10 20 30 40 50 60 70 80 1V7V - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER TRANSFERASE 24-DEC-03 1V7V
TITLE CRYSTAL STRUCTURE OF VIBRIO PROTEOLYTICUS CHITOBIOSE PHOSPHORYLASE
COMPND MOL_ID: 1; COMPND 2 MOLECULE: CHITOBIOSE PHOSPHORYLASE; COMPND 3 CHAIN: A; COMPND 4 EC: 2.4.1.-; COMPND 5 ENGINEERED: YES
SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: VIBRIO PROTEOLYTICUS; SOURCE 3 ORGANISM_TAXID: 671; SOURCE 4 GENE: CHBP; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21GOLD(DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET30B-CHBP
KEYWDS BETA-SANDWICH, (ALPHA/ALPHA)6 BARREL, TRANSFERASE
EXPDTA X-RAY DIFFRACTION
AUTHOR M.HIDAKA,Y.HONDA,S.NIRASAWA,M.KITAOKA,K.HAYASHI,T.WAKAGI,H.SHOUN, AUTHOR 2 S.FUSHINOBU
REVDAT 3 13-JUL-11 1V7V 1 VERSN REVDAT 2 24-FEB-09 1V7V 1 VERSN REVDAT 1 22-JUN-04 1V7V 0
JRNL AUTH M.HIDAKA,Y.HONDA,M.KITAOKA,S.NIRASAWA,K.HAYASHI,T.WAKAGI, JRNL AUTH 2 H.SHOUN,S.FUSHINOBU JRNL TITL CHITOBIOSE PHOSPHORYLASE FROM VIBRIO PROTEOLYTICUS, A MEMBER JRNL TITL 2 OF GLYCOSYL TRANSFERASE FAMILY 36, HAS A CLAN GH-L-LIKE JRNL TITL 3 (ALPHA/ALPHA)(6) BARREL FOLD. JRNL REF STRUCTURE V. 12 937 2004 JRNL REFN ISSN 0969-2126 JRNL PMID 15274915 JRNL DOI 10.1016/J.STR.2004.03.027
REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH Y.HONDA,M.KITAOKA,K.HAYASHI REMARK 1 TITL REACTION MECHANISM OF CHITOBIOSE PHOSPHORYLASE FROM VIBRIO REMARK 1 TITL 2 PROTEOLYTICUS: IDENTIFICATION OF FAMILY 36 REMARK 1 TITL 3 GLYCOSYLTRANSFERASE IN VIBRIO REMARK 1 REF BIOCHEM.J. V. 377 225 2004 REMARK 1 REFN ISSN 0264-6021 REMARK 1 DOI 10.1042/BJ20031171
REMARK 2 REMARK 2 RESOLUTION. 1.80 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) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 47.78 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 2109709.680 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 98.2 REMARK 3 NUMBER OF REFLECTIONS : 70781 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 SET) : 0.162 REMARK 3 FREE R VALUE : 0.186 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 3588 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.003 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 6 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.80 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.91 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 95.70 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 10863 REMARK 3 BIN R VALUE (WORKING SET) : 0.1850 REMARK 3 BIN FREE R VALUE : 0.2250 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 5.00 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 571 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.009 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6222 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 3 REMARK 3 SOLVENT ATOMS : 676 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 13.30 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 18.90 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -3.38000 REMARK 3 B22 (A**2) : 3.32000 REMARK 3 B33 (A**2) : 0.05000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.37000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.16 REMARK 3 ESD FROM SIGMAA (A) : 0.07 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.19 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.10 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.005 REMARK 3 BOND ANGLES (DEGREES) : 1.30 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 23.50 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.76 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : ISOTROPIC REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 1.370 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 1.870 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 2.450 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 3.540 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.38 REMARK 3 BSOL : 51.55 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 : PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 3 : ION.PARAM REMARK 3 PARAMETER FILE 4 : CIS_PEPTIDE.PARAM REMARK 3 PARAMETER FILE 5 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : ION.TOP REMARK 3 TOPOLOGY FILE 3 : WATER.TOP REMARK 3 TOPOLOGY FILE 4 : NULL REMARK 3 TOPOLOGY FILE 5 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL
REMARK 4 REMARK 4 1V7V COMPLIES WITH FORMAT V. 3.30, 13-JUL-11
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 05-JAN-04. REMARK 100 THE RCSB ID CODE IS RCSB006316.
REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 23-JUN-03 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 : PHOTON FACTORY REMARK 200 BEAMLINE : AR-NW12A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0000, 0.97120, 0.97848, 0.97960 REMARK 200 MONOCHROMATOR : DOUBLE-CRYSTAL SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ACSC QUANTUM 210 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 70781 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.5 REMARK 200 DATA REDUNDANCY : 2.000 REMARK 200 R MERGE (I) : 0.04900 REMARK 200 R SYM (I) : 0.04900 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 15.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.86 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.6 REMARK 200 DATA REDUNDANCY IN SHELL : 2.00 REMARK 200 R MERGE FOR SHELL (I) : 0.22800 REMARK 200 R SYM FOR SHELL (I) : 0.22800 REMARK 200 <I/SIGMA(I)> FOR SHELL : 5.330 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: SOLVE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL
REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 39.18 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.04 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG400, HEPES, CALCIUM CHLORIDE, PH REMARK 280 8.0, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 277K
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 70.47300 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 35.29000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 70.47300 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 35.29000 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 300 REMARK: THE BIOLOGICAL ASSEMBLY IS A DIMER GENERATED FROM THE REMARK 300 MONOMER IN THE ASYMMETRIC UNIT BY THE OPERATIONS: 1-X, Y, 1-Z.
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: 5900 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 49520 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -72.0 KCAL/MOL 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 BIOMT1 2 -1.000000 0.000000 0.000000 129.25278 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 79.18630
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 GLU A 395 REMARK 465 LYS A 396 REMARK 465 GLU A 397 REMARK 465 ASP A 398 REMARK 465 VAL A 399 REMARK 465 ALA A 400 REMARK 465 PRO A 401 REMARK 465 SER A 402 REMARK 465 LYS A 403 REMARK 465 SER A 404 REMARK 465 PRO A 405 REMARK 465 THR A 406 REMARK 465 VAL A 407 REMARK 465 VAL A 408 REMARK 465 PRO A 409 REMARK 465 THR A 410 REMARK 465 PRO A 411 REMARK 465 SER A 412 REMARK 465 ASP A 413 REMARK 465 GLU A 414 REMARK 465 ASP A 415 REMARK 465 LYS A 416 REMARK 465 HIS A 802 REMARK 465 HIS A 803 REMARK 465 HIS A 804 REMARK 465 HIS A 805 REMARK 465 HIS A 806 REMARK 465 HIS A 807
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 ASP A 19 44.41 -85.55 REMARK 500 GLU A 31 -82.21 -121.12 REMARK 500 ASN A 48 -62.43 65.11 REMARK 500 PRO A 67 -167.48 -79.76 REMARK 500 ASN A 114 51.54 39.16 REMARK 500 ASP A 129 67.94 -106.21 REMARK 500 SER A 158 -47.23 82.55 REMARK 500 PRO A 180 115.02 -38.29 REMARK 500 PHE A 194 -68.21 -94.20 REMARK 500 ALA A 238 123.99 -171.60 REMARK 500 CYS A 241 160.42 81.25 REMARK 500 TYR A 242 -164.22 72.52 REMARK 500 ALA A 319 -74.30 -154.04 REMARK 500 SER A 332 -156.49 70.89 REMARK 500 SER A 336 -154.52 -150.35 REMARK 500 ASP A 492 69.76 -69.65 REMARK 500 LYS A 636 -129.77 45.66 REMARK 500 ARG A 658 78.87 -108.93 REMARK 500 ILE A 682 -55.41 73.14 REMARK 500 HIS A 700 123.45 -37.80 REMARK 500 HIS A 705 74.63 72.45 REMARK 500 TRP A 707 -78.09 66.77 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 A1623 DISTANCE = 5.06 ANGSTROMS REMARK 525 HOH A1630 DISTANCE = 5.53 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 CA A1001 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 186 OD1 REMARK 620 2 GLY A 196 O 87.6 REMARK 620 3 LEU A 187 O 83.9 87.6 REMARK 620 4 ASN A 190 O 161.0 101.4 79.9 REMARK 620 5 HOH A1227 O 87.1 170.7 84.2 81.5 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A1002 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 793 OD2 REMARK 620 2 HOH A1048 O 80.4 REMARK 620 3 GLY A 791 O 90.2 141.4 REMARK 620 4 HOH A1341 O 164.7 112.9 83.6 REMARK 620 5 GLY A 127 O 89.2 63.5 154.4 90.4 REMARK 620 6 HOH A1088 O 84.1 142.5 72.0 80.7 82.5 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A1003 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A1435 O REMARK 620 2 HOH A1678 O 92.2 REMARK 620 3 GLU A 459 OE1 100.1 72.9 REMARK 620 4 HOH A1412 O 80.1 144.7 142.2 REMARK 620 5 GLU A 459 OE2 86.1 124.3 52.8 89.7 REMARK 620 6 THR A 140 O 163.8 102.7 78.6 91.1 80.3 REMARK 620 7 HOH A1279 O 101.8 81.6 146.7 66.8 153.0 86.8 REMARK 620 N 1 2 3 4 5 6
REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 1001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 1002 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 1003
REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1V7W RELATED DB: PDB REMARK 900 THE SAME PROTEIN WITH GLCNAC REMARK 900 RELATED ID: 1V7X RELATED DB: PDB REMARK 900 THE SAME PROTEIN WITH GLCNAC AND SULFATE
DBREF 1V7V A 1 801 UNP Q76IQ9 Q76IQ9_VIBPR 1 801
SEQADV 1V7V HIS A 802 UNP Q76IQ9 EXPRESSION TAG SEQADV 1V7V HIS A 803 UNP Q76IQ9 EXPRESSION TAG SEQADV 1V7V HIS A 804 UNP Q76IQ9 EXPRESSION TAG SEQADV 1V7V HIS A 805 UNP Q76IQ9 EXPRESSION TAG SEQADV 1V7V HIS A 806 UNP Q76IQ9 EXPRESSION TAG SEQADV 1V7V HIS A 807 UNP Q76IQ9 EXPRESSION TAG
SEQRES 1 A 807 MET LYS TYR GLY TYR PHE ASP ASN ASP ASN ARG GLU TYR SEQRES 2 A 807 VAL ILE THR ARG PRO ASP VAL PRO ALA PRO TRP THR ASN SEQRES 3 A 807 TYR LEU GLY THR GLU LYS PHE CYS THR VAL ILE SER HIS SEQRES 4 A 807 ASN ALA GLY GLY TYR SER PHE TYR ASN SER PRO GLU TYR SEQRES 5 A 807 ASN ARG VAL THR LYS PHE ARG PRO ASN ALA THR PHE ASP SEQRES 6 A 807 ARG PRO GLY HIS TYR VAL TYR LEU ARG ASP ASP ASP SER SEQRES 7 A 807 GLY ASP TYR TRP SER ILE SER TRP GLN PRO VAL ALA LYS SEQRES 8 A 807 SER LEU ASP GLU ALA GLN TYR GLN ILE ARG HIS GLY LEU SEQRES 9 A 807 SER TYR SER LYS PHE GLN CYS ASP TYR ASN GLY ILE HIS SEQRES 10 A 807 ALA ARG LYS THR LEU PHE VAL PRO LYS GLY GLU ASP ALA SEQRES 11 A 807 GLU ILE TRP ASP VAL VAL ILE LYS ASN THR SER ASP GLN SEQRES 12 A 807 VAL ARG THR ILE SER ALA PHE SER PHE VAL GLU PHE SER SEQRES 13 A 807 PHE SER HIS ILE GLN SER ASP ASN GLN ASN HIS GLN MET SEQRES 14 A 807 SER LEU TYR SER ALA GLY THR ALA TYR ARG PRO GLY LEU SEQRES 15 A 807 ILE GLU TYR ASP LEU TYR TYR ASN THR ASP ASP PHE GLU SEQRES 16 A 807 GLY PHE TYR TYR LEU ALA SER THR PHE ASP PRO ASP SER SEQRES 17 A 807 TYR ASP GLY GLN ARG ASP ARG PHE LEU GLY LEU TYR ARG SEQRES 18 A 807 ASP GLU ALA ASN PRO LEU ALA VAL GLU GLN GLY ARG CYS SEQRES 19 A 807 SER ASN SER ALA GLN THR CYS TYR ASN HIS CYS GLY SER SEQRES 20 A 807 LEU HIS LYS GLN PHE THR LEU GLN PRO GLY GLU GLU ILE SEQRES 21 A 807 ARG PHE ALA TYR ILE LEU GLY ILE GLY LYS GLY ASN GLY SEQRES 22 A 807 GLU ARG LEU ARG GLU HIS TYR GLN ASP VAL ALA ASN ILE SEQRES 23 A 807 ASP ALA ALA PHE ALA ALA ILE LYS ALA HIS TRP ASP GLU SEQRES 24 A 807 ARG CYS ALA LYS PHE GLN VAL LYS SER PRO ASN GLN GLY SEQRES 25 A 807 LEU ASP THR MET ILE ASN ALA TRP THR LEU TYR GLN ALA SEQRES 26 A 807 GLU THR CYS VAL VAL TRP SER ARG PHE ALA SER PHE ILE SEQRES 27 A 807 GLU VAL GLY GLY ARG THR GLY LEU GLY TYR ARG ASP THR SEQRES 28 A 807 ALA GLN ASP ALA ILE SER VAL PRO HIS ALA ASN PRO GLU SEQRES 29 A 807 MET THR ARG LYS ARG ILE VAL ASP LEU LEU ARG GLY GLN SEQRES 30 A 807 VAL LYS ALA GLY TYR GLY LEU HIS LEU PHE ASP PRO ASP SEQRES 31 A 807 TRP PHE ASP PRO GLU LYS GLU ASP VAL ALA PRO SER LYS SEQRES 32 A 807 SER PRO THR VAL VAL PRO THR PRO SER ASP GLU ASP LYS SEQRES 33 A 807 ILE HIS GLY ILE LYS ASP THR CYS SER ASP ASP HIS LEU SEQRES 34 A 807 TRP LEU ILE PRO THR ILE CYS LYS TYR VAL MET GLU THR SEQRES 35 A 807 GLY GLU THR SER PHE PHE ASP GLN MET ILE PRO TYR ALA SEQRES 36 A 807 ASP GLY GLY GLU ALA SER VAL TYR GLU HIS MET LYS ALA SEQRES 37 A 807 ALA LEU ASP PHE SER ALA GLU TYR VAL GLY GLN THR GLY SEQRES 38 A 807 ILE CYS LYS GLY LEU ARG ALA ASP TRP ASN ASP CYS LEU SEQRES 39 A 807 ASN LEU GLY GLY GLY GLU SER SER MET VAL SER PHE LEU SEQRES 40 A 807 HIS PHE TRP ALA LEU GLN GLU PHE ILE ASP LEU ALA LYS SEQRES 41 A 807 PHE LEU GLY LYS ASP GLN ASP VAL ASN THR TYR THR GLU SEQRES 42 A 807 MET ALA ALA ASN VAL ARG GLU ALA CYS GLU THR HIS LEU SEQRES 43 A 807 TRP ASP ASP GLU GLY GLY TRP TYR ILE ARG GLY LEU THR SEQRES 44 A 807 LYS ASN GLY ASP LYS ILE GLY THR ALA GLN GLN GLN GLU SEQRES 45 A 807 GLY ARG VAL HIS LEU GLU SER ASN THR LEU ALA VAL LEU SEQRES 46 A 807 SER GLY LEU ALA SER GLN GLU ARG GLY GLU GLN ALA MET SEQRES 47 A 807 ASP ALA VAL ASP GLU HIS LEU PHE SER PRO TYR GLY LEU SEQRES 48 A 807 HIS LEU ASN ALA PRO SER PHE SER THR PRO ASN ASP ASP SEQRES 49 A 807 ILE GLY PHE VAL THR ARG VAL TYR GLN GLY VAL LYS GLU SEQRES 50 A 807 ASN GLY ALA ILE PHE SER HIS PRO ASN PRO TRP ALA TRP SEQRES 51 A 807 VAL ALA GLU THR LYS LEU GLY ARG GLY ASP ARG ALA MET SEQRES 52 A 807 LYS PHE TYR ASP ALA LEU ASN PRO TYR ASN GLN ASN ASP SEQRES 53 A 807 ILE ILE GLU LYS ARG ILE ALA GLU PRO TYR SER TYR VAL SEQRES 54 A 807 GLN PHE ILE MET GLY ARG ASP HIS GLN ASP HIS GLY ARG SEQRES 55 A 807 ALA ASN HIS PRO TRP LEU THR GLY THR SER GLY TRP ALA SEQRES 56 A 807 TYR PHE ALA VAL THR ASN TYR ILE LEU GLY VAL GLN SER SEQRES 57 A 807 GLY PHE THR GLY LEU SER VAL ASP PRO CYS ILE PRO SER SEQRES 58 A 807 ASP TRP PRO GLY PHE GLU VAL THR ARG GLN TRP ARG GLY SEQRES 59 A 807 ALA THR TYR HIS ILE GLN VAL GLU ASN PRO ASP HIS VAL SEQRES 60 A 807 SER LYS GLY VAL LYS SER ILE THR LEU ASN GLY ALA PRO SEQRES 61 A 807 ILE GLN GLY ARG ILE PRO PRO GLN ALA GLN GLY SER ASP SEQRES 62 A 807 ASN GLN VAL VAL VAL VAL LEU GLY HIS HIS HIS HIS HIS SEQRES 63 A 807 HIS
HET CA A1001 1 HET CA A1002 1 HET CA A1003 1
HETNAM CA CALCIUM ION
FORMUL 2 CA 3(CA 2+) FORMUL 5 HOH *676(H2 O)
HELIX 1 1 HIS A 159 GLN A 165 1 7 HELIX 2 2 ASN A 166 LEU A 171 1 6 HELIX 3 3 ARG A 213 GLY A 218 1 6 HELIX 4 4 PRO A 226 GLY A 232 1 7 HELIX 5 5 GLY A 271 TYR A 280 1 10 HELIX 6 6 ASP A 282 ALA A 302 1 21 HELIX 7 7 ASN A 310 ASN A 318 1 9 HELIX 8 8 ALA A 319 SER A 332 1 14 HELIX 9 9 TYR A 348 ALA A 355 1 8 HELIX 10 10 ASN A 362 GLY A 376 1 15 HELIX 11 11 ASP A 388 ASP A 393 5 6 HELIX 12 12 GLY A 419 THR A 423 5 5 HELIX 13 13 ASP A 426 GLY A 443 1 18 HELIX 14 14 GLU A 444 ASP A 449 5 6 HELIX 15 15 VAL A 462 TYR A 476 1 15 HELIX 16 16 SER A 502 GLY A 523 1 22 HELIX 17 17 LYS A 524 LEU A 546 1 23 HELIX 18 18 LEU A 577 SER A 586 1 10 HELIX 19 19 SER A 590 LEU A 605 1 16 HELIX 20 20 GLY A 626 VAL A 631 5 6 HELIX 21 21 PRO A 645 LEU A 656 1 12 HELIX 22 22 ARG A 658 ASN A 670 1 13 HELIX 23 23 PRO A 671 ASN A 675 5 5 HELIX 24 24 ILE A 677 ILE A 682 1 6 HELIX 25 25 GLY A 710 TYR A 722 1 13
SHEET 1 A10 GLY A 4 ASP A 7 0 SHEET 2 A10 GLU A 12 ILE A 15 -1 O GLU A 12 N ASP A 7 SHEET 3 A10 ALA A 96 GLY A 103 -1 O ILE A 100 N ILE A 15 SHEET 4 A10 TYR A 106 TYR A 113 -1 O TYR A 106 N GLY A 103 SHEET 5 A10 ILE A 116 PHE A 123 -1 O LYS A 120 N PHE A 109 SHEET 6 A10 ALA A 130 ASN A 139 -1 O LYS A 138 N HIS A 117 SHEET 7 A10 GLU A 259 ILE A 268 -1 O LEU A 266 N GLU A 131 SHEET 8 A10 PHE A 197 SER A 202 -1 N ALA A 201 O ILE A 265 SHEET 9 A10 LEU A 182 LEU A 187 -1 N ILE A 183 O LEU A 200 SHEET 10 A10 ALA A 174 ARG A 179 -1 N GLY A 175 O ASP A 186 SHEET 1 B 3 THR A 25 LEU A 28 0 SHEET 2 B 3 PHE A 33 SER A 38 -1 O THR A 35 N LEU A 28 SHEET 3 B 3 GLY A 43 TYR A 47 -1 O TYR A 44 N VAL A 36 SHEET 1 C 5 TYR A 81 SER A 83 0 SHEET 2 C 5 TYR A 70 ASP A 75 -1 N LEU A 73 O TRP A 82 SHEET 3 C 5 ARG A 145 PHE A 152 -1 O PHE A 150 N TYR A 72 SHEET 4 C 5 HIS A 244 LEU A 254 -1 O LEU A 254 N ARG A 145 SHEET 5 C 5 SER A 208 GLN A 212 -1 N SER A 208 O HIS A 249 SHEET 1 D 6 PHE A 304 LYS A 307 0 SHEET 2 D 6 GLY A 745 TRP A 752 -1 O GLU A 747 N LYS A 307 SHEET 3 D 6 ALA A 755 GLU A 762 -1 O VAL A 761 N PHE A 746 SHEET 4 D 6 ASP A 793 LEU A 800 1 O ASN A 794 N HIS A 758 SHEET 5 D 6 VAL A 771 LEU A 776 -1 N SER A 773 O VAL A 799 SHEET 6 D 6 ALA A 779 ILE A 781 -1 O ALA A 779 N LEU A 776 SHEET 1 E 2 LEU A 346 GLY A 347 0 SHEET 2 E 2 LEU A 386 PHE A 387 -1 O PHE A 387 N LEU A 346 SHEET 1 F 2 MET A 451 PRO A 453 0 SHEET 2 F 2 GLU A 459 SER A 461 -1 O ALA A 460 N ILE A 452 SHEET 1 G 4 LYS A 484 LEU A 486 0 SHEET 2 G 4 ASN A 495 SER A 501 -1 O ASN A 495 N LEU A 486 SHEET 3 G 4 GLY A 557 LEU A 558 -1 O LEU A 558 N GLU A 500 SHEET 4 G 4 LYS A 564 ILE A 565 -1 O ILE A 565 N GLY A 557 SHEET 1 H 2 TRP A 547 ASP A 548 0 SHEET 2 H 2 TRP A 553 TYR A 554 -1 O TRP A 553 N ASP A 548 SHEET 1 I 2 VAL A 575 HIS A 576 0 SHEET 2 I 2 ASN A 614 ALA A 615 -1 O ALA A 615 N VAL A 575 SHEET 1 J 2 PHE A 606 SER A 607 0 SHEET 2 J 2 GLY A 610 LEU A 611 -1 O GLY A 610 N SER A 607 SHEET 1 K 3 ILE A 641 PHE A 642 0 SHEET 2 K 3 VAL A 689 ILE A 692 -1 O ILE A 692 N ILE A 641 SHEET 3 K 3 ALA A 703 PRO A 706 -1 O ASN A 704 N PHE A 691 SHEET 1 L 2 VAL A 726 SER A 728 0 SHEET 2 L 2 LEU A 733 VAL A 735 -1 O SER A 734 N GLN A 727
SSBOND 1 CYS A 424 CYS A 493 1555 1555 2.03
LINK CA CA A1001 OD1 ASP A 186 1555 1555 2.31 LINK CA CA A1001 O GLY A 196 1555 1555 2.70 LINK CA CA A1001 O LEU A 187 1555 1555 2.42 LINK CA CA A1001 O ASN A 190 1555 1555 2.43 LINK CA CA A1001 O HOH A1227 1555 1555 2.30 LINK CA CA A1002 OD2 ASP A 793 1555 1555 2.51 LINK CA CA A1002 O HOH A1048 1555 1555 2.15 LINK CA CA A1002 O GLY A 791 1555 1555 2.51 LINK CA CA A1002 O HOH A1341 1555 1555 2.34 LINK CA CA A1003 O HOH A1435 1555 1555 2.41 LINK CA CA A1003 O HOH A1678 1555 1555 2.22 LINK CA CA A1003 OE1 GLU A 459 1555 1555 2.36 LINK CA CA A1003 O HOH A1412 1555 1555 2.97 LINK CA CA A1003 OE2 GLU A 459 1555 1555 2.56 LINK CA CA A1002 O GLY A 127 1555 2655 2.39 LINK CA CA A1002 O HOH A1088 1555 2655 2.25 LINK CA CA A1003 O THR A 140 1555 1565 2.35 LINK CA CA A1003 O HOH A1279 1555 1565 2.59
CISPEP 1 ARG A 66 PRO A 67 0 -1.60 CISPEP 2 GLN A 87 PRO A 88 0 1.35 CISPEP 3 ALA A 615 PRO A 616 0 -1.82
SITE 1 AC1 6 ASP A 186 LEU A 187 ASN A 190 GLY A 196 SITE 2 AC1 6 PHE A 197 HOH A1227 SITE 1 AC2 6 GLY A 127 GLY A 791 ASP A 793 HOH A1048 SITE 2 AC2 6 HOH A1088 HOH A1341 SITE 1 AC3 6 THR A 140 GLU A 459 HOH A1279 HOH A1412 SITE 2 AC3 6 HOH A1435 HOH A1678
CRYST1 140.946 70.580 80.045 90.00 98.40 90.00 C 1 2 1 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 0.007095 0.000000 0.001048 0.00000
SCALE2 0.000000 0.014168 0.000000 0.00000
SCALE3 0.000000 0.000000 0.012629 0.00000