HEADER SUGAR BINDING PROTEIN 03-FEB-07 2EAV TITLE CRYSTAL STRUCTURE OF THE C-TERMINAL PEPTIDOGLYCAN-BINDING DOMAIN OF TITLE 2 HUMAN PEPTIDOGLYCAN RECOGNITION PROTEIN IBETA COMPND MOL_ID: 1; COMPND 2 MOLECULE: PEPTIDOGLYCAN RECOGNITION PROTEIN-I-BETA; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: PEPTIDOGLYCAN-BINDING DOMAIN; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: PGRPIB; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21 DE3; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PT7-7 KEYWDS ALPHA/BETA MIX, SUGAR BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR S.CHO,R.A.MARIUZZA REVDAT 3 13-JUL-11 2EAV 1 VERSN REVDAT 2 24-FEB-09 2EAV 1 VERSN REVDAT 1 18-SEP-07 2EAV 0 JRNL AUTH S.CHO,Q.WANG,C.P.SWAMINATHAN,D.HESEK,M.LEE,G.J.BOONS, JRNL AUTH 2 S.MOBASHERY,R.A.MARIUZZA JRNL TITL STRUCTURAL INSIGHTS INTO THE BACTERICIDAL MECHANISM OF HUMAN JRNL TITL 2 PEPTIDOGLYCAN RECOGNITION PROTEINS JRNL REF PROC.NATL.ACAD.SCI.USA V. 104 8761 2007 JRNL REFN ISSN 0027-8424 JRNL PMID 17502600 JRNL DOI 10.1073/PNAS.0701453104 REMARK 2 REMARK 2 RESOLUTION. 2.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.1 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 2.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 91.7 REMARK 3 NUMBER OF REFLECTIONS : 12352 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING SET) : 0.229 REMARK 3 FREE R VALUE : 0.285 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : 670 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 : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.20 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.26 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 71.50 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.3160 REMARK 3 BIN FREE R VALUE : 0.3640 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL 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 : 2518 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 6 REMARK 3 SOLVENT ATOMS : 139 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 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : NULL REMARK 3 BOND ANGLES (DEGREES) : NULL REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : NULL REMARK 3 KSOL : NULL REMARK 3 BSOL : NULL REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2EAV COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 09-FEB-07. REMARK 100 THE RCSB ID CODE IS RCSB026443. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 23-JAN-06 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU RU200 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NI MIRROR + NI FILTER REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IV REMARK 200 INTENSITY-INTEGRATION SOFTWARE : CRYSTALCLEAR REMARK 200 DATA SCALING SOFTWARE : CRYSTALCLEAR REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 12369 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 91.7 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : 0.08900 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.20 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.26 REMARK 200 COMPLETENESS FOR SHELL (%) : 71.5 REMARK 200 DATA REDUNDANCY IN SHELL : 3.70 REMARK 200 R MERGE FOR SHELL (I) : 0.33700 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 5.400 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: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 33.40 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.85 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M NISO4, 15%(W/V) PEG 3350, PH 7.0, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 298.0K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 2 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 63.71750 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 28.39250 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 63.71750 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 28.39250 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA,PQS REMARK 350 TOTAL BURIED SURFACE AREA: 2210 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 13880 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -58.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH B 67 LIES ON A SPECIAL POSITION. REMARK 375 HOH B 107 LIES ON A SPECIAL POSITION. REMARK 375 HOH B 129 LIES ON A SPECIAL POSITION. REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 ALA A 209 REMARK 465 ALA B 209 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 OXT HIS B 373 OXT HIS B 373 2555 1.98 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 224 -157.42 -139.37 REMARK 500 HIS A 225 87.28 -175.83 REMARK 500 SER A 249 -74.96 -36.62 REMARK 500 SER A 295 57.25 -151.20 REMARK 500 ASP A 301 -49.24 -28.59 REMARK 500 ASN A 342 49.39 -105.72 REMARK 500 SER B 295 53.08 -157.94 REMARK 500 ASP B 301 -16.69 -47.97 REMARK 500 ARG B 353 89.14 -62.05 REMARK 500 THR B 354 139.40 -176.39 REMARK 500 SER B 356 126.79 -35.74 REMARK 500 GLN B 359 -65.96 -28.61 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 A 29 DISTANCE = 5.85 ANGSTROMS REMARK 525 HOH A 65 DISTANCE = 5.41 ANGSTROMS REMARK 525 HOH A 72 DISTANCE = 5.06 ANGSTROMS REMARK 525 HOH A 88 DISTANCE = 6.15 ANGSTROMS REMARK 525 HOH B 107 DISTANCE = 6.20 ANGSTROMS REMARK 525 HOH B 132 DISTANCE = 5.22 ANGSTROMS REMARK 525 HOH B 138 DISTANCE = 6.03 ANGSTROMS 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 NI A 501 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 328 OD1 REMARK 620 2 HIS B 370 NE2 86.9 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NI B 500 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 370 NE2 REMARK 620 2 ASP B 328 OD2 93.6 REMARK 620 3 GLN B 331 NE2 90.1 84.1 REMARK 620 4 HOH B 114 O 120.3 139.2 74.5 REMARK 620 5 ARG A 353 NH1 92.1 105.3 170.2 96.2 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NI A 504 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B 324 OE2 REMARK 620 2 GLU B 324 OE1 50.6 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NI B 502 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 348 ND1 REMARK 620 2 HOH B 41 O 109.9 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NI B 503 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN A 247 ND2 REMARK 620 2 GLU A 251 OE1 72.8 REMARK 620 3 HIS B 225 NE2 91.0 115.9 REMARK 620 N 1 2 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NI B 500 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NI A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NI B 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NI B 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NI A 504 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NI B 505 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2EAX RELATED DB: PDB REMARK 900 THE SAME PROTEIN IN COMPLEX WITH GLYCOSAMYL MURAMYL REMARK 900 PENTAPEPTIDE DBREF 2EAV A 209 373 UNP Q3B822 Q3B822_HUMAN 209 373 DBREF 2EAV B 209 373 UNP Q3B822 Q3B822_HUMAN 209 373 SEQRES 1 A 165 ALA CYS PRO GLY ILE VAL PRO ARG SER VAL TRP GLY ALA SEQRES 2 A 165 ARG GLU THR HIS CYS PRO ARG MET THR LEU PRO ALA LYS SEQRES 3 A 165 TYR GLY ILE ILE ILE HIS THR ALA GLY ARG THR CYS ASN SEQRES 4 A 165 ILE SER ASP GLU CYS ARG LEU LEU VAL ARG ASP ILE GLN SEQRES 5 A 165 SER PHE TYR ILE ASP ARG LEU LYS SER CYS ASP ILE GLY SEQRES 6 A 165 TYR ASN PHE LEU VAL GLY GLN ASP GLY ALA ILE TYR GLU SEQRES 7 A 165 GLY VAL GLY TRP ASN VAL GLN GLY SER SER THR PRO GLY SEQRES 8 A 165 TYR ASP ASP ILE ALA LEU GLY ILE THR PHE MET GLY THR SEQRES 9 A 165 PHE THR GLY ILE PRO PRO ASN ALA ALA ALA LEU GLU ALA SEQRES 10 A 165 ALA GLN ASP LEU ILE GLN CYS ALA MET VAL LYS GLY TYR SEQRES 11 A 165 LEU THR PRO ASN TYR LEU LEU VAL GLY HIS SER ASP VAL SEQRES 12 A 165 ALA ARG THR LEU SER PRO GLY GLN ALA LEU TYR ASN ILE SEQRES 13 A 165 ILE SER THR TRP PRO HIS PHE LYS HIS SEQRES 1 B 165 ALA CYS PRO GLY ILE VAL PRO ARG SER VAL TRP GLY ALA SEQRES 2 B 165 ARG GLU THR HIS CYS PRO ARG MET THR LEU PRO ALA LYS SEQRES 3 B 165 TYR GLY ILE ILE ILE HIS THR ALA GLY ARG THR CYS ASN SEQRES 4 B 165 ILE SER ASP GLU CYS ARG LEU LEU VAL ARG ASP ILE GLN SEQRES 5 B 165 SER PHE TYR ILE ASP ARG LEU LYS SER CYS ASP ILE GLY SEQRES 6 B 165 TYR ASN PHE LEU VAL GLY GLN ASP GLY ALA ILE TYR GLU SEQRES 7 B 165 GLY VAL GLY TRP ASN VAL GLN GLY SER SER THR PRO GLY SEQRES 8 B 165 TYR ASP ASP ILE ALA LEU GLY ILE THR PHE MET GLY THR SEQRES 9 B 165 PHE THR GLY ILE PRO PRO ASN ALA ALA ALA LEU GLU ALA SEQRES 10 B 165 ALA GLN ASP LEU ILE GLN CYS ALA MET VAL LYS GLY TYR SEQRES 11 B 165 LEU THR PRO ASN TYR LEU LEU VAL GLY HIS SER ASP VAL SEQRES 12 B 165 ALA ARG THR LEU SER PRO GLY GLN ALA LEU TYR ASN ILE SEQRES 13 B 165 ILE SER THR TRP PRO HIS PHE LYS HIS HET NI B 500 1 HET NI A 501 1 HET NI B 502 1 HET NI B 503 1 HET NI A 504 1 HET NI B 505 1 HETNAM NI NICKEL (II) ION FORMUL 3 NI 6(NI 2+) FORMUL 9 HOH *139(H2 O) HELIX 1 1 PRO A 215 GLY A 220 1 6 HELIX 2 2 ILE A 248 ARG A 266 1 19 HELIX 3 3 TYR A 300 ASP A 302 5 3 HELIX 4 4 ASN A 319 LYS A 336 1 18 HELIX 5 5 HIS A 348 ALA A 352 1 5 HELIX 6 6 GLY A 358 SER A 366 1 9 HELIX 7 7 PRO B 215 GLY B 220 1 6 HELIX 8 8 ILE B 248 ARG B 266 1 19 HELIX 9 9 ASN B 319 LYS B 336 1 18 HELIX 10 10 SER B 349 VAL B 351 5 3 HELIX 11 11 GLY B 358 SER B 366 1 9 SHEET 1 A 6 ILE A 213 VAL A 214 0 SHEET 2 A 6 ILE A 284 GLU A 286 1 O ILE A 284 N VAL A 214 SHEET 3 A 6 PHE A 276 VAL A 278 -1 N LEU A 277 O TYR A 285 SHEET 4 A 6 ALA A 304 PHE A 309 1 O THR A 308 N PHE A 276 SHEET 5 A 6 ALA A 233 HIS A 240 1 N ILE A 239 O PHE A 309 SHEET 6 A 6 LEU A 339 GLY A 347 1 O VAL A 346 N ILE A 238 SHEET 1 B 5 ALA B 283 GLU B 286 0 SHEET 2 B 5 PHE B 276 GLY B 279 -1 N LEU B 277 O TYR B 285 SHEET 3 B 5 ALA B 304 PHE B 309 1 O THR B 308 N VAL B 278 SHEET 4 B 5 ALA B 233 HIS B 240 1 N ILE B 239 O ILE B 307 SHEET 5 B 5 LEU B 339 GLY B 347 1 O VAL B 346 N ILE B 238 SSBOND 1 CYS A 210 CYS A 332 1555 1555 2.02 SSBOND 2 CYS A 226 CYS A 270 1555 1555 2.03 SSBOND 3 CYS A 246 CYS A 252 1555 1555 2.03 SSBOND 4 CYS B 210 CYS B 332 1555 1555 2.02 SSBOND 5 CYS B 226 CYS B 270 1555 1555 2.03 SSBOND 6 CYS B 246 CYS B 252 1555 1555 2.03 LINK OD1 ASP A 328 NI NI A 501 1555 1555 2.18 LINK NE2 HIS A 370 NI NI B 500 1555 1555 2.12 LINK OE2 GLU B 324 NI NI A 504 1555 1555 2.58 LINK OD2 ASP B 328 NI NI B 500 1555 1555 2.14 LINK NE2 GLN B 331 NI NI B 500 1555 1555 2.26 LINK ND1 HIS B 348 NI NI B 502 1555 1555 1.77 LINK NE2 HIS B 370 NI NI A 501 1555 1555 2.14 LINK NE2 HIS B 373 NI NI B 505 1555 1555 2.42 LINK NI NI B 502 O HOH B 41 1555 1555 2.59 LINK NI NI A 504 OE1 GLU B 324 1555 1555 2.61 LINK NI NI B 500 O HOH B 114 1555 1555 2.61 LINK NI NI B 500 NH1 ARG A 353 1555 3546 2.77 LINK NI NI B 503 ND2 ASN A 247 1555 2555 2.32 LINK NI NI B 503 OE1 GLU A 251 1555 2555 2.41 LINK NI NI B 503 NE2 HIS B 225 1555 2545 1.97 CISPEP 1 LEU A 231 PRO A 232 0 -0.06 CISPEP 2 SER A 356 PRO A 357 0 0.25 CISPEP 3 LEU B 231 PRO B 232 0 0.26 CISPEP 4 SER B 356 PRO B 357 0 0.31 SITE 1 AC1 5 ARG A 353 HIS A 370 HOH B 114 ASP B 328 SITE 2 AC1 5 GLN B 331 SITE 1 AC2 3 CYS A 210 ASP A 328 HIS B 370 SITE 1 AC3 4 HOH B 41 ILE B 239 HIS B 348 SER B 356 SITE 1 AC4 3 ASN A 247 GLU A 251 HIS B 225 SITE 1 AC5 2 HIS A 373 GLU B 324 SITE 1 AC6 3 GLU A 324 PHE B 371 HIS B 373 CRYST1 127.435 56.785 36.761 90.00 90.00 90.00 P 21 21 2 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 0.007847 0.000000 0.000000 0.00000 SCALE2 0.000000 0.017610 0.000000 0.00000 SCALE3 0.000000 0.000000 0.027203 0.00000