86 ALA B 88 -1 O ILE B 87 N VAL B 79 SHEET 1 AA5 8 THR B 15 SER B 18 0 SHEET 2 AA5 8 GLU B 8 ILE B 11 -1 N ILE B 11 O THR B 15 SHEET 3 AA5 8 ILE B 43 ILE B 46 -1 O ARG B 45 N SER B 10 SHEET 4 AA5 8 THR B 49 VAL B 58 -1 O GLY B 52 N VAL B 44 SHEET 5 AA5 8 ARG B 64 VAL B 69 -1 O ARG B 64 N VAL B 58 SHEET 6 AA5 8 THR B 28 THR B 33 -1 N PHE B 31 O VAL B 67 SHEET 7 AA5 8 PHE B 21 ARG B 25 -1 N ARG B 25 O THR B 28 SHEET 8 AA5 8 SER B 195 LEU B 196 -1 O SER B 195 N THR B 24 SHEET 1 AA6 7 ALA B 100 GLY B 105 0 SHEET 2 AA6 7 GLY B 109 TYR B 124 -1 O GLY B 113 N VAL B 101 SHEET 3 AA6 7 GLY B 127 GLY B 135 -1 O LEU B 132 N VAL B 120 SHEET 4 AA6 7 SER B 180 ARG B 184 -1 O PHE B 182 N THR B 133 SHEET 5 AA6 7 ALA B 155 GLY B 162 -1 N GLY B 161 O LEU B 181 SHEET 6 AA6 7 SER B 147 PHE B 149 -1 N TRP B 148 O GLN B 156 SHEET 7 AA6 7 ALA B 100 GLY B 105 -1 N CYS B 102 O PHE B 149 SHEET 1 AA7 3 ASN C 2 GLY C 5 0 SHEET 2 AA7 3 THR C 74 SER C 80 1 O THR C 74 N VAL C 3 SHEET 3 AA7 3 THR C 86 ALA C 88 -1 O ILE C 87 N VAL C 79 SHEET 1 AA8 8 THR C 15 SER C 18 0 SHEET 2 AA8 8 GLU C 8 ILE C 11 -1 N TYR C 9 O CYS C 17 SHEET 3 AA8 8 ILE C 43 ARG C 45 -1 O ARG C 45 N SER C 10 SHEET 4 AA8 8 GLN C 50 VAL C 58 -1 O GLY C 52 N VAL C 44 SHEET 5 AA8 8 ARG C 64 VAL C 69 -1 O SER C 68 N SER C 53 SHEET 6 AA8 8 THR C 28 THR C 33 -1 N PHE C 31 O VAL C 67 SHEET 7 AA8 8 PHE C 21 ARG C 25 -1 N VAL C 23 O GLY C 30 SHEET 8 AA8 8 SER C 195 LEU C 196 -1 O SER C 195 N THR C 24 SHEET 1 AA9 7 ALA C 100 GLY C 105 0 SHEET 2 AA9 7 GLY C 109 TYR C 124 -1 O ARG C 111 N ARG C 103 SHEET 3 AA9 7 GLY C 127 GLY C 135 -1 O LEU C 132 N VAL C 120 SHEET 4 AA9 7 SER C 180 ARG C 184 -1 O PHE C 182 N THR C 133 SHEET 5 AA9 7 ALA C 155 GLY C 162 -1 N GLY C 161 O LEU C 181 SHEET 6 AA9 7 SER C 147 PHE C 149 -1 N TRP C 148 O GLN C 156 SHEET 7 AA9 7 ALA C 100 GLY C 105 -1 N CYS C 102 O PHE C 149 SHEET 1 AB1 3 ASN D 2 GLY D 5 0 SHEET 2 AB1 3 THR D 74 SER D 80 1 O THR D 74 N VAL D 3 SHEET 3 AB1 3 THR D 86 ALA D 88 -1 O ILE D 87 N VAL D 79 SHEET 1 AB2 8 THR D 15 SER D 18 0 SHEET 2 AB2 8 GLU D 8 ILE D 11 -1 N TYR D 9 O CYS D 17 SHEET 3 AB2 8 ILE D 43 ILE D 46 -1 O ARG D 45 N SER D 10 SHEET 4 AB2 8 THR D 49 VAL D 58 -1 O GLY D 52 N VAL D 44 SHEET 5 AB2 8 ARG D 64 VAL D 69 -1 O TRP D 66 N ALA D 55 SHEET 6 AB2 8 THR D 28 THR D 33 -1 N LYS D 29 O VAL D 69 SHEET 7 AB2 8 PHE D 21 ARG D 25 -1 N VAL D 23 O GLY D 30 SHEET 8 AB2 8 SER D 195 LEU D 196 -1 O SER D 195 N THR D 24 SHEET 1 AB3 7 ALA D 100 GLY D 105 0 SHEET 2 AB3 7 GLY D 109 TYR D 124 -1 O ARG D 111 N ARG D 103 SHEET 3 AB3 7 GLY D 127 GLY D 135 -1 O LEU D 132 N VAL D 120 SHEET 4 AB3 7 SER D 180 ARG D 184 -1 O PHE D 182 N THR D 133 SHEET 5 AB3 7 ALA D 155 GLY D 162 -1 N GLY D 161 O LEU D 181 SHEET 6 AB3 7 SER D 147 PHE D 149 -1 N TRP D 148 O GLN D 156 SHEET 7 AB3 7 ALA D 100 GLY D 105 -1 N CYS D 102 O PHE D 149 SSBOND 1 CYS A 17 CYS A 37 1555 1555 2.06 SSBOND 2 CYS A 102 CYS A 112 1555 1555 2.05 SSBOND 3 CYS A 138 CYS A 171 1555 1555 2.03 SSBOND 4 CYS B 17 CYS B 37 1555 1555 2.06 SSBOND 5 CYS B 102 CYS B 112 1555 1555 2.06 SSBOND 6 CYS B 138 CYS B 171 1555 1555 2.04 SSBOND 7 CYS C 17 CYS C 37 1555 1555 2.05 SSBOND 8 CYS C 102 CYS C 112 1555 1555 2.06 SSBOND 9 CYS C 138 CYS C 171 1555 1555 2.04 SSBOND 10 CYS D 17 CYS D 37 1555 1555 2.04 SSBOND 11 CYS D 102 CYS D 112 1555 1555 2.04 SSBOND 12 CYS D 138 CYS D 171 1555 1555 2.04 CISPEP 1 PHE A 59 PRO A 60 0 -1.23 CISPEP 2 PHE B 59 PRO B 60 0 -3.22 CISPEP 3 PHE C 59 PRO C 60 0 -2.12 CISPEP 4 PHE D 59 PRO D 60 0 -1.42 SITE 1 AC1 10 ARG A 111 CYS A 138 ARG A 178 HOH A 319 SITE 2 AC1 10 HOH A 336 HOH A 345 HOH A 352 ARG C 111 SITE 3 AC1 10 ARG C 178 HOH C 312 SITE 1 AC2 4 ALA A 96 ILE A 97 LYS A 118 THR B 198 SITE 1 AC3 4 SER A 71 HOH A 302 HOH A 303 HOH A 370 SITE 1 AC4 8 GLY A 140 ARG A 141 GLY A 142 ASP A 143 SITE 2 AC4 8 SER A 144 MET A 159 GLY A 161 VAL A 164 SITE 1 AC5 3 ARG A 45 GLY A 48 GLN A 50 SITE 1 AC6 1 ARG A 184 SITE 1 AC7 7 THR A 107 ARG A 111 ASN A 167 ASN A 169 SITE 2 AC7 7 CYS A 171 GLY A 172 HOH A 315 SITE 1 AC8 3 ARG A 130 ARG B 130 HOH B 302 SITE 1 AC9 10 MET B 139 GLY B 140 ARG B 141 GLY B 142 SITE 2 AC9 10 ASP B 143 SER B 144 MET B 159 GLY B 161 SITE 3 AC9 10 GLY B 162 HOH B 303 SITE 1 AD1 1 LYS B 118 SITE 1 AD2 5 GLY B 39 VAL B 40 ARG B 57 HOH B 318 SITE 2 AD2 5 HOH B 361 SITE 1 AD3 5 ARG B 111 ASN B 167 ASN B 169 CYS B 171 SITE 2 AD3 5 TYR D 110 SITE 1 AD4 2 ASN B 13 ALA B 14 SITE 1 AD5 2 ARG C 45 GLN C 50 SITE 1 AD6 12 TYR C 124 MET C 139 GLY C 140 ARG C 141 SITE 2 AD6 12 GLY C 142 SER C 144 MET C 159 SER C 160 SITE 3 AD6 12 GLY C 161 GLY C 162 HOH C 305 HOH C 339 SITE 1 AD7 1 ALA C 100 SITE 1 AD8 2 ARG C 184 PRO C 187 SITE 1 AD9 7 GLY C 39 VAL C 40 ARG C 57 VAL C 58 SITE 2 AD9 7 PHE C 59 HOH C 317 HOH C 327 SITE 1 AE1 11 ARG B 111 CYS B 138 ARG B 178 HOH B 329 SITE 2 AE1 11 ARG D 111 CYS D 138 ARG D 178 HOH D 309 SITE 3 AE1 11 HOH D 312 HOH D 314 HOH D 342 SITE 1 AE2 3 ASN B 81 HOH B 383 ARG D 90 SITE 1 AE3 9 MET D 139 GLY D 140 ARG D 141 GLY D 142 SITE 2 AE3 9 ASP D 143 SER D 144 MET D 159 SER D 160 SITE 3 AE3 9 GLY D 162 SITE 1 AE4 3 ALA D 96 ILE D 97 LYS D 118 CRYST1 41.855 122.553 78.988 90.00 98.64 90.00 P 1 21 1 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 0.023892 0.000000 0.003630 0.00000 SCALE2 0.000000 0.008160 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012805 0.00000