HEADER PROTEIN BINDING 11-DEC-19 6TOP TITLE STRUCTURE OF THE PORE C-TERMINAL DOMAIN, A PROTEIN OF T9SS FROM TITLE 2 PORPHYROMONAS GINGIVALIS COMPND MOL_ID: 1; COMPND 2 MOLECULE: OMPA FAMILY PROTEIN; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: OMPA FAMILY PROTEIN; COMPND 7 CHAIN: B, C, D; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PORPHYROMONAS GINGIVALIS JCVI SC001; SOURCE 3 ORGANISM_TAXID: 1195243; SOURCE 4 GENE: A343_1565; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 MOL_ID: 2; SOURCE 8 ORGANISM_SCIENTIFIC: PORPHYROMONAS GINGIVALIS JCVI SC001; SOURCE 9 ORGANISM_TAXID: 1195243; SOURCE 10 GENE: A343_1565; SOURCE 11 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 12 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS PEPTIDOGLYCAN BINDING PROTEIN TYPE IX SECRETION SYSTEM PORPHYROMONAS KEYWDS 2 GINGIVALIS, PROTEIN BINDING EXPDTA X-RAY DIFFRACTION AUTHOR T.N.TRINH,C.CAMBILLAU,A.ROUSSEL,P.LEONE REVDAT 2 15-MAY-24 6TOP 1 LINK REVDAT 1 17-JUN-20 6TOP 0 SPRSDE 17-JUN-20 6TOP 6I9O JRNL AUTH N.T.T.TRINH,H.Q.TRAN,Q.VAN DONG,C.CAMBILLAU,A.ROUSSEL, JRNL AUTH 2 P.LEONE JRNL TITL CRYSTAL STRUCTURE OF TYPE IX SECRETION SYSTEM PORE JRNL TITL 2 C-TERMINAL DOMAIN FROM PORPHYROMONAS GINGIVALIS IN COMPLEX JRNL TITL 3 WITH A PEPTIDOGLYCAN FRAGMENT. JRNL REF SCI REP V. 10 7384 2020 JRNL REFN ESSN 2045-2322 JRNL PMID 32355178 JRNL DOI 10.1038/S41598-020-64115-Z REMARK 2 REMARK 2 RESOLUTION. 1.55 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : BUSTER 2.10.3 (3-OCT-2019) REMARK 3 AUTHORS : BRICOGNE,BLANC,BRANDL,FLENSBURG,KELLER, REMARK 3 : PACIOREK,ROVERSI,SHARFF,SMART,VONRHEIN, REMARK 3 : WOMACK,MATTHEWS,TEN EYCK,TRONRUD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.55 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 49.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.6 REMARK 3 NUMBER OF REFLECTIONS : 96279 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.191 REMARK 3 R VALUE (WORKING SET) : 0.190 REMARK 3 FREE R VALUE : 0.215 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.960 REMARK 3 FREE R VALUE TEST SET COUNT : 4772 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 50 REMARK 3 BIN RESOLUTION RANGE HIGH (ANGSTROMS) : 1.55 REMARK 3 BIN RESOLUTION RANGE LOW (ANGSTROMS) : 2.00 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 73.14 REMARK 3 REFLECTIONS IN BIN (WORKING + TEST SET) : 1926 REMARK 3 BIN R VALUE (WORKING + TEST SET) : 0.3205 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 1813 REMARK 3 BIN R VALUE (WORKING SET) : 0.3200 REMARK 3 BIN FREE R VALUE : 0.3276 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 5.87 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 113 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4812 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 125 REMARK 3 SOLVENT ATOMS : 754 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 29.26 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 36.30 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.80870 REMARK 3 B22 (A**2) : 1.48980 REMARK 3 B33 (A**2) : -0.68110 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.56180 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.220 REMARK 3 DPI (BLOW EQ-10) BASED ON R VALUE (A) : 0.088 REMARK 3 DPI (BLOW EQ-9) BASED ON FREE R VALUE (A) : 0.085 REMARK 3 DPI (CRUICKSHANK) BASED ON R VALUE (A) : 0.083 REMARK 3 DPI (CRUICKSHANK) BASED ON FREE R VALUE (A) : 0.082 REMARK 3 REMARK 3 REFERENCES: BLOW, D. (2002) ACTA CRYST D58, 792-797 REMARK 3 CRUICKSHANK, D.W.J. (1999) ACTA CRYST D55, 583-601 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.965 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.961 REMARK 3 REMARK 3 NUMBER OF GEOMETRIC FUNCTION TERMS DEFINED : 15 REMARK 3 TERM COUNT WEIGHT FUNCTION. REMARK 3 BOND LENGTHS : 5022 ; 2.000 ; HARMONIC REMARK 3 BOND ANGLES : 6784 ; 2.000 ; HARMONIC REMARK 3 TORSION ANGLES : 1853 ; 2.000 ; SINUSOIDAL REMARK 3 TRIGONAL CARBON PLANES : NULL ; NULL ; NULL REMARK 3 GENERAL PLANES : 876 ; 5.000 ; HARMONIC REMARK 3 ISOTROPIC THERMAL FACTORS : 5022 ; 10.000 ; HARMONIC REMARK 3 BAD NON-BONDED CONTACTS : NULL ; NULL ; NULL REMARK 3 IMPROPER TORSIONS : NULL ; NULL ; NULL REMARK 3 PSEUDOROTATION ANGLES : NULL ; NULL ; NULL REMARK 3 CHIRAL IMPROPER TORSION : 661 ; 5.000 ; SEMIHARMONIC REMARK 3 SUM OF OCCUPANCIES : NULL ; NULL ; NULL REMARK 3 UTILITY DISTANCES : NULL ; NULL ; NULL REMARK 3 UTILITY ANGLES : NULL ; NULL ; NULL REMARK 3 UTILITY TORSION : NULL ; NULL ; NULL REMARK 3 IDEAL-DIST CONTACT TERM : 5363 ; 4.000 ; SEMIHARMONIC REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.008 REMARK 3 BOND ANGLES (DEGREES) : 0.95 REMARK 3 PEPTIDE OMEGA TORSION ANGLES (DEGREES) : 3.82 REMARK 3 OTHER TORSION ANGLES (DEGREES) : 13.61 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 4 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: { A|* } REMARK 3 ORIGIN FOR THE GROUP (A): 66.2310 -7.4856 -8.8948 REMARK 3 T TENSOR REMARK 3 T11: -0.0843 T22: 0.0485 REMARK 3 T33: -0.0705 T12: -0.0408 REMARK 3 T13: 0.0196 T23: -0.0305 REMARK 3 L TENSOR REMARK 3 L11: 1.3740 L22: 0.9283 REMARK 3 L33: 1.4759 L12: 0.5312 REMARK 3 L13: -0.0000 L23: -0.0262 REMARK 3 S TENSOR REMARK 3 S11: -0.1110 S12: 0.2451 S13: -0.1575 REMARK 3 S21: -0.0747 S22: 0.1559 S23: -0.0603 REMARK 3 S31: 0.0698 S32: -0.0163 S33: -0.0449 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: { B|* } REMARK 3 ORIGIN FOR THE GROUP (A): 61.4726 11.8323 15.1289 REMARK 3 T TENSOR REMARK 3 T11: -0.0902 T22: 0.0154 REMARK 3 T33: -0.0570 T12: 0.0492 REMARK 3 T13: -0.0181 T23: -0.0228 REMARK 3 L TENSOR REMARK 3 L11: 1.5053 L22: 1.1007 REMARK 3 L33: 1.9650 L12: 0.4437 REMARK 3 L13: 0.4521 L23: 0.0489 REMARK 3 S TENSOR REMARK 3 S11: -0.0687 S12: -0.0853 S13: 0.1987 REMARK 3 S21: 0.0122 S22: -0.0607 S23: 0.1266 REMARK 3 S31: -0.1736 S32: -0.2939 S33: 0.1295 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: { C|* } REMARK 3 ORIGIN FOR THE GROUP (A): 89.2134 -2.9776 -7.9581 REMARK 3 T TENSOR REMARK 3 T11: -0.1499 T22: 0.0946 REMARK 3 T33: -0.0777 T12: -0.0787 REMARK 3 T13: 0.0417 T23: -0.0650 REMARK 3 L TENSOR REMARK 3 L11: 1.9199 L22: 1.3869 REMARK 3 L33: 2.3117 L12: 0.5008 REMARK 3 L13: -0.1688 L23: 0.2393 REMARK 3 S TENSOR REMARK 3 S11: -0.1892 S12: 0.4350 S13: -0.2282 REMARK 3 S21: -0.1101 S22: 0.1834 S23: -0.2305 REMARK 3 S31: -0.0206 S32: 0.3913 S33: 0.0058 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: { D|* } REMARK 3 ORIGIN FOR THE GROUP (A): 84.1659 12.8181 19.0460 REMARK 3 T TENSOR REMARK 3 T11: -0.0414 T22: -0.1028 REMARK 3 T33: -0.0234 T12: 0.0042 REMARK 3 T13: -0.0428 T23: 0.0200 REMARK 3 L TENSOR REMARK 3 L11: 1.6320 L22: 0.8765 REMARK 3 L33: 1.8908 L12: 0.2816 REMARK 3 L13: 0.5599 L23: 0.5736 REMARK 3 S TENSOR REMARK 3 S11: -0.0696 S12: 0.0535 S13: 0.0876 REMARK 3 S21: 0.0199 S22: -0.0035 S23: -0.0538 REMARK 3 S31: -0.1322 S32: 0.0180 S33: 0.0731 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 6TOP COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 11-DEC-19. REMARK 100 THE DEPOSITION ID IS D_1292105701. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 18-JUL-18 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 : SOLEIL REMARK 200 BEAMLINE : PROXIMA 1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97911 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 : 96340 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.550 REMARK 200 RESOLUTION RANGE LOW (A) : 49.350 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.6 REMARK 200 DATA REDUNDANCY : 22.00 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 19.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.55 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.59 REMARK 200 COMPLETENESS FOR SHELL (%) : 77.6 REMARK 200 DATA REDUNDANCY IN SHELL : 14.00 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD 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 (%): 48.18 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.38 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M SODIUM ACETATE 0.1M MES 30% (W/V) REMARK 280 PEG2000, PH 6.5, 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 104.01500 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 26.11000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 104.01500 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 26.11000 REMARK 290 SMTRY3 4 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 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 HIS A -19 CG ND1 CD2 CE1 NE2 REMARK 470 LYS A 593 CG CD CE NZ REMARK 470 ASP A 631 CG OD1 OD2 REMARK 470 GLU A 649 OE1 OE2 REMARK 470 GLU A 650 CD OE1 OE2 REMARK 470 LYS B 634 CG CD CE NZ REMARK 470 GLU C 650 CD OE1 OE2 REMARK 470 GLU D 628 CG CD OE1 OE2 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 -17 36.76 -90.59 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 MLD A 701 REMARK 610 MLD B 701 REMARK 610 MLD C 701 REMARK 610 MLD D 701 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 NA A 702 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ALA A 627 O REMARK 620 2 HIS A 630 O 78.3 REMARK 620 3 LEU A 633 O 104.7 83.3 REMARK 620 4 HOH A 804 O 149.6 114.2 104.3 REMARK 620 5 HOH A 917 O 71.8 87.7 170.9 80.8 REMARK 620 6 HOH A 951 O 91.7 169.6 96.7 76.0 91.9 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA B 702 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ALA B 627 O REMARK 620 2 HIS B 630 O 80.6 REMARK 620 3 LEU B 633 O 106.2 86.2 REMARK 620 4 HOH B 839 O 166.5 106.4 85.9 REMARK 620 5 HOH B 937 O 83.7 93.0 169.7 84.5 REMARK 620 6 HOH B 954 O 90.5 170.8 93.9 82.8 88.5 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA C 702 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ALA C 627 O REMARK 620 2 HIS C 630 O 84.4 REMARK 620 3 LEU C 633 O 112.8 91.9 REMARK 620 4 HOH C 830 O 66.3 101.4 166.4 REMARK 620 5 HOH C 931 O 95.1 178.1 86.6 80.0 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA D 702 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH C 898 O REMARK 620 2 ALA D 627 O 85.1 REMARK 620 3 HIS D 630 O 167.5 85.5 REMARK 620 4 LEU D 633 O 87.2 105.1 87.2 REMARK 620 5 HOH D 922 O 97.6 73.0 87.6 174.6 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 MLD A 701 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA A 702 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MLD B 701 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA B 702 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MLD C 701 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA C 702 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MLD D 701 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA D 702 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 6I9O RELATED DB: PDB DBREF 6TOP A 534 668 UNP T2NEY1 T2NEY1_PORGN 534 668 DBREF 6TOP B 534 668 UNP T2NEY1 T2NEY1_PORGN 534 668 DBREF 6TOP C 534 668 UNP T2NEY1 T2NEY1_PORGN 534 668 DBREF 6TOP D 534 668 UNP T2NEY1 T2NEY1_PORGN 534 668 SEQADV 6TOP HIS A -19 UNP T2NEY1 EXPRESSION TAG SEQADV 6TOP HIS A -18 UNP T2NEY1 EXPRESSION TAG SEQADV 6TOP HIS A -17 UNP T2NEY1 EXPRESSION TAG SEQADV 6TOP HIS A -16 UNP T2NEY1 EXPRESSION TAG SEQADV 6TOP SER A -15 UNP T2NEY1 EXPRESSION TAG SEQADV 6TOP SER A -14 UNP T2NEY1 EXPRESSION TAG SEQADV 6TOP GLY A -13 UNP T2NEY1 EXPRESSION TAG SEQADV 6TOP VAL A -12 UNP T2NEY1 EXPRESSION TAG SEQADV 6TOP ASP A -11 UNP T2NEY1 EXPRESSION TAG SEQADV 6TOP LEU A -10 UNP T2NEY1 EXPRESSION TAG SEQADV 6TOP GLY A -9 UNP T2NEY1 EXPRESSION TAG SEQADV 6TOP THR A -8 UNP T2NEY1 EXPRESSION TAG SEQADV 6TOP GLU A -7 UNP T2NEY1 EXPRESSION TAG SEQADV 6TOP ASN A -6 UNP T2NEY1 EXPRESSION TAG SEQADV 6TOP LEU A -5 UNP T2NEY1 EXPRESSION TAG SEQADV 6TOP TYR A -4 UNP T2NEY1 EXPRESSION TAG SEQADV 6TOP PHE A -3 UNP T2NEY1 EXPRESSION TAG SEQADV 6TOP GLN A -2 UNP T2NEY1 EXPRESSION TAG SEQADV 6TOP SER A -1 UNP T2NEY1 EXPRESSION TAG SEQADV 6TOP SER B -15 UNP T2NEY1 EXPRESSION TAG SEQADV 6TOP SER B -14 UNP T2NEY1 EXPRESSION TAG SEQADV 6TOP GLY B -13 UNP T2NEY1 EXPRESSION TAG SEQADV 6TOP VAL B -12 UNP T2NEY1 EXPRESSION TAG SEQADV 6TOP ASP B -11 UNP T2NEY1 EXPRESSION TAG SEQADV 6TOP LEU B -10 UNP T2NEY1 EXPRESSION TAG SEQADV 6TOP GLY B -9 UNP T2NEY1 EXPRESSION TAG SEQADV 6TOP THR B -8 UNP T2NEY1 EXPRESSION TAG SEQADV 6TOP GLU B -7 UNP T2NEY1 EXPRESSION TAG SEQADV 6TOP ASN B -6 UNP T2NEY1 EXPRESSION TAG SEQADV 6TOP LEU B -5 UNP T2NEY1 EXPRESSION TAG SEQADV 6TOP TYR B -4 UNP T2NEY1 EXPRESSION TAG SEQADV 6TOP PHE B -3 UNP T2NEY1 EXPRESSION TAG SEQADV 6TOP GLN B -2 UNP T2NEY1 EXPRESSION TAG SEQADV 6TOP SER B -1 UNP T2NEY1 EXPRESSION TAG SEQADV 6TOP SER C -15 UNP T2NEY1 EXPRESSION TAG SEQADV 6TOP SER C -14 UNP T2NEY1 EXPRESSION TAG SEQADV 6TOP GLY C -13 UNP T2NEY1 EXPRESSION TAG SEQADV 6TOP VAL C -12 UNP T2NEY1 EXPRESSION TAG SEQADV 6TOP ASP C -11 UNP T2NEY1 EXPRESSION TAG SEQADV 6TOP LEU C -10 UNP T2NEY1 EXPRESSION TAG SEQADV 6TOP GLY C -9 UNP T2NEY1 EXPRESSION TAG SEQADV 6TOP THR C -8 UNP T2NEY1 EXPRESSION TAG SEQADV 6TOP GLU C -7 UNP T2NEY1 EXPRESSION TAG SEQADV 6TOP ASN C -6 UNP T2NEY1 EXPRESSION TAG SEQADV 6TOP LEU C -5 UNP T2NEY1 EXPRESSION TAG SEQADV 6TOP TYR C -4 UNP T2NEY1 EXPRESSION TAG SEQADV 6TOP PHE C -3 UNP T2NEY1 EXPRESSION TAG SEQADV 6TOP GLN C -2 UNP T2NEY1 EXPRESSION TAG SEQADV 6TOP SER C -1 UNP T2NEY1 EXPRESSION TAG SEQADV 6TOP SER D -15 UNP T2NEY1 EXPRESSION TAG SEQADV 6TOP SER D -14 UNP T2NEY1 EXPRESSION TAG SEQADV 6TOP GLY D -13 UNP T2NEY1 EXPRESSION TAG SEQADV 6TOP VAL D -12 UNP T2NEY1 EXPRESSION TAG SEQADV 6TOP ASP D -11 UNP T2NEY1 EXPRESSION TAG SEQADV 6TOP LEU D -10 UNP T2NEY1 EXPRESSION TAG SEQADV 6TOP GLY D -9 UNP T2NEY1 EXPRESSION TAG SEQADV 6TOP THR D -8 UNP T2NEY1 EXPRESSION TAG SEQADV 6TOP GLU D -7 UNP T2NEY1 EXPRESSION TAG SEQADV 6TOP ASN D -6 UNP T2NEY1 EXPRESSION TAG SEQADV 6TOP LEU D -5 UNP T2NEY1 EXPRESSION TAG SEQADV 6TOP TYR D -4 UNP T2NEY1 EXPRESSION TAG SEQADV 6TOP PHE D -3 UNP T2NEY1 EXPRESSION TAG SEQADV 6TOP GLN D -2 UNP T2NEY1 EXPRESSION TAG SEQADV 6TOP SER D -1 UNP T2NEY1 EXPRESSION TAG SEQRES 1 A 154 HIS HIS HIS HIS SER SER GLY VAL ASP LEU GLY THR GLU SEQRES 2 A 154 ASN LEU TYR PHE GLN SER LEU GLN ASN ILE PHE TYR ASP SEQRES 3 A 154 PHE ASP LYS ALA THR LEU ARG PRO GLU SER MET LYS SER SEQRES 4 A 154 LEU ASP GLU LEU ILE ARG ILE LEU THR ASP ASN PRO ASP SEQRES 5 A 154 ILE ARG ILE GLU LEU GLY SER HIS ALA ASP ARG LYS GLY SEQRES 6 A 154 PRO ASP ALA TYR ASN LEU GLY LEU SER ASP ARG ARG ALA SEQRES 7 A 154 LYS SER VAL VAL ASP TYR LEU THR SER ARG GLY ILE ALA SEQRES 8 A 154 ALA ASP ARG LEU THR TRP LYS GLY TYR GLY LYS SER VAL SEQRES 9 A 154 PRO LYS THR VAL THR ALA LYS ILE ALA GLU ARG HIS ASP SEQRES 10 A 154 PHE LEU LYS GLU GLY ASP VAL LEU THR GLU GLU PHE VAL SEQRES 11 A 154 ALA PRO LEU THR GLU GLU GLN GLN SER VAL CYS ASP GLN SEQRES 12 A 154 LEU ASN ARG ARG THR GLU PHE ARG VAL ILE GLU SEQRES 1 B 150 SER SER GLY VAL ASP LEU GLY THR GLU ASN LEU TYR PHE SEQRES 2 B 150 GLN SER LEU GLN ASN ILE PHE TYR ASP PHE ASP LYS ALA SEQRES 3 B 150 THR LEU ARG PRO GLU SER MET LYS SER LEU ASP GLU LEU SEQRES 4 B 150 ILE ARG ILE LEU THR ASP ASN PRO ASP ILE ARG ILE GLU SEQRES 5 B 150 LEU GLY SER HIS ALA ASP ARG LYS GLY PRO ASP ALA TYR SEQRES 6 B 150 ASN LEU GLY LEU SER ASP ARG ARG ALA LYS SER VAL VAL SEQRES 7 B 150 ASP TYR LEU THR SER ARG GLY ILE ALA ALA ASP ARG LEU SEQRES 8 B 150 THR TRP LYS GLY TYR GLY LYS SER VAL PRO LYS THR VAL SEQRES 9 B 150 THR ALA LYS ILE ALA GLU ARG HIS ASP PHE LEU LYS GLU SEQRES 10 B 150 GLY ASP VAL LEU THR GLU GLU PHE VAL ALA PRO LEU THR SEQRES 11 B 150 GLU GLU GLN GLN SER VAL CYS ASP GLN LEU ASN ARG ARG SEQRES 12 B 150 THR GLU PHE ARG VAL ILE GLU SEQRES 1 C 150 SER SER GLY VAL ASP LEU GLY THR GLU ASN LEU TYR PHE SEQRES 2 C 150 GLN SER LEU GLN ASN ILE PHE TYR ASP PHE ASP LYS ALA SEQRES 3 C 150 THR LEU ARG PRO GLU SER MET LYS SER LEU ASP GLU LEU SEQRES 4 C 150 ILE ARG ILE LEU THR ASP ASN PRO ASP ILE ARG ILE GLU SEQRES 5 C 150 LEU GLY SER HIS ALA ASP ARG LYS GLY PRO ASP ALA TYR SEQRES 6 C 150 ASN LEU GLY LEU SER ASP ARG ARG ALA LYS SER VAL VAL SEQRES 7 C 150 ASP TYR LEU THR SER ARG GLY ILE ALA ALA ASP ARG LEU SEQRES 8 C 150 THR TRP LYS GLY TYR GLY LYS SER VAL PRO LYS THR VAL SEQRES 9 C 150 THR ALA LYS ILE ALA GLU ARG HIS ASP PHE LEU LYS GLU SEQRES 10 C 150 GLY ASP VAL LEU THR GLU GLU PHE VAL ALA PRO LEU THR SEQRES 11 C 150 GLU GLU GLN GLN SER VAL CYS ASP GLN LEU ASN ARG ARG SEQRES 12 C 150 THR GLU PHE ARG VAL ILE GLU SEQRES 1 D 150 SER SER GLY VAL ASP LEU GLY THR GLU ASN LEU TYR PHE SEQRES 2 D 150 GLN SER LEU GLN ASN ILE PHE TYR ASP PHE ASP LYS ALA SEQRES 3 D 150 THR LEU ARG PRO GLU SER MET LYS SER LEU ASP GLU LEU SEQRES 4 D 150 ILE ARG ILE LEU THR ASP ASN PRO ASP ILE ARG ILE GLU SEQRES 5 D 150 LEU GLY SER HIS ALA ASP ARG LYS GLY PRO ASP ALA TYR SEQRES 6 D 150 ASN LEU GLY LEU SER ASP ARG ARG ALA LYS SER VAL VAL SEQRES 7 D 150 ASP TYR LEU THR SER ARG GLY ILE ALA ALA ASP ARG LEU SEQRES 8 D 150 THR TRP LYS GLY TYR GLY LYS SER VAL PRO LYS THR VAL SEQRES 9 D 150 THR ALA LYS ILE ALA GLU ARG HIS ASP PHE LEU LYS GLU SEQRES 10 D 150 GLY ASP VAL LEU THR GLU GLU PHE VAL ALA PRO LEU THR SEQRES 11 D 150 GLU GLU GLN GLN SER VAL CYS ASP GLN LEU ASN ARG ARG SEQRES 12 D 150 THR GLU PHE ARG VAL ILE GLU HET MLD A 701 38 HET NA A 702 1 HET MLD B 701 28 HET NA B 702 1 HET MLD C 701 23 HET NA C 702 1 HET MLD D 701 32 HET NA D 702 1 HETNAM MLD GLCNAC(BETA1-4)-MURNAC(1,6-ANHYDRO)-L-ALA-GAMMA-D-GLU- HETNAM 2 MLD MESO-A2PM-D-ALA HETNAM NA SODIUM ION HETSYN MLD 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE(BETA1-4)-2- HETSYN 2 MLD ACETAMIDO-1,6-ANHYDRO-3-O-[(R)-1-CARBOXYETHYL]-2- HETSYN 3 MLD DEOXY-BETA-D-GLUCOPYRANOSE-L-ALANYL-GAMMA-D-GLUTAMYL- HETSYN 4 MLD MESO-DIAMINOPIMELYL-D-ALANINE FORMUL 5 MLD 4(C37 H59 N7 O20) FORMUL 6 NA 4(NA 1+) FORMUL 13 HOH *754(H2 O) HELIX 1 AA1 ARG A 547 ASN A 564 1 18 HELIX 2 AA2 PRO A 580 ARG A 602 1 23 HELIX 3 AA3 ALA A 605 ASP A 607 5 3 HELIX 4 AA4 THR A 623 HIS A 630 1 8 HELIX 5 AA5 THR A 640 ALA A 645 1 6 HELIX 6 AA6 THR A 648 ARG A 660 1 13 HELIX 7 AA7 ARG B 547 ASN B 564 1 18 HELIX 8 AA8 PRO B 580 ARG B 602 1 23 HELIX 9 AA9 ALA B 605 ASP B 607 5 3 HELIX 10 AB1 THR B 623 HIS B 630 1 8 HELIX 11 AB2 THR B 640 ALA B 645 1 6 HELIX 12 AB3 THR B 648 ARG B 660 1 13 HELIX 13 AB4 ARG C 547 ASN C 564 1 18 HELIX 14 AB5 PRO C 580 ARG C 602 1 23 HELIX 15 AB6 ALA C 605 ASP C 607 5 3 HELIX 16 AB7 THR C 623 HIS C 630 1 8 HELIX 17 AB8 THR C 640 ALA C 645 1 6 HELIX 18 AB9 THR C 648 ARG C 660 1 13 HELIX 19 AC1 ARG D 547 ASN D 564 1 18 HELIX 20 AC2 PRO D 580 ARG D 602 1 23 HELIX 21 AC3 ALA D 605 ASP D 607 5 3 HELIX 22 AC4 THR D 623 HIS D 630 1 8 HELIX 23 AC5 THR D 640 ALA D 645 1 6 HELIX 24 AC6 THR D 648 ARG D 660 1 13 SHEET 1 AA1 4 ILE A 537 PHE A 538 0 SHEET 2 AA1 4 ARG A 661 ILE A 667 -1 O THR A 662 N ILE A 537 SHEET 3 AA1 4 ARG A 568 SER A 573 -1 N ARG A 568 O ILE A 667 SHEET 4 AA1 4 LEU A 609 GLY A 613 1 O THR A 610 N LEU A 571 SHEET 1 AA2 4 ILE B 537 PHE B 538 0 SHEET 2 AA2 4 ARG B 661 ILE B 667 -1 O THR B 662 N ILE B 537 SHEET 3 AA2 4 ARG B 568 SER B 573 -1 N ARG B 568 O ILE B 667 SHEET 4 AA2 4 LEU B 609 GLY B 613 1 O THR B 610 N LEU B 571 SHEET 1 AA3 4 ILE C 537 PHE C 538 0 SHEET 2 AA3 4 ARG C 661 ILE C 667 -1 O THR C 662 N ILE C 537 SHEET 3 AA3 4 ARG C 568 SER C 573 -1 N GLY C 572 O GLU C 663 SHEET 4 AA3 4 LEU C 609 GLY C 613 1 O THR C 610 N LEU C 571 SHEET 1 AA4 4 ILE D 537 PHE D 538 0 SHEET 2 AA4 4 ARG D 661 ILE D 667 -1 O THR D 662 N ILE D 537 SHEET 3 AA4 4 ARG D 568 SER D 573 -1 N GLY D 572 O GLU D 663 SHEET 4 AA4 4 LEU D 609 GLY D 613 1 O THR D 610 N LEU D 571 LINK O ALA A 627 NA NA A 702 1555 1555 2.33 LINK O HIS A 630 NA NA A 702 1555 1555 2.44 LINK O LEU A 633 NA NA A 702 1555 1555 2.35 LINK NA NA A 702 O HOH A 804 1555 1555 2.37 LINK NA NA A 702 O HOH A 917 1555 1555 2.73 LINK NA NA A 702 O HOH A 951 1555 1555 2.54 LINK O ALA B 627 NA NA B 702 1555 1555 2.33 LINK O HIS B 630 NA NA B 702 1555 1555 2.41 LINK O LEU B 633 NA NA B 702 1555 1555 2.24 LINK NA NA B 702 O HOH B 839 1555 1555 2.38 LINK NA NA B 702 O HOH B 937 1555 1555 2.45 LINK NA NA B 702 O HOH B 954 1555 1555 2.53 LINK O ALA C 627 NA NA C 702 1555 1555 2.24 LINK O HIS C 630 NA NA C 702 1555 1555 2.24 LINK O LEU C 633 NA NA C 702 1555 1555 2.24 LINK NA NA C 702 O HOH C 830 1555 1555 2.73 LINK NA NA C 702 O HOH C 931 1555 1555 2.94 LINK O HOH C 898 NA NA D 702 1565 1555 2.56 LINK O ALA D 627 NA NA D 702 1555 1555 2.23 LINK O HIS D 630 NA NA D 702 1555 1555 2.24 LINK O LEU D 633 NA NA D 702 1555 1555 2.40 LINK NA NA D 702 O HOH D 922 1555 1555 2.71 SITE 1 AC1 14 PHE A 541 ASP A 542 ALA A 575 ASP A 576 SITE 2 AC1 14 LYS A 578 GLY A 579 PRO A 580 ALA A 582 SITE 3 AC1 14 TYR A 583 ASN A 584 LEU A 587 ARG A 591 SITE 4 AC1 14 ARG A 660 HOH A 806 SITE 1 AC2 6 ALA A 627 HIS A 630 LEU A 633 HOH A 804 SITE 2 AC2 6 HOH A 917 HOH A 951 SITE 1 AC3 14 PHE B 541 ASP B 542 ALA B 575 ASP B 576 SITE 2 AC3 14 LYS B 578 PRO B 580 TYR B 583 ASN B 584 SITE 3 AC3 14 LEU B 587 ARG B 591 ARG B 660 HOH B 808 SITE 4 AC3 14 HOH B 873 HOH B 909 SITE 1 AC4 6 ALA B 627 HIS B 630 LEU B 633 HOH B 839 SITE 2 AC4 6 HOH B 937 HOH B 954 SITE 1 AC5 12 PHE C 541 ASP C 542 ALA C 575 ASP C 576 SITE 2 AC5 12 LYS C 578 GLY C 579 PRO C 580 ASN C 584 SITE 3 AC5 12 LEU C 587 ARG C 591 ARG C 660 HOH C 833 SITE 1 AC6 5 ALA C 627 HIS C 630 LEU C 633 HOH C 830 SITE 2 AC6 5 HOH C 931 SITE 1 AC7 14 PHE D 541 ASP D 542 ALA D 575 ASP D 576 SITE 2 AC7 14 LYS D 578 PRO D 580 TYR D 583 ASN D 584 SITE 3 AC7 14 LEU D 587 ARG D 591 ARG D 660 HOH D 801 SITE 4 AC7 14 HOH D 912 HOH D 914 SITE 1 AC8 5 HOH C 898 ALA D 627 HIS D 630 LEU D 633 SITE 2 AC8 5 HOH D 922 CRYST1 208.030 52.220 66.560 90.00 108.38 90.00 C 1 2 1 12 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 0.004807 0.000000 0.001597 0.00000 SCALE2 0.000000 0.019150 0.000000 0.00000 SCALE3 0.000000 0.000000 0.015832 0.00000