HEADER HYDROLASE 07-JUN-16 5KD8 TITLE BT_4244 METALLOPEPTIDASE IN COMPLEX WITH TN ANTIGEN. COMPND MOL_ID: 1; COMPND 2 MOLECULE: METALLOPEPTIDASE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 322-857; COMPND 5 ENGINEERED: YES; COMPND 6 OTHER_DETAILS: IN COMPLEX WITH TN ANTIGEN SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BACTEROIDES THETAIOTAOMICRON (STRAIN ATCC 29148 SOURCE 3 / DSM 2079 / NCTC 10582 / E50 / VPI-5482); SOURCE 4 ORGANISM_TAXID: 226186; SOURCE 5 STRAIN: ATCC 29148 / DSM 2079 / NCTC 10582 / E50 / VPI-5482; SOURCE 6 GENE: BT_4244; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI 'BL21-GOLD(DE3)PLYSS AG'; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 866768 KEYWDS O-GLYCOPEPTIDASE, PF13402/M60-LIKE, O-GLYCAN, HYDROLASE., HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR I.NOACH,A.B.BORASTON REVDAT 5 27-SEP-23 5KD8 1 HETSYN REVDAT 4 29-JUL-20 5KD8 1 COMPND REMARK HET HETNAM REVDAT 4 2 1 FORMUL LINK SITE ATOM REVDAT 3 08-FEB-17 5KD8 1 JRNL REVDAT 2 01-FEB-17 5KD8 1 JRNL REVDAT 1 11-JAN-17 5KD8 0 JRNL AUTH I.NOACH,E.FICKO-BLEAN,B.PLUVINAGE,C.STUART,M.L.JENKINS, JRNL AUTH 2 D.BROCHU,N.BUENBRAZO,W.WAKARCHUK,J.E.BURKE,M.GILBERT, JRNL AUTH 3 A.B.BORASTON JRNL TITL RECOGNITION OF PROTEIN-LINKED GLYCANS AS A DETERMINANT OF JRNL TITL 2 PEPTIDASE ACTIVITY. JRNL REF PROC. NATL. ACAD. SCI. V. 114 E679 2017 JRNL REF 2 U.S.A. JRNL REFN ESSN 1091-6490 JRNL PMID 28096352 JRNL DOI 10.1073/PNAS.1615141114 REMARK 2 REMARK 2 RESOLUTION. 2.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0073 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 43.72 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 32769 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) : 0.202 REMARK 3 R VALUE (WORKING SET) : 0.200 REMARK 3 FREE R VALUE : 0.242 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1764 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.30 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.36 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2399 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.68 REMARK 3 BIN R VALUE (WORKING SET) : 0.2870 REMARK 3 BIN FREE R VALUE SET COUNT : 104 REMARK 3 BIN FREE R VALUE : 0.3220 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4343 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 26 REMARK 3 SOLVENT ATOMS : 155 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 55.52 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.87000 REMARK 3 B22 (A**2) : -2.63000 REMARK 3 B33 (A**2) : 4.50000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.260 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.211 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.178 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 7.565 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.955 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.937 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4476 ; 0.010 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 4079 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6059 ; 1.320 ; 1.935 REMARK 3 BOND ANGLES OTHERS (DEGREES): 9389 ; 0.777 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 536 ; 6.539 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 226 ;37.328 ;24.823 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 754 ;14.747 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 16 ;11.733 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 632 ; 0.077 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5126 ; 0.005 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1092 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 2150 ; 3.689 ; 5.456 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 2146 ; 3.689 ; 5.452 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2684 ; 5.521 ; 8.174 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 2683 ; 5.522 ; 8.173 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2326 ; 3.617 ; 5.689 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 2326 ; 3.615 ; 5.688 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 3376 ; 5.690 ; 8.417 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 5310 ; 8.168 ;43.259 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 5266 ; 8.161 ;43.242 REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 5KD8 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 14-JUN-16. REMARK 100 THE DEPOSITION ID IS D_1000222045. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 08-OCT-15 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 : CLSI REMARK 200 BEAMLINE : 08ID-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.984 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RAYONIX MX-300 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 34533 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 REMARK 200 RESOLUTION RANGE LOW (A) : 43.720 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 10.10 REMARK 200 R MERGE (I) : 0.08000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 16.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.38 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : 10.40 REMARK 200 R MERGE FOR SHELL (I) : 0.56800 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.300 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: 5KD2 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 58.46 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.96 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 3350, NAH2PO4, TRIS-HCL PH 8.0, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 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 43.72500 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 49.32500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 44.11500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 49.32500 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 43.72500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 44.11500 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 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 299 REMARK 465 GLY A 300 REMARK 465 SER A 301 REMARK 465 SER A 302 REMARK 465 HIS A 303 REMARK 465 HIS A 304 REMARK 465 HIS A 305 REMARK 465 HIS A 306 REMARK 465 HIS A 307 REMARK 465 HIS A 308 REMARK 465 SER A 309 REMARK 465 SER A 310 REMARK 465 GLY A 311 REMARK 465 LEU A 312 REMARK 465 VAL A 313 REMARK 465 PRO A 314 REMARK 465 ARG A 315 REMARK 465 GLY A 316 REMARK 465 SER A 317 REMARK 465 HIS A 318 REMARK 465 MET A 319 REMARK 465 ALA A 320 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 LYS A 323 CG CD CE NZ REMARK 470 LYS A 363 CG CD CE NZ REMARK 470 HIS A 637 CG ND1 CD2 CE1 NE2 REMARK 470 ASN A 842 CG OD1 ND2 REMARK 470 LYS A 853 CG CD CE NZ 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 NI NI A 903 O HOH A 1037 1.69 REMARK 500 O HOH A 1004 O HOH A 1037 2.09 REMARK 500 O HOH A 1003 O HOH A 1142 2.17 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 LEU A 354 43.09 -96.12 REMARK 500 ASN A 356 71.93 -118.20 REMARK 500 TRP A 386 -119.42 -134.41 REMARK 500 LYS A 456 -27.35 64.65 REMARK 500 THR A 469 9.88 -150.74 REMARK 500 ASN A 526 16.79 -143.95 REMARK 500 GLU A 535 40.17 -92.75 REMARK 500 SER A 537 -174.18 49.08 REMARK 500 TYR A 538 -80.17 -112.32 REMARK 500 TYR A 544 -32.35 83.97 REMARK 500 SER A 588 -15.17 98.38 REMARK 500 ASP A 634 80.56 -150.61 REMARK 500 LYS A 662 95.97 -170.11 REMARK 500 ASP A 683 78.36 -160.45 REMARK 500 PHE A 713 48.34 -109.58 REMARK 500 THR A 718 -168.31 -170.13 REMARK 500 GLN A 722 105.69 -160.73 REMARK 500 GLN A 744 0.74 -67.43 REMARK 500 ASN A 785 48.80 34.29 REMARK 500 ASN A 817 -60.92 -138.93 REMARK 500 ASP A 818 -169.47 -122.55 REMARK 500 REMARK 500 REMARK: NULL 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 905 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 327 OE1 REMARK 620 2 GLU A 327 OE2 50.8 REMARK 620 3 GLU A 454 OE1 138.8 134.1 REMARK 620 4 HOH A1071 O 121.3 70.7 84.1 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NI A 902 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 438 NE2 REMARK 620 2 HOH A1003 O 102.3 REMARK 620 3 HOH A1139 O 101.1 63.2 REMARK 620 4 HOH A1142 O 101.0 50.1 112.6 REMARK 620 5 HOH A1146 O 99.9 147.0 134.9 101.8 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 904 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 451 OD1 REMARK 620 2 ASP A 451 OD2 46.5 REMARK 620 3 HOH A1124 O 89.6 86.6 REMARK 620 4 HOH A1144 O 102.4 148.6 98.9 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 901 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 574 NE2 REMARK 620 2 HIS A 578 NE2 98.7 REMARK 620 3 GLU A 591 OE1 97.1 105.6 REMARK 620 4 GLU A 591 OE2 147.8 85.3 51.5 REMARK 620 5 SER A 906 OXT 82.8 141.2 112.7 113.7 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NI A 903 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 708 OE2 REMARK 620 2 GLU A 714 OE1 101.4 REMARK 620 3 HOH A1004 O 155.6 72.0 REMARK 620 4 HOH A1008 O 94.2 95.6 109.6 REMARK 620 5 HOH A1083 O 80.7 177.8 106.3 83.6 REMARK 620 N 1 2 3 4 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5KD2 RELATED DB: PDB REMARK 900 RELATED ID: 5KD5 RELATED DB: PDB REMARK 900 RELATED ID: 5KDJ RELATED DB: PDB REMARK 900 RELATED ID: 5KDN RELATED DB: PDB REMARK 900 RELATED ID: 5KDS RELATED DB: PDB REMARK 900 RELATED ID: 5KDU RELATED DB: PDB REMARK 900 RELATED ID: 5KDV RELATED DB: PDB REMARK 900 RELATED ID: 5KDW RELATED DB: PDB REMARK 900 RELATED ID: 5KDX RELATED DB: PDB DBREF 5KD8 A 322 857 UNP Q89ZX7 Q89ZX7_BACTN 322 857 SEQADV 5KD8 MET A 299 UNP Q89ZX7 INITIATING METHIONINE SEQADV 5KD8 GLY A 300 UNP Q89ZX7 EXPRESSION TAG SEQADV 5KD8 SER A 301 UNP Q89ZX7 EXPRESSION TAG SEQADV 5KD8 SER A 302 UNP Q89ZX7 EXPRESSION TAG SEQADV 5KD8 HIS A 303 UNP Q89ZX7 EXPRESSION TAG SEQADV 5KD8 HIS A 304 UNP Q89ZX7 EXPRESSION TAG SEQADV 5KD8 HIS A 305 UNP Q89ZX7 EXPRESSION TAG SEQADV 5KD8 HIS A 306 UNP Q89ZX7 EXPRESSION TAG SEQADV 5KD8 HIS A 307 UNP Q89ZX7 EXPRESSION TAG SEQADV 5KD8 HIS A 308 UNP Q89ZX7 EXPRESSION TAG SEQADV 5KD8 SER A 309 UNP Q89ZX7 EXPRESSION TAG SEQADV 5KD8 SER A 310 UNP Q89ZX7 EXPRESSION TAG SEQADV 5KD8 GLY A 311 UNP Q89ZX7 EXPRESSION TAG SEQADV 5KD8 LEU A 312 UNP Q89ZX7 EXPRESSION TAG SEQADV 5KD8 VAL A 313 UNP Q89ZX7 EXPRESSION TAG SEQADV 5KD8 PRO A 314 UNP Q89ZX7 EXPRESSION TAG SEQADV 5KD8 ARG A 315 UNP Q89ZX7 EXPRESSION TAG SEQADV 5KD8 GLY A 316 UNP Q89ZX7 EXPRESSION TAG SEQADV 5KD8 SER A 317 UNP Q89ZX7 EXPRESSION TAG SEQADV 5KD8 HIS A 318 UNP Q89ZX7 EXPRESSION TAG SEQADV 5KD8 MET A 319 UNP Q89ZX7 EXPRESSION TAG SEQADV 5KD8 ALA A 320 UNP Q89ZX7 EXPRESSION TAG SEQADV 5KD8 SER A 321 UNP Q89ZX7 EXPRESSION TAG SEQRES 1 A 559 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 559 LEU VAL PRO ARG GLY SER HIS MET ALA SER ASP LYS TRP SEQRES 3 A 559 GLU LYS GLU PHE ARG ILE ARG SER TYR GLU PRO TYR SER SEQRES 4 A 559 ASN ILE ALA GLU TRP ALA ASP LYS LEU MET THR LYS LYS SEQRES 5 A 559 TYR SER ASP LEU ASP ASN PRO THR GLY ILE SER VAL LYS SEQRES 6 A 559 ALA GLY ASP ASP ILE ILE VAL LEU VAL GLY ASP THR TYR SEQRES 7 A 559 GLY GLN ASN ILE SER MET GLN CYS ILE TRP GLU THR GLY SEQRES 8 A 559 THR GLU TYR LYS GLN THR ALA SER SER GLY ASP VAL TYR SEQRES 9 A 559 MET LEU ASN PRO GLY VAL ASN LYS LEU THR MET LYS GLY SEQRES 10 A 559 GLU GLY GLN LEU PHE VAL MET TYR ASN THR GLU LEU THR SEQRES 11 A 559 SER ASN THR ALA LYS PRO ILE LYS ILE HIS ILE PRO LEU SEQRES 12 A 559 GLY SER GLY THR VAL ASN GLY PHE PHE ASP LEU LYS GLU SEQRES 13 A 559 HIS LYS THR ASP GLU LYS TYR ALA GLU LEU LEU LYS LYS SEQRES 14 A 559 SER THR HIS LYS TYR PHE CYS ILE ARG GLY GLU LYS ILE SEQRES 15 A 559 MET PHE TYR PHE HIS ARG ASN LYS LEU LEU GLU TYR VAL SEQRES 16 A 559 PRO ASN ASN ILE LEU SER ALA ILE HIS LEU TRP ASP ASN SEQRES 17 A 559 ILE VAL GLY TRP GLN GLN GLU LEU MET GLY ILE ASP ASP SEQRES 18 A 559 VAL ARG PRO SER GLN VAL ASN ASN HIS LEU PHE ALA ILE SEQRES 19 A 559 SER PRO GLU GLY SER TYR MET TRP ALA SER ASP TYR GLN SEQRES 20 A 559 ILE GLY PHE VAL TYR THR TYR LEU GLY ASN ILE LEU LEU SEQRES 21 A 559 GLU ASP ASN VAL MET ALA ALA GLU ASP ASN ALA TRP GLY SEQRES 22 A 559 PRO ALA HIS GLU ILE GLY HIS VAL HIS GLN ALA ALA ILE SEQRES 23 A 559 ASN TRP ALA SER SER THR GLU SER SER ASN ASN LEU PHE SEQRES 24 A 559 SER ASN PHE ILE ILE TYR LYS LEU GLY LYS TYR LYS SER SEQRES 25 A 559 ARG GLY ASN GLY LEU GLY SER VAL ALA THR ALA ARG TYR SEQRES 26 A 559 ALA ASN GLY GLN ALA TRP TYR ASN MET GLY ASP ALA THR SEQRES 27 A 559 HIS GLN ASN GLU ASP THR GLU THR HIS MET ARG MET ASN SEQRES 28 A 559 TRP GLN LEU TRP ILE TYR TYR HIS ARG CYS GLU TYR LYS SEQRES 29 A 559 THR ASP PHE TRP GLN THR LEU PHE LYS LEU MET ARG GLU SEQRES 30 A 559 VAL ASN MET THR GLU GLY GLU ASP PRO GLY LYS LYS GLN SEQRES 31 A 559 LEU GLU PHE ALA LYS MET ALA SER LYS ALA ALA ASN GLN SEQRES 32 A 559 ASN LEU THR ASP PHE PHE GLU MET TRP GLY PHE PHE GLU SEQRES 33 A 559 PRO VAL ASN THR THR ILE GLU GLN TYR GLY THR TYR LYS SEQRES 34 A 559 TYR TYR VAL SER ASP ALA MET ILE ARG GLU ALA LYS GLU SEQRES 35 A 559 TYR MET ALA GLN PHE PRO ALA PRO LYS HIS ALA PHE GLN SEQRES 36 A 559 TYR ILE GLU ASP ARG LYS LYS SER GLU PHE PRO SER ASN SEQRES 37 A 559 ASP TYR ARG TYR SER ALA VAL GLY ASP VAL GLY TYR TYR SEQRES 38 A 559 THR GLN PHE LYS GLU ASN GLN LYS ILE THR LYS ALA ILE SEQRES 39 A 559 THR ALA GLU LEU ALA GLY ARG LYS VAL SER ILE GLN ASN SEQRES 40 A 559 GLY ASP GLU ALA VAL ALA PHE GLU LEU ARG GLU ASN ASP SEQRES 41 A 559 GLU ASN GLY LYS LEU LEU TYR PHE SER THR PHE THR THR SEQRES 42 A 559 PHE GLU ILE PRO SER SER ILE LEU MET VAL ASN ALA LYS SEQRES 43 A 559 LEU TYR ALA VAL GLN ALA ASP GLY LYS ARG ILE LEU LEU HET ZN A 901 1 HET NI A 902 1 HET NI A 903 1 HET NA A 904 1 HET NA A 905 1 HET SER A 906 7 HET A2G A 907 14 HETNAM ZN ZINC ION HETNAM NI NICKEL (II) ION HETNAM NA SODIUM ION HETNAM SER SERINE HETNAM A2G 2-ACETAMIDO-2-DEOXY-ALPHA-D-GALACTOPYRANOSE HETSYN A2G N-ACETYL-ALPHA-D-GALACTOSAMINE; 2-ACETAMIDO-2-DEOXY- HETSYN 2 A2G ALPHA-D-GALACTOSE; 2-ACETAMIDO-2-DEOXY-D-GALACTOSE; 2- HETSYN 3 A2G ACETAMIDO-2-DEOXY-GALACTOSE; N-ACETYL-2-DEOXY-2-AMINO- HETSYN 4 A2G GALACTOSE FORMUL 2 ZN ZN 2+ FORMUL 3 NI 2(NI 2+) FORMUL 5 NA 2(NA 1+) FORMUL 7 SER C3 H7 N O3 FORMUL 8 A2G C8 H15 N O6 FORMUL 9 HOH *155(H2 O) HELIX 1 AA1 SER A 321 ARG A 329 1 9 HELIX 2 AA2 ASN A 338 MET A 347 1 10 HELIX 3 AA3 LEU A 452 LYS A 456 1 5 HELIX 4 AA4 THR A 457 SER A 468 1 12 HELIX 5 AA5 ARG A 486 VAL A 493 1 8 HELIX 6 AA6 ILE A 497 MET A 515 1 19 HELIX 7 AA7 TYR A 550 TYR A 552 5 3 HELIX 8 AA8 LEU A 553 LEU A 558 1 6 HELIX 9 AA9 LEU A 558 MET A 563 1 6 HELIX 10 AB1 ALA A 565 ASN A 568 5 4 HELIX 11 AB2 ALA A 569 GLN A 581 1 13 HELIX 12 AB3 ALA A 582 ASN A 585 5 4 HELIX 13 AB4 ASN A 594 GLY A 606 1 13 HELIX 14 AB5 GLY A 614 TYR A 623 1 10 HELIX 15 AB6 ASP A 641 MET A 646 1 6 HELIX 16 AB7 MET A 646 HIS A 657 1 12 HELIX 17 AB8 ASP A 664 ASN A 677 1 14 HELIX 18 AB9 ASP A 683 ASN A 700 1 18 HELIX 19 AC1 LEU A 703 TRP A 710 1 8 HELIX 20 AC2 SER A 731 GLN A 744 1 14 HELIX 21 AC3 ALA A 751 ILE A 755 5 5 HELIX 22 AC4 LYS A 759 PHE A 763 5 5 HELIX 23 AC5 ASP A 767 VAL A 773 1 7 HELIX 24 AC6 TYR A 779 GLU A 784 1 6 SHEET 1 AA1 4 ILE A 330 TYR A 333 0 SHEET 2 AA1 4 ILE A 435 HIS A 438 -1 O ILE A 437 N ARG A 331 SHEET 3 AA1 4 ASP A 367 VAL A 372 -1 N LEU A 371 O HIS A 438 SHEET 4 AA1 4 GLY A 407 THR A 412 -1 O LEU A 411 N ILE A 368 SHEET 1 AA2 5 ASP A 400 LEU A 404 0 SHEET 2 AA2 5 ILE A 380 ILE A 385 -1 N MET A 382 O TYR A 402 SHEET 3 AA2 5 GLY A 417 MET A 422 -1 O GLN A 418 N ILE A 385 SHEET 4 AA2 5 PRO A 357 VAL A 362 -1 N THR A 358 O LEU A 419 SHEET 5 AA2 5 THR A 445 VAL A 446 -1 O THR A 445 N SER A 361 SHEET 1 AA3 2 GLU A 387 THR A 388 0 SHEET 2 AA3 2 GLN A 394 THR A 395 -1 O GLN A 394 N THR A 388 SHEET 1 AA4 6 PHE A 450 ASP A 451 0 SHEET 2 AA4 6 TYR A 472 ARG A 476 1 O ARG A 476 N PHE A 450 SHEET 3 AA4 6 ILE A 480 HIS A 485 -1 O PHE A 482 N ILE A 475 SHEET 4 AA4 6 LEU A 529 ILE A 532 1 O ALA A 531 N MET A 481 SHEET 5 AA4 6 ILE A 546 PHE A 548 1 O ILE A 546 N ILE A 532 SHEET 6 AA4 6 MET A 539 ALA A 541 -1 N TRP A 540 O GLY A 547 SHEET 1 AA5 2 VAL A 716 GLU A 721 0 SHEET 2 AA5 2 THR A 725 VAL A 730 -1 O TYR A 726 N ILE A 720 SHEET 1 AA6 3 THR A 793 ALA A 797 0 SHEET 2 AA6 3 LYS A 800 GLN A 804 -1 O LYS A 800 N ALA A 797 SHEET 3 AA6 3 THR A 831 GLU A 833 -1 O PHE A 832 N VAL A 801 SHEET 1 AA7 4 LEU A 823 SER A 827 0 SHEET 2 AA7 4 ALA A 811 ARG A 815 -1 N LEU A 814 O LEU A 824 SHEET 3 AA7 4 LYS A 844 VAL A 848 -1 O VAL A 848 N ALA A 811 SHEET 4 AA7 4 ARG A 854 LEU A 856 -1 O ILE A 855 N ALA A 847 LINK OG SER A 906 C1 A2G A 907 1555 1555 1.43 LINK OE1 GLU A 327 NA NA A 905 1555 1555 2.20 LINK OE2 GLU A 327 NA NA A 905 1555 1555 2.78 LINK NE2 HIS A 438 NI NI A 902 1555 1555 2.34 LINK OD1 ASP A 451 NA NA A 904 1555 1555 2.09 LINK OD2 ASP A 451 NA NA A 904 1555 1555 3.03 LINK OE1 GLU A 454 NA NA A 905 1555 1555 2.16 LINK NE2 HIS A 574 ZN ZN A 901 1555 1555 1.90 LINK NE2 HIS A 578 ZN ZN A 901 1555 1555 2.08 LINK OE1 GLU A 591 ZN ZN A 901 1555 1555 1.85 LINK OE2 GLU A 591 ZN ZN A 901 1555 1555 2.68 LINK OE2 GLU A 708 NI NI A 903 1555 1555 2.02 LINK OE1 GLU A 714 NI NI A 903 1555 1555 2.23 LINK ZN ZN A 901 OXT SER A 906 1555 1555 2.08 LINK NI NI A 902 O HOH A1003 1555 1555 2.66 LINK NI NI A 902 O HOH A1139 1555 1555 1.97 LINK NI NI A 902 O HOH A1142 1555 1555 2.43 LINK NI NI A 902 O HOH A1146 1555 1555 2.53 LINK NI NI A 903 O HOH A1004 1555 1555 2.18 LINK NI NI A 903 O HOH A1008 1555 1555 1.91 LINK NI NI A 903 O HOH A1083 1555 1555 2.28 LINK NA NA A 904 O HOH A1124 1555 1555 2.17 LINK NA NA A 904 O HOH A1144 1555 1555 2.38 LINK NA NA A 905 O HOH A1071 1555 1555 1.95 CISPEP 1 ARG A 521 PRO A 522 0 10.06 CRYST1 87.450 88.230 98.650 90.00 90.00 90.00 P 21 21 21 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 0.011435 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011334 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010137 0.00000