HEADER TRANSFERASE 29-APR-07 2YYE TITLE CRYSTAL STRUCTURE OF SELENOPHOSPHATE SYNTHETASE FROM AQUIFEX AEOLICUS TITLE 2 COMPLEXED WITH AMPCPP COMPND MOL_ID: 1; COMPND 2 MOLECULE: SELENIDE, WATER DIKINASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: SELENOPHOSPHATE SYNTHETASE, SELENIUM DONOR PROTEIN; COMPND 5 EC: 2.7.9.3; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: AQUIFEX AEOLICUS; SOURCE 3 ORGANISM_TAXID: 224324; SOURCE 4 STRAIN: VF5; SOURCE 5 GENE: AQ_1030; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PCOLD TF KEYWDS FULL-LENGTH SELENOPHOSPHATE SYNTHETASE COMPLEX WITH ATP-ANALOG, KEYWDS 2 STRUCTURAL GENOMICS, NPPSFA, NATIONAL PROJECT ON PROTEIN STRUCTURAL KEYWDS 3 AND FUNCTIONAL ANALYSES, RIKEN STRUCTURAL GENOMICS/PROTEOMICS KEYWDS 4 INITIATIVE, RSGI, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR Y.ITOH,S.SEKINE,E.MATSUMOTO,S.YOKOYAMA,RIKEN STRUCTURAL AUTHOR 2 GENOMICS/PROTEOMICS INITIATIVE (RSGI) REVDAT 5 25-OCT-23 2YYE 1 REMARK SEQADV REVDAT 4 22-JAN-14 2YYE 1 JRNL VERSN REVDAT 3 24-FEB-09 2YYE 1 VERSN REVDAT 2 14-OCT-08 2YYE 1 JRNL REMARK TITLE REVDAT 1 29-APR-08 2YYE 0 JRNL AUTH Y.ITOH,S.SEKINE,E.MATSUMOTO,R.AKASAKA,C.TAKEMOTO,M.SHIROUZU, JRNL AUTH 2 S.YOKOYAMA JRNL TITL STRUCTURE OF SELENOPHOSPHATE SYNTHETASE ESSENTIAL FOR JRNL TITL 2 SELENIUM INCORPORATION INTO PROTEINS AND RNAS JRNL REF J.MOL.BIOL. V. 385 1456 2009 JRNL REFN ISSN 0022-2836 JRNL PMID 18773910 JRNL DOI 10.1016/J.JMB.2008.08.042 REMARK 2 REMARK 2 RESOLUTION. 2.10 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 42.47 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 2374350.300 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 35947 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) : 0.173 REMARK 3 FREE R VALUE : 0.225 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1783 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.005 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) : 2.10 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.23 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.70 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 5590 REMARK 3 BIN R VALUE (WORKING SET) : 0.1960 REMARK 3 BIN FREE R VALUE : 0.2620 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 5.00 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 293 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.015 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5246 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 77 REMARK 3 SOLVENT ATOMS : 279 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 18.80 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 35.70 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.54000 REMARK 3 B22 (A**2) : 0.54000 REMARK 3 B33 (A**2) : -1.08000 REMARK 3 B12 (A**2) : -0.24000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.19 REMARK 3 ESD FROM SIGMAA (A) : 0.12 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) : 0.27 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.19 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.009 REMARK 3 BOND ANGLES (DEGREES) : 1.400 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 23.00 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.850 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : RESTRAINED REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 3.790 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 4.880 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 6.150 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 8.300 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.37 REMARK 3 BSOL : 57.24 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 : AMPCPP_PRODRG_EDIT.PARAM REMARK 3 PARAMETER FILE 5 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : WATER_REP.TOP REMARK 3 TOPOLOGY FILE 3 : ION.TOP REMARK 3 TOPOLOGY FILE 4 : AMPCPP_PRODRG.TOP REMARK 3 TOPOLOGY FILE 5 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: WE REPLACED SELENOCYSTEINE 13 BY CYS TO REMARK 3 FACILITATE THE PROTEIN EXPRESSION REMARK 4 REMARK 4 2YYE COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 13-JUL-07. REMARK 100 THE DEPOSITION ID IS D_1000027290. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 27-MAR-06 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 6.4 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SPRING-8 REMARK 200 BEAMLINE : BL41XU REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1 REMARK 200 MONOCHROMATOR : SILICON REMARK 200 OPTICS : MONOCHROMATER REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 36487 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.100 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 6.000 REMARK 200 R MERGE (I) : 0.10800 REMARK 200 R SYM (I) : 0.10800 REMARK 200 FOR THE DATA SET : 19.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.18 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 6.00 REMARK 200 R MERGE FOR SHELL (I) : 0.68200 REMARK 200 R SYM FOR SHELL (I) : 0.68200 REMARK 200 FOR SHELL : 3.000 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: 2YYD REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 38.32 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.99 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 17% PEG8000, 50MM KH2PO4, 0.1M MES, REMARK 280 1MM AMPCPP, 5MM COCL2, PH 6.4, VAPOR DIFFUSION, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 31 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+2/3 REMARK 290 6555 -X,-X+Y,-Z+1/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 53.54700 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 107.09400 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 107.09400 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 53.54700 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 REMARK 350 TOTAL BURIED SURFACE AREA: 9010 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 25310 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -152.0 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 B1042 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 GLY A -8 REMARK 465 SER A -7 REMARK 465 GLU A -3 REMARK 465 GLY A -2 REMARK 465 ARG A -1 REMARK 465 HIS A 0 REMARK 465 GLY B -8 REMARK 465 SER B -7 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 O HOH B 923 O HOH B 1011 2.19 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 SER A 10 139.12 -33.49 REMARK 500 SER A 11 73.37 52.76 REMARK 500 CYS A 13 -84.35 -160.98 REMARK 500 ALA A 14 15.84 -161.40 REMARK 500 ALA A 15 -3.19 66.59 REMARK 500 VAL A 17 61.41 -119.19 REMARK 500 PRO A 19 -154.63 -74.00 REMARK 500 LEU A 22 -75.27 -59.85 REMARK 500 GLN A 23 -2.56 -57.64 REMARK 500 SER A 40 -161.36 -101.83 REMARK 500 LEU A 105 -138.55 -154.99 REMARK 500 THR A 221 -126.57 -131.09 REMARK 500 MET B 1 -70.35 -107.83 REMARK 500 VAL B 2 84.08 68.83 REMARK 500 SER B 40 -159.60 -112.18 REMARK 500 ILE B 41 120.72 -35.88 REMARK 500 ASP B 43 -166.58 -103.58 REMARK 500 LEU B 105 -146.62 -157.22 REMARK 500 THR B 221 -127.03 -129.06 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CO B 701 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CO A 702 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CO A 703 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CO A 704 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CO A 705 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CO A 801 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CO B 802 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CO B 803 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CO B 804 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CO B 805 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 B 901 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE APC A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE APC B 601 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2E0B RELATED DB: PDB REMARK 900 AN N-TERMINALLY TRUNCATED FRAGMENT, CORRESPONDING TO RESIDUES 26- REMARK 900 336 OF THE FULL-LENGTH PROTEIN. REMARK 900 RELATED ID: 2ZAU RELATED DB: PDB REMARK 900 AN N-TERMINALLY TRUNCATED FRAGMENT, CORRESPONDING TO RESIDUES 26- REMARK 900 336 OF THE FULL-LENGTH SPS REMARK 900 RELATED ID: 2ZOD RELATED DB: PDB REMARK 900 THE FULL-LENGTH SPS, APO FORM REMARK 900 RELATED ID: AAE001001030.3 RELATED DB: TARGETDB DBREF 2YYE A 1 336 UNP O67139 SELD_AQUAE 1 336 DBREF 2YYE B 1 336 UNP O67139 SELD_AQUAE 1 336 SEQADV 2YYE GLY A -8 UNP O67139 EXPRESSION TAG SEQADV 2YYE SER A -7 UNP O67139 EXPRESSION TAG SEQADV 2YYE GLY A -6 UNP O67139 EXPRESSION TAG SEQADV 2YYE GLY A -5 UNP O67139 EXPRESSION TAG SEQADV 2YYE ILE A -4 UNP O67139 EXPRESSION TAG SEQADV 2YYE GLU A -3 UNP O67139 EXPRESSION TAG SEQADV 2YYE GLY A -2 UNP O67139 EXPRESSION TAG SEQADV 2YYE ARG A -1 UNP O67139 EXPRESSION TAG SEQADV 2YYE HIS A 0 UNP O67139 EXPRESSION TAG SEQADV 2YYE GLY B -8 UNP O67139 EXPRESSION TAG SEQADV 2YYE SER B -7 UNP O67139 EXPRESSION TAG SEQADV 2YYE GLY B -6 UNP O67139 EXPRESSION TAG SEQADV 2YYE GLY B -5 UNP O67139 EXPRESSION TAG SEQADV 2YYE ILE B -4 UNP O67139 EXPRESSION TAG SEQADV 2YYE GLU B -3 UNP O67139 EXPRESSION TAG SEQADV 2YYE GLY B -2 UNP O67139 EXPRESSION TAG SEQADV 2YYE ARG B -1 UNP O67139 EXPRESSION TAG SEQADV 2YYE HIS B 0 UNP O67139 EXPRESSION TAG SEQRES 1 A 345 GLY SER GLY GLY ILE GLU GLY ARG HIS MET VAL GLU LEU SEQRES 2 A 345 LEU LYS LEU VAL ARG SER SER GLY CYS ALA ALA LYS VAL SEQRES 3 A 345 GLY PRO GLY ASP LEU GLN GLU ILE LEU LYS GLY PHE ASN SEQRES 4 A 345 ILE TYR THR ASP GLU SER THR LEU VAL SER ILE GLY ASP SEQRES 5 A 345 ASP ALA GLY VAL TYR GLU HIS ASN GLY ILE ILE TRP VAL SEQRES 6 A 345 TYR THR VAL ASP ILE ILE THR PRO VAL VAL ASN ASP PRO SEQRES 7 A 345 TYR LEU TRP GLY ALA ILE SER THR ALA ASN ALA LEU SER SEQRES 8 A 345 ASP VAL TYR ALA MET GLY GLY ILE PRO VAL ASN ALA LEU SEQRES 9 A 345 ALA ILE SER CYS PHE ASN ASN CYS GLU LEU ASP ILE GLU SEQRES 10 A 345 ILE PHE ARG GLU VAL ILE ARG GLY ALA LEU ASP LYS LEU SEQRES 11 A 345 ARG GLU ALA LYS THR VAL LEU LEU GLY GLY HIS THR ILE SEQRES 12 A 345 ASP ASP LYS GLU PRO LYS PHE GLY LEU SER VAL ALA GLY SEQRES 13 A 345 ILE CYS PRO GLU GLY LYS TYR ILE THR GLN SER GLY ALA SEQRES 14 A 345 GLN VAL GLY GLN LEU LEU ILE LEU THR LYS PRO ILE GLY SEQRES 15 A 345 THR GLY ILE LEU ILE LYS GLY LEU LYS GLU GLY ILE LEU SEQRES 16 A 345 LYS GLU GLU ASP ILE ASN GLU ALA ILE GLU ASN MET LEU SEQRES 17 A 345 ALA LEU ASN ASP LYS ALA ARG ASN LEU MET LEU SER LEU SEQRES 18 A 345 ASP ALA THR ALA CYS THR ASP VAL THR GLY PHE GLY LEU SEQRES 19 A 345 LEU GLY HIS ALA TRP ASN ILE CYS LYS ASN SER ASN ILE SEQRES 20 A 345 GLY ALA ARG ILE PHE PHE GLU LYS VAL PRO TYR TYR GLN SEQRES 21 A 345 LEU SER GLU ASN LEU VAL LYS LYS LYS ILE TYR PRO LYS SEQRES 22 A 345 GLY ALA ILE GLU ASN LEU ASN PHE VAL LYS ASN TYR LEU SEQRES 23 A 345 LYS SER ASN LEU ASP ASN TRP LYS LEU ILE LEU LEU SER SEQRES 24 A 345 ASP PRO VAL THR SER GLY GLY LEU LEU PHE THR ILE ASN SEQRES 25 A 345 LYS GLU LYS LEU GLU LYS ILE ASP GLU THR ALA LYS GLU SEQRES 26 A 345 LEU GLU VAL ASN TYR TRP ILE ILE GLY GLU THR ILE ALA SEQRES 27 A 345 GLU ASN VAL LEU GLU VAL LEU SEQRES 1 B 345 GLY SER GLY GLY ILE GLU GLY ARG HIS MET VAL GLU LEU SEQRES 2 B 345 LEU LYS LEU VAL ARG SER SER GLY CYS ALA ALA LYS VAL SEQRES 3 B 345 GLY PRO GLY ASP LEU GLN GLU ILE LEU LYS GLY PHE ASN SEQRES 4 B 345 ILE TYR THR ASP GLU SER THR LEU VAL SER ILE GLY ASP SEQRES 5 B 345 ASP ALA GLY VAL TYR GLU HIS ASN GLY ILE ILE TRP VAL SEQRES 6 B 345 TYR THR VAL ASP ILE ILE THR PRO VAL VAL ASN ASP PRO SEQRES 7 B 345 TYR LEU TRP GLY ALA ILE SER THR ALA ASN ALA LEU SER SEQRES 8 B 345 ASP VAL TYR ALA MET GLY GLY ILE PRO VAL ASN ALA LEU SEQRES 9 B 345 ALA ILE SER CYS PHE ASN ASN CYS GLU LEU ASP ILE GLU SEQRES 10 B 345 ILE PHE ARG GLU VAL ILE ARG GLY ALA LEU ASP LYS LEU SEQRES 11 B 345 ARG GLU ALA LYS THR VAL LEU LEU GLY GLY HIS THR ILE SEQRES 12 B 345 ASP ASP LYS GLU PRO LYS PHE GLY LEU SER VAL ALA GLY SEQRES 13 B 345 ILE CYS PRO GLU GLY LYS TYR ILE THR GLN SER GLY ALA SEQRES 14 B 345 GLN VAL GLY GLN LEU LEU ILE LEU THR LYS PRO ILE GLY SEQRES 15 B 345 THR GLY ILE LEU ILE LYS GLY LEU LYS GLU GLY ILE LEU SEQRES 16 B 345 LYS GLU GLU ASP ILE ASN GLU ALA ILE GLU ASN MET LEU SEQRES 17 B 345 ALA LEU ASN ASP LYS ALA ARG ASN LEU MET LEU SER LEU SEQRES 18 B 345 ASP ALA THR ALA CYS THR ASP VAL THR GLY PHE GLY LEU SEQRES 19 B 345 LEU GLY HIS ALA TRP ASN ILE CYS LYS ASN SER ASN ILE SEQRES 20 B 345 GLY ALA ARG ILE PHE PHE GLU LYS VAL PRO TYR TYR GLN SEQRES 21 B 345 LEU SER GLU ASN LEU VAL LYS LYS LYS ILE TYR PRO LYS SEQRES 22 B 345 GLY ALA ILE GLU ASN LEU ASN PHE VAL LYS ASN TYR LEU SEQRES 23 B 345 LYS SER ASN LEU ASP ASN TRP LYS LEU ILE LEU LEU SER SEQRES 24 B 345 ASP PRO VAL THR SER GLY GLY LEU LEU PHE THR ILE ASN SEQRES 25 B 345 LYS GLU LYS LEU GLU LYS ILE ASP GLU THR ALA LYS GLU SEQRES 26 B 345 LEU GLU VAL ASN TYR TRP ILE ILE GLY GLU THR ILE ALA SEQRES 27 B 345 GLU ASN VAL LEU GLU VAL LEU HET CO A 702 1 HET CO A 703 1 HET CO A 704 1 HET CO A 705 1 HET CO A 801 1 HET APC A 501 31 HET CO B 701 1 HET CO B 802 1 HET CO B 803 1 HET CO B 804 1 HET CO B 805 1 HET PO4 B 901 5 HET APC B 601 31 HETNAM CO COBALT (II) ION HETNAM APC DIPHOSPHOMETHYLPHOSPHONIC ACID ADENOSYL ESTER HETNAM PO4 PHOSPHATE ION HETSYN APC ALPHA,BETA-METHYLENEADENOSINE-5'-TRIPHOSPHATE FORMUL 3 CO 10(CO 2+) FORMUL 8 APC 2(C11 H18 N5 O12 P3) FORMUL 14 PO4 O4 P 3- FORMUL 16 HOH *279(H2 O) HELIX 1 1 GLU A 3 VAL A 8 5 6 HELIX 2 2 GLY A 20 GLY A 28 1 9 HELIX 3 3 ASP A 68 ALA A 86 1 19 HELIX 4 4 ASP A 106 ALA A 124 1 19 HELIX 5 5 PRO A 150 LYS A 153 5 4 HELIX 6 6 GLY A 173 GLU A 183 1 11 HELIX 7 7 LYS A 187 ASP A 190 5 4 HELIX 8 8 ILE A 191 ALA A 200 1 10 HELIX 9 9 ASN A 202 LEU A 212 1 11 HELIX 10 10 PHE A 223 ASN A 237 1 15 HELIX 11 11 GLU A 245 VAL A 247 5 3 HELIX 12 12 TYR A 250 LYS A 258 1 9 HELIX 13 13 PRO A 263 LYS A 274 1 12 HELIX 14 14 ASP A 282 ASP A 291 1 10 HELIX 15 15 ASN A 303 GLU A 308 5 6 HELIX 16 16 LYS A 309 GLU A 318 1 10 HELIX 17 17 GLU B 3 VAL B 8 5 6 HELIX 18 18 GLY B 20 LEU B 26 1 7 HELIX 19 19 LYS B 27 PHE B 29 5 3 HELIX 20 20 ASP B 68 ALA B 86 1 19 HELIX 21 21 ASP B 106 ALA B 124 1 19 HELIX 22 22 PRO B 150 LYS B 153 5 4 HELIX 23 23 GLY B 173 GLU B 183 1 11 HELIX 24 24 LYS B 187 ASP B 190 5 4 HELIX 25 25 ILE B 191 ALA B 200 1 10 HELIX 26 26 ASN B 202 LEU B 212 1 11 HELIX 27 27 PHE B 223 SER B 236 1 14 HELIX 28 28 GLU B 245 VAL B 247 5 3 HELIX 29 29 TYR B 250 LYS B 259 1 10 HELIX 30 30 PRO B 263 VAL B 273 1 11 HELIX 31 31 ASP B 282 ASP B 291 1 10 HELIX 32 32 LYS B 306 GLU B 318 1 13 SHEET 1 A 6 THR A 37 VAL A 39 0 SHEET 2 A 6 GLY A 46 HIS A 50 -1 O VAL A 47 N VAL A 39 SHEET 3 A 6 ILE A 53 ILE A 62 -1 O TRP A 55 N TYR A 48 SHEET 4 A 6 LYS A 140 ILE A 148 -1 O VAL A 145 N THR A 58 SHEET 5 A 6 ILE A 90 CYS A 99 -1 N ILE A 97 O GLY A 142 SHEET 6 A 6 VAL A 127 ILE A 134 1 O LEU A 129 N ALA A 94 SHEET 1 B 7 CYS A 217 ASP A 219 0 SHEET 2 B 7 LEU A 298 ILE A 302 -1 O LEU A 299 N THR A 218 SHEET 3 B 7 LEU A 165 LEU A 168 -1 N ILE A 167 O PHE A 300 SHEET 4 B 7 TRP A 322 ILE A 328 -1 O GLY A 325 N LEU A 166 SHEET 5 B 7 GLY A 239 PHE A 243 -1 N GLY A 239 O ILE A 328 SHEET 6 B 7 LEU A 333 LEU A 336 1 O GLU A 334 N ILE A 242 SHEET 7 B 7 LEU A 277 LYS A 278 1 N LYS A 278 O LEU A 333 SHEET 1 C 6 THR B 37 VAL B 39 0 SHEET 2 C 6 GLY B 46 HIS B 50 -1 O VAL B 47 N VAL B 39 SHEET 3 C 6 ILE B 53 ILE B 62 -1 O TRP B 55 N TYR B 48 SHEET 4 C 6 LYS B 140 ILE B 148 -1 O VAL B 145 N THR B 58 SHEET 5 C 6 ILE B 90 PHE B 100 -1 N ILE B 97 O GLY B 142 SHEET 6 C 6 VAL B 127 ASP B 135 1 O LEU B 129 N ALA B 94 SHEET 1 D 7 ALA B 216 ASP B 219 0 SHEET 2 D 7 LEU B 298 ASN B 303 -1 O LEU B 299 N THR B 218 SHEET 3 D 7 GLN B 164 LEU B 168 -1 N ILE B 167 O PHE B 300 SHEET 4 D 7 TRP B 322 ILE B 328 -1 O GLY B 325 N LEU B 166 SHEET 5 D 7 GLY B 239 PHE B 243 -1 N ARG B 241 O GLU B 326 SHEET 6 D 7 LEU B 333 LEU B 336 1 O GLU B 334 N ILE B 242 SHEET 7 D 7 LEU B 277 LYS B 278 1 N LYS B 278 O LEU B 333 SSBOND 1 CYS A 103 CYS B 13 1555 1555 2.96 SITE 1 AC1 3 ASP A 60 HOH A 931 HIS B 132 SITE 1 AC2 5 ASP A 44 ASP A 83 ASP A 219 HOH A 859 SITE 2 AC2 5 HOH A 918 SITE 1 AC3 4 ASP A 60 ASP A 83 HOH A 859 HOH A 932 SITE 1 AC4 7 ASP A 44 THR A 58 ASP A 60 ASP A 83 SITE 2 AC4 7 HOH A 804 HOH A 860 HOH A 931 SITE 1 AC5 6 ASP A 43 ASP A 44 ALA A 86 MET A 87 SITE 2 AC5 6 ILE A 155 CYS A 217 SITE 1 AC6 3 HIS A 132 ASP B 60 HOH B 991 SITE 1 AC7 5 ASP B 44 ASP B 83 ASP B 219 HOH B 902 SITE 2 AC7 5 HOH B1049 SITE 1 AC8 4 ASP B 60 ASP B 83 HOH B1027 HOH B1049 SITE 1 AC9 7 ASP B 44 THR B 58 ASP B 60 ASP B 83 SITE 2 AC9 7 HOH B 903 HOH B 917 HOH B 991 SITE 1 BC1 6 ASP B 43 ASP B 44 ALA B 86 MET B 87 SITE 2 BC1 6 ILE B 155 CYS B 217 SITE 1 BC2 6 LYS A 259 LYS B 179 GLU B 183 LYS B 260 SITE 2 BC2 6 ILE B 261 TYR B 262 SITE 1 BC3 26 LYS A 16 LEU A 22 LEU A 26 GLY A 42 SITE 2 BC3 26 ASP A 43 ASP A 44 ASP A 60 ASP A 83 SITE 3 BC3 26 THR A 221 GLY A 222 PHE A 223 HOH A 833 SITE 4 BC3 26 HOH A 859 HOH A 860 HOH A 918 HOH A 928 SITE 5 BC3 26 HOH A 931 HOH A 932 ALA B 96 SER B 98 SITE 6 BC3 26 GLY B 130 GLY B 131 HIS B 132 THR B 133 SITE 7 BC3 26 HOH B 921 HOH B1048 SITE 1 BC4 26 ALA A 96 SER A 98 GLY A 130 GLY A 131 SITE 2 BC4 26 HIS A 132 THR A 133 HOH A 822 HOH A 929 SITE 3 BC4 26 LEU B 22 LEU B 26 GLY B 42 ASP B 43 SITE 4 BC4 26 ASP B 44 ASP B 60 ASP B 83 THR B 221 SITE 5 BC4 26 GLY B 222 HOH B 902 HOH B 917 HOH B 935 SITE 6 BC4 26 HOH B 942 HOH B 944 HOH B 949 HOH B 982 SITE 7 BC4 26 HOH B 991 HOH B1049 CRYST1 80.536 80.536 160.641 90.00 90.00 120.00 P 31 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 0.012417 0.007169 0.000000 0.00000 SCALE2 0.000000 0.014338 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006225 0.00000