HEADER TRANSPORT PROTEIN 30-JUN-08 3DMD TITLE STRUCTURES AND CONFORMATIONS IN SOLUTION OF THE SIGNAL RECOGNITION TITLE 2 PARTICLE RECEPTOR FROM THE ARCHAEON PYROCOCCUS FURIOSUS COMPND MOL_ID: 1; COMPND 2 MOLECULE: SIGNAL RECOGNITION PARTICLE RECEPTOR; COMPND 3 CHAIN: B, A, C; COMPND 4 SYNONYM: DPA; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PYROCOCCUS FURIOSUS; SOURCE 3 ORGANISM_TAXID: 2261; SOURCE 4 STRAIN: DSM3638; SOURCE 5 GENE: PF1766; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3) ROSETTA2; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET28B KEYWDS SIGNAL RECOGNITION PARTICLE RECEPTOR, FTSY, SRP-GTPASE, PROTEIN- KEYWDS 2 TARGETING, TRANSPORT PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR P.F.EGEA,H.TSURUTA,J.NAPETSCHNIG,P.WALTER,R.M.STROUD REVDAT 4 25-OCT-17 3DMD 1 REMARK REVDAT 3 13-JUL-11 3DMD 1 VERSN REVDAT 2 24-FEB-09 3DMD 1 VERSN REVDAT 1 11-NOV-08 3DMD 0 JRNL AUTH P.F.EGEA,H.TSURUTA,G.P.DE LEON,J.NAPETSCHNIG,P.WALTER, JRNL AUTH 2 R.M.STROUD JRNL TITL STRUCTURES OF THE SIGNAL RECOGNITION PARTICLE RECEPTOR FROM JRNL TITL 2 THE ARCHAEON PYROCOCCUS FURIOSUS: IMPLICATIONS FOR THE JRNL TITL 3 TARGETING STEP AT THE MEMBRANE. JRNL REF PLOS ONE V. 3 E3619 2008 JRNL REFN ESSN 1932-6203 JRNL PMID 18978942 JRNL DOI 10.1371/JOURNAL.PONE.0003619 REMARK 2 REMARK 2 RESOLUTION. 2.21 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.21 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 65.06 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.1 REMARK 3 NUMBER OF REFLECTIONS : 65548 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.191 REMARK 3 R VALUE (WORKING SET) : 0.189 REMARK 3 FREE R VALUE : 0.242 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 3.050 REMARK 3 FREE R VALUE TEST SET COUNT : 2000 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 65.0856 - 5.3256 0.99 0 147 0.1754 0.2075 REMARK 3 2 5.3256 - 4.2273 1.00 0 148 0.1357 0.1860 REMARK 3 3 4.2273 - 3.6930 1.00 0 146 0.1431 0.1793 REMARK 3 4 2.3950 - 2.3265 0.97 0 139 0.2424 0.3023 REMARK 3 5 2.3265 - 2.2653 0.96 0 139 0.2550 0.3079 REMARK 3 6 2.2653 - 2.2100 0.92 4228 133 0.2700 0.3078 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : 0.36 REMARK 3 B_SOL : 51.92 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.350 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 26.170 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 43.00 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 42.00 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 2.26750 REMARK 3 B22 (A**2) : 0.58390 REMARK 3 B33 (A**2) : -3.08360 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -2.99060 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.006 7576 REMARK 3 ANGLE : 0.939 10181 REMARK 3 CHIRALITY : 0.064 1174 REMARK 3 PLANARITY : 0.003 1295 REMARK 3 DIHEDRAL : 15.865 2858 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 3DMD COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 02-JUL-08. REMARK 100 THE DEPOSITION ID IS D_1000048218. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 31-AUG-06 REMARK 200 TEMPERATURE (KELVIN) : 80 REMARK 200 PH : 5.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALS REMARK 200 BEAMLINE : 8.3.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : NULL REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 210 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM IN ELVES REMARK 200 DATA SCALING SOFTWARE : SCALA IN ELVES REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 65992 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.210 REMARK 200 RESOLUTION RANGE LOW (A) : 88.400 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.8 REMARK 200 DATA REDUNDANCY : 3.500 REMARK 200 R MERGE (I) : 0.07400 REMARK 200 R SYM (I) : 0.07400 REMARK 200 FOR THE DATA SET : 8.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.21 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.33 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.1 REMARK 200 DATA REDUNDANCY IN SHELL : 3.10 REMARK 200 R MERGE FOR SHELL (I) : 0.76600 REMARK 200 R SYM FOR SHELL (I) : 0.76600 REMARK 200 FOR SHELL : 1.400 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHENIX REMARK 200 STARTING MODEL: PDB ENTRY 3DM9 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 60.32 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.10 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.9-1.2M LITHIUM SULFATE, 0.4-0.6M REMARK 280 AMMONIUM SULFATE, 100 MM NA CITRATE, PH 5.0, VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z REMARK 290 4555 -X+1/2,Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 74.97800 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 51.18400 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 74.97800 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 51.18400 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3, 4 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: HEXAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 14610 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 80250 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -327.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 -74.97800 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 51.18400 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 2 -1.000000 0.000000 0.000000 -24.38754 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 51.18400 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 -88.30019 REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, C REMARK 350 BIOMT1 3 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 3 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 3 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 4 -1.000000 0.000000 0.000000 -99.36554 REMARK 350 BIOMT2 4 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 4 0.000000 0.000000 -1.000000 -88.30019 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 3 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 4 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: C REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 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 B -5 REMARK 465 SER B -4 REMARK 465 HIS B -3 REMARK 465 MET B -2 REMARK 465 GLU B 319 REMARK 465 GLU B 320 REMARK 465 ASN B 321 REMARK 465 ALA B 322 REMARK 465 GLY A -5 REMARK 465 SER A -4 REMARK 465 HIS A -3 REMARK 465 MET A -2 REMARK 465 ALA A -1 REMARK 465 SER A 0 REMARK 465 LYS A 29 REMARK 465 LYS A 30 REMARK 465 GLY A 31 REMARK 465 LEU A 32 REMARK 465 LEU A 33 REMARK 465 ASP A 34 REMARK 465 ARG A 35 REMARK 465 ILE A 36 REMARK 465 GLU A 319 REMARK 465 GLU A 320 REMARK 465 ASN A 321 REMARK 465 ALA A 322 REMARK 465 GLY C -5 REMARK 465 SER C -4 REMARK 465 HIS C -3 REMARK 465 MET C -2 REMARK 465 ALA C -1 REMARK 465 SER C 0 REMARK 465 GLU C 319 REMARK 465 GLU C 320 REMARK 465 ASN C 321 REMARK 465 ALA C 322 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 GLU A 21 CG CD OE1 OE2 REMARK 470 GLU A 106 CG CD OE1 OE2 REMARK 470 ARG A 109 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 176 CG CD NE CZ NH1 NH2 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 B 0 23.86 -77.33 REMARK 500 SER B 108 12.27 -62.86 REMARK 500 ARG B 109 117.02 -161.74 REMARK 500 HIS B 184 -154.97 -115.59 REMARK 500 GLU B 218 -153.99 -90.00 REMARK 500 ASN B 220 74.73 -16.00 REMARK 500 ARG B 221 121.56 -172.94 REMARK 500 ASN B 222 132.32 -38.78 REMARK 500 ARG B 277 -75.93 -114.59 REMARK 500 LYS A 22 6.58 -68.44 REMARK 500 GLU A 25 33.24 -89.26 REMARK 500 SER A 108 7.02 -64.25 REMARK 500 ARG A 109 107.15 -179.82 REMARK 500 HIS A 184 -160.02 -108.41 REMARK 500 HIS A 184 -160.54 -108.41 REMARK 500 THR A 219 82.81 -67.83 REMARK 500 ASN A 220 -100.06 -175.39 REMARK 500 ALA A 250 -47.04 -155.88 REMARK 500 PHE C 2 14.37 59.28 REMARK 500 HIS C 184 -169.16 -112.06 REMARK 500 ARG C 221 -42.48 -139.29 REMARK 500 ALA C 250 -42.98 -143.03 REMARK 500 ARG C 277 -77.10 -124.50 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 ARG C 221 ASN C 222 -144.22 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 SO4 A 323 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 323 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 324 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 324 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 C 323 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 325 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 C 324 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 325 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 C 325 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 326 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 327 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL C 326 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B 326 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL C 327 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL C 328 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL C 329 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3DM9 RELATED DB: PDB REMARK 900 INITIAL STRUCTURE OF THE SAME PROTEIN BY SELENIUM-SAD PHASING DBREF 3DMD B 1 322 UNP Q8U051 Q8U051_PYRFU 1 322 DBREF 3DMD A 1 322 UNP Q8U051 Q8U051_PYRFU 1 322 DBREF 3DMD C 1 322 UNP Q8U051 Q8U051_PYRFU 1 322 SEQADV 3DMD GLY B -5 UNP Q8U051 EXPRESSION TAG SEQADV 3DMD SER B -4 UNP Q8U051 EXPRESSION TAG SEQADV 3DMD HIS B -3 UNP Q8U051 EXPRESSION TAG SEQADV 3DMD MET B -2 UNP Q8U051 EXPRESSION TAG SEQADV 3DMD ALA B -1 UNP Q8U051 EXPRESSION TAG SEQADV 3DMD SER B 0 UNP Q8U051 EXPRESSION TAG SEQADV 3DMD GLY A -5 UNP Q8U051 EXPRESSION TAG SEQADV 3DMD SER A -4 UNP Q8U051 EXPRESSION TAG SEQADV 3DMD HIS A -3 UNP Q8U051 EXPRESSION TAG SEQADV 3DMD MET A -2 UNP Q8U051 EXPRESSION TAG SEQADV 3DMD ALA A -1 UNP Q8U051 EXPRESSION TAG SEQADV 3DMD SER A 0 UNP Q8U051 EXPRESSION TAG SEQADV 3DMD GLY C -5 UNP Q8U051 EXPRESSION TAG SEQADV 3DMD SER C -4 UNP Q8U051 EXPRESSION TAG SEQADV 3DMD HIS C -3 UNP Q8U051 EXPRESSION TAG SEQADV 3DMD MET C -2 UNP Q8U051 EXPRESSION TAG SEQADV 3DMD ALA C -1 UNP Q8U051 EXPRESSION TAG SEQADV 3DMD SER C 0 UNP Q8U051 EXPRESSION TAG SEQRES 1 B 328 GLY SER HIS MET ALA SER MET PHE GLY LYS LEU ARG GLU SEQRES 2 B 328 LYS LEU LYS SER PHE VAL LYS ARG VAL GLU GLU GLU VAL SEQRES 3 B 328 GLU LYS GLU GLU GLU GLU VAL GLU LYS LYS GLY LEU LEU SEQRES 4 B 328 ASP ARG ILE LEU THR VAL GLU ILE LYS GLU LYS ASP VAL SEQRES 5 B 328 ASP LYS ALA LEU ASP GLU LEU GLU ILE ASP LEU LEU GLU SEQRES 6 B 328 ALA ASP VAL ALA LEU GLU VAL VAL ASP ALA LEU ARG GLU SEQRES 7 B 328 LYS ILE LYS GLN LYS LEU VAL GLY LYS LYS VAL ARG ILE SEQRES 8 B 328 GLY THR ASP LYS GLY LYS ILE ILE GLU GLU ALA VAL LYS SEQRES 9 B 328 GLU ALA VAL SER GLU ILE LEU GLU THR SER ARG ARG ILE SEQRES 10 B 328 ASP LEU ILE GLU GLU ILE ARG LYS ALA GLU LYS PRO TYR SEQRES 11 B 328 VAL ILE MET PHE VAL GLY PHE ASN GLY SER GLY LYS THR SEQRES 12 B 328 THR THR ILE ALA LYS LEU ALA ASN TRP LEU LYS ASN HIS SEQRES 13 B 328 GLY PHE SER VAL VAL ILE ALA ALA SER ASP THR PHE ARG SEQRES 14 B 328 ALA GLY ALA ILE GLU GLN LEU GLU GLU HIS ALA LYS ARG SEQRES 15 B 328 ILE GLY VAL LYS VAL ILE LYS HIS SER TYR GLY ALA ASP SEQRES 16 B 328 PRO ALA ALA VAL ALA TYR ASP ALA ILE GLN HIS ALA LYS SEQRES 17 B 328 ALA ARG GLY ILE ASP VAL VAL LEU ILE ASP THR ALA GLY SEQRES 18 B 328 ARG SER GLU THR ASN ARG ASN LEU MET ASP GLU MET LYS SEQRES 19 B 328 LYS ILE ALA ARG VAL THR LYS PRO ASN LEU VAL ILE PHE SEQRES 20 B 328 VAL GLY ASP ALA LEU ALA GLY ASN ALA ILE VAL GLU GLN SEQRES 21 B 328 ALA ARG GLN PHE ASN GLU ALA VAL LYS ILE ASP GLY ILE SEQRES 22 B 328 ILE LEU THR LYS LEU ASP ALA ASP ALA ARG GLY GLY ALA SEQRES 23 B 328 ALA LEU SER ILE SER TYR VAL ILE ASP ALA PRO ILE LEU SEQRES 24 B 328 PHE VAL GLY VAL GLY GLN GLY TYR ASP ASP LEU ARG PRO SEQRES 25 B 328 PHE GLU LYS GLU TRP PHE LEU GLU ARG ILE PHE GLY GLU SEQRES 26 B 328 GLU ASN ALA SEQRES 1 A 328 GLY SER HIS MET ALA SER MET PHE GLY LYS LEU ARG GLU SEQRES 2 A 328 LYS LEU LYS SER PHE VAL LYS ARG VAL GLU GLU GLU VAL SEQRES 3 A 328 GLU LYS GLU GLU GLU GLU VAL GLU LYS LYS GLY LEU LEU SEQRES 4 A 328 ASP ARG ILE LEU THR VAL GLU ILE LYS GLU LYS ASP VAL SEQRES 5 A 328 ASP LYS ALA LEU ASP GLU LEU GLU ILE ASP LEU LEU GLU SEQRES 6 A 328 ALA ASP VAL ALA LEU GLU VAL VAL ASP ALA LEU ARG GLU SEQRES 7 A 328 LYS ILE LYS GLN LYS LEU VAL GLY LYS LYS VAL ARG ILE SEQRES 8 A 328 GLY THR ASP LYS GLY LYS ILE ILE GLU GLU ALA VAL LYS SEQRES 9 A 328 GLU ALA VAL SER GLU ILE LEU GLU THR SER ARG ARG ILE SEQRES 10 A 328 ASP LEU ILE GLU GLU ILE ARG LYS ALA GLU LYS PRO TYR SEQRES 11 A 328 VAL ILE MET PHE VAL GLY PHE ASN GLY SER GLY LYS THR SEQRES 12 A 328 THR THR ILE ALA LYS LEU ALA ASN TRP LEU LYS ASN HIS SEQRES 13 A 328 GLY PHE SER VAL VAL ILE ALA ALA SER ASP THR PHE ARG SEQRES 14 A 328 ALA GLY ALA ILE GLU GLN LEU GLU GLU HIS ALA LYS ARG SEQRES 15 A 328 ILE GLY VAL LYS VAL ILE LYS HIS SER TYR GLY ALA ASP SEQRES 16 A 328 PRO ALA ALA VAL ALA TYR ASP ALA ILE GLN HIS ALA LYS SEQRES 17 A 328 ALA ARG GLY ILE ASP VAL VAL LEU ILE ASP THR ALA GLY SEQRES 18 A 328 ARG SER GLU THR ASN ARG ASN LEU MET ASP GLU MET LYS SEQRES 19 A 328 LYS ILE ALA ARG VAL THR LYS PRO ASN LEU VAL ILE PHE SEQRES 20 A 328 VAL GLY ASP ALA LEU ALA GLY ASN ALA ILE VAL GLU GLN SEQRES 21 A 328 ALA ARG GLN PHE ASN GLU ALA VAL LYS ILE ASP GLY ILE SEQRES 22 A 328 ILE LEU THR LYS LEU ASP ALA ASP ALA ARG GLY GLY ALA SEQRES 23 A 328 ALA LEU SER ILE SER TYR VAL ILE ASP ALA PRO ILE LEU SEQRES 24 A 328 PHE VAL GLY VAL GLY GLN GLY TYR ASP ASP LEU ARG PRO SEQRES 25 A 328 PHE GLU LYS GLU TRP PHE LEU GLU ARG ILE PHE GLY GLU SEQRES 26 A 328 GLU ASN ALA SEQRES 1 C 328 GLY SER HIS MET ALA SER MET PHE GLY LYS LEU ARG GLU SEQRES 2 C 328 LYS LEU LYS SER PHE VAL LYS ARG VAL GLU GLU GLU VAL SEQRES 3 C 328 GLU LYS GLU GLU GLU GLU VAL GLU LYS LYS GLY LEU LEU SEQRES 4 C 328 ASP ARG ILE LEU THR VAL GLU ILE LYS GLU LYS ASP VAL SEQRES 5 C 328 ASP LYS ALA LEU ASP GLU LEU GLU ILE ASP LEU LEU GLU SEQRES 6 C 328 ALA ASP VAL ALA LEU GLU VAL VAL ASP ALA LEU ARG GLU SEQRES 7 C 328 LYS ILE LYS GLN LYS LEU VAL GLY LYS LYS VAL ARG ILE SEQRES 8 C 328 GLY THR ASP LYS GLY LYS ILE ILE GLU GLU ALA VAL LYS SEQRES 9 C 328 GLU ALA VAL SER GLU ILE LEU GLU THR SER ARG ARG ILE SEQRES 10 C 328 ASP LEU ILE GLU GLU ILE ARG LYS ALA GLU LYS PRO TYR SEQRES 11 C 328 VAL ILE MET PHE VAL GLY PHE ASN GLY SER GLY LYS THR SEQRES 12 C 328 THR THR ILE ALA LYS LEU ALA ASN TRP LEU LYS ASN HIS SEQRES 13 C 328 GLY PHE SER VAL VAL ILE ALA ALA SER ASP THR PHE ARG SEQRES 14 C 328 ALA GLY ALA ILE GLU GLN LEU GLU GLU HIS ALA LYS ARG SEQRES 15 C 328 ILE GLY VAL LYS VAL ILE LYS HIS SER TYR GLY ALA ASP SEQRES 16 C 328 PRO ALA ALA VAL ALA TYR ASP ALA ILE GLN HIS ALA LYS SEQRES 17 C 328 ALA ARG GLY ILE ASP VAL VAL LEU ILE ASP THR ALA GLY SEQRES 18 C 328 ARG SER GLU THR ASN ARG ASN LEU MET ASP GLU MET LYS SEQRES 19 C 328 LYS ILE ALA ARG VAL THR LYS PRO ASN LEU VAL ILE PHE SEQRES 20 C 328 VAL GLY ASP ALA LEU ALA GLY ASN ALA ILE VAL GLU GLN SEQRES 21 C 328 ALA ARG GLN PHE ASN GLU ALA VAL LYS ILE ASP GLY ILE SEQRES 22 C 328 ILE LEU THR LYS LEU ASP ALA ASP ALA ARG GLY GLY ALA SEQRES 23 C 328 ALA LEU SER ILE SER TYR VAL ILE ASP ALA PRO ILE LEU SEQRES 24 C 328 PHE VAL GLY VAL GLY GLN GLY TYR ASP ASP LEU ARG PRO SEQRES 25 C 328 PHE GLU LYS GLU TRP PHE LEU GLU ARG ILE PHE GLY GLU SEQRES 26 C 328 GLU ASN ALA HET SO4 B 323 5 HET SO4 B 324 5 HET SO4 B 325 5 HET GOL B 326 6 HET SO4 A 323 5 HET SO4 A 324 5 HET SO4 A 325 5 HET SO4 A 326 5 HET GOL A 327 6 HET SO4 C 323 5 HET SO4 C 324 5 HET SO4 C 325 5 HET GOL C 326 6 HET GOL C 327 6 HET GOL C 328 6 HET GOL C 329 6 HETNAM SO4 SULFATE ION HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 4 SO4 10(O4 S 2-) FORMUL 7 GOL 6(C3 H8 O3) FORMUL 20 HOH *469(H2 O) HELIX 1 1 PHE B 2 LYS B 30 1 29 HELIX 2 2 LYS B 42 ALA B 60 1 19 HELIX 3 3 ALA B 63 VAL B 79 1 17 HELIX 4 4 ASP B 88 LEU B 105 1 18 HELIX 5 5 ASP B 112 ALA B 120 1 9 HELIX 6 6 GLY B 135 HIS B 150 1 16 HELIX 7 7 ARG B 163 GLY B 178 1 16 HELIX 8 8 ASP B 189 GLY B 205 1 17 HELIX 9 9 ASN B 222 LYS B 235 1 14 HELIX 10 10 ALA B 250 VAL B 262 1 13 HELIX 11 11 LYS B 271 ASP B 275 5 5 HELIX 12 12 GLY B 278 ASP B 289 1 12 HELIX 13 13 GLY B 300 ASP B 302 5 3 HELIX 14 14 GLU B 308 GLY B 318 1 11 HELIX 15 15 PHE A 2 GLU A 25 1 24 HELIX 16 16 LYS A 42 GLU A 59 1 18 HELIX 17 17 ALA A 63 VAL A 79 1 17 HELIX 18 18 ASP A 88 LEU A 105 1 18 HELIX 19 19 ASP A 112 LYS A 119 1 8 HELIX 20 20 GLY A 135 HIS A 150 1 16 HELIX 21 21 ARG A 163 ILE A 177 1 15 HELIX 22 22 ASP A 189 GLY A 205 1 17 HELIX 23 23 ASN A 222 LYS A 235 1 14 HELIX 24 24 ALA A 250 VAL A 262 1 13 HELIX 25 25 LYS A 271 ASP A 275 5 5 HELIX 26 26 GLY A 278 ASP A 289 1 12 HELIX 27 27 GLY A 300 ASP A 302 5 3 HELIX 28 28 GLU A 308 GLY A 318 1 11 HELIX 29 29 PHE C 2 LYS C 30 1 29 HELIX 30 30 LYS C 42 ALA C 60 1 19 HELIX 31 31 ALA C 63 VAL C 79 1 17 HELIX 32 32 ASP C 88 LEU C 105 1 18 HELIX 33 33 ASP C 112 ALA C 120 1 9 HELIX 34 34 GLY C 135 HIS C 150 1 16 HELIX 35 35 ARG C 163 ILE C 177 1 15 HELIX 36 36 ASP C 189 GLY C 205 1 17 HELIX 37 37 ASN C 222 LYS C 235 1 14 HELIX 38 38 ALA C 250 VAL C 262 1 13 HELIX 39 39 LYS C 271 ASP C 275 5 5 HELIX 40 40 GLY C 278 ASP C 289 1 12 HELIX 41 41 GLY C 300 ASP C 302 5 3 HELIX 42 42 GLU C 308 GLY C 318 1 11 SHEET 1 A 2 THR B 38 GLU B 40 0 SHEET 2 A 2 LYS B 82 ARG B 84 -1 O VAL B 83 N VAL B 39 SHEET 1 B 8 LYS B 180 ILE B 182 0 SHEET 2 B 8 VAL B 154 ALA B 158 1 N ILE B 156 O ILE B 182 SHEET 3 B 8 VAL B 208 ASP B 212 1 O LEU B 210 N ALA B 157 SHEET 4 B 8 TYR B 124 VAL B 129 1 N ILE B 126 O VAL B 209 SHEET 5 B 8 LEU B 238 ASP B 244 1 O VAL B 242 N VAL B 129 SHEET 6 B 8 GLY B 266 THR B 270 1 O THR B 270 N GLY B 243 SHEET 7 B 8 ILE B 292 GLY B 296 1 O GLY B 296 N LEU B 269 SHEET 8 B 8 LEU B 304 PRO B 306 -1 O ARG B 305 N VAL B 295 SHEET 1 C 2 THR A 38 GLU A 40 0 SHEET 2 C 2 LYS A 82 ARG A 84 -1 O VAL A 83 N VAL A 39 SHEET 1 D 8 LYS A 180 ILE A 182 0 SHEET 2 D 8 VAL A 154 SER A 159 1 N ILE A 156 O ILE A 182 SHEET 3 D 8 VAL A 208 THR A 213 1 O LEU A 210 N ALA A 157 SHEET 4 D 8 TYR A 124 VAL A 129 1 N ILE A 126 O VAL A 209 SHEET 5 D 8 LEU A 238 ASP A 244 1 O ILE A 240 N MET A 127 SHEET 6 D 8 GLY A 266 THR A 270 1 O ILE A 268 N PHE A 241 SHEET 7 D 8 ILE A 292 GLY A 296 1 O GLY A 296 N LEU A 269 SHEET 8 D 8 LEU A 304 PRO A 306 -1 O ARG A 305 N VAL A 295 SHEET 1 E 2 THR C 38 GLU C 40 0 SHEET 2 E 2 LYS C 82 ARG C 84 -1 O VAL C 83 N VAL C 39 SHEET 1 F 8 LYS C 180 ILE C 182 0 SHEET 2 F 8 VAL C 154 SER C 159 1 N ALA C 158 O ILE C 182 SHEET 3 F 8 VAL C 208 THR C 213 1 O LEU C 210 N ALA C 157 SHEET 4 F 8 TYR C 124 VAL C 129 1 N ILE C 126 O VAL C 209 SHEET 5 F 8 LEU C 238 ASP C 244 1 O ILE C 240 N MET C 127 SHEET 6 F 8 GLY C 266 THR C 270 1 O THR C 270 N GLY C 243 SHEET 7 F 8 ILE C 292 GLY C 296 1 O LEU C 293 N ILE C 267 SHEET 8 F 8 LEU C 304 PRO C 306 -1 O ARG C 305 N VAL C 295 CISPEP 1 LYS B 122 PRO B 123 0 1.55 CISPEP 2 LYS A 122 PRO A 123 0 2.24 CISPEP 3 LYS C 122 PRO C 123 0 0.69 CISPEP 4 ASN C 220 ARG C 221 0 11.29 SITE 1 AC1 8 ASN A 132 GLY A 133 SER A 134 GLY A 135 SITE 2 AC1 8 LYS A 136 THR A 137 ARG A 163 HOH A 357 SITE 1 AC2 10 ASN B 132 GLY B 133 SER B 134 GLY B 135 SITE 2 AC2 10 LYS B 136 THR B 137 ARG B 163 HOH B 343 SITE 3 AC2 10 HOH B 445 HOH B 499 SITE 1 AC3 9 ALA A 63 LEU A 64 ARG A 256 HOH A 336 SITE 2 AC3 9 HOH A 348 HOH A 408 HOH A 446 HOH A 454 SITE 3 AC3 9 LYS C 229 SITE 1 AC4 8 ARG A 221 LYS A 229 ALA B 63 LEU B 64 SITE 2 AC4 8 ARG B 256 HOH B 347 HOH B 360 HOH B 419 SITE 1 AC5 10 ASN C 132 GLY C 133 SER C 134 GLY C 135 SITE 2 AC5 10 LYS C 136 THR C 137 ARG C 163 HOH C 344 SITE 3 AC5 10 HOH C 436 HOH C 459 SITE 1 AC6 5 ARG A 84 ARG C 35 ILE C 36 LEU C 37 SITE 2 AC6 5 THR C 38 SITE 1 AC7 7 LYS A 81 HOH A 414 ASN B 259 LYS B 263 SITE 2 AC7 7 HOH B 364 ASP C 34 ARG C 35 SITE 1 AC8 6 TYR A 186 HOH A 424 ARG B 163 ARG B 216 SITE 2 AC8 6 HOH B 335 HOH B 469 SITE 1 AC9 3 ASN C 132 ARG C 216 HOH C 460 SITE 1 BC1 2 ASN A 132 ARG A 216 SITE 1 BC2 8 PHE A 162 ARG A 163 ALA A 164 GLY A 165 SITE 2 BC2 8 ALA A 166 ARG A 216 HOH A 474 TYR B 186 SITE 1 BC3 7 PHE C 162 ARG C 163 GLY C 165 ALA C 166 SITE 2 BC3 7 TYR C 186 ARG C 216 HOH C 460 SITE 1 BC4 3 ASN B 132 ARG B 163 ARG B 216 SITE 1 BC5 3 TRP C 146 HIS C 150 PRO C 306 SITE 1 BC6 7 ARG B 221 LYS B 229 ALA C 63 LEU C 64 SITE 2 BC6 7 ARG C 256 HOH C 368 HOH C 413 SITE 1 BC7 5 GLU A 59 HOH A 461 HIS C 184 SER C 185 SITE 2 BC7 5 ALA C 188 CRYST1 149.956 102.368 101.766 90.00 119.81 90.00 C 1 2 1 12 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.006669 0.000000 0.003821 0.00000 SCALE2 0.000000 0.009769 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011325 0.00000