HEADER HYDROLASE 15-JUL-10 3NYY TITLE CRYSTAL STRUCTURE OF A PUTATIVE GLYCYL-GLYCINE ENDOPEPTIDASE LYTM TITLE 2 (RUMGNA_02482) FROM RUMINOCOCCUS GNAVUS ATCC 29149 AT 1.60 A TITLE 3 RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: PUTATIVE GLYCYL-GLYCINE ENDOPEPTIDASE LYTM; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: SEQUENCE DATABASE RESIDUES 29-279; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: RUMINOCOCCUS GNAVUS; SOURCE 3 ORGANISM_TAXID: 411470; SOURCE 4 ATCC: 29149; SOURCE 5 GENE: RUMGNA_02482; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: HK100; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: SPEEDET KEYWDS STRUCTURAL GENOMICS, JOINT CENTER FOR STRUCTURAL GENOMICS, JCSG, KEYWDS 2 PROTEIN STRUCTURE INITIATIVE, PSI-BIOLOGY, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR JOINT CENTER FOR STRUCTURAL GENOMICS (JCSG) REVDAT 4 27-NOV-24 3NYY 1 REMARK REVDAT 3 01-FEB-23 3NYY 1 REMARK SEQADV LINK REVDAT 2 20-JUL-11 3NYY 1 KEYWDS REVDAT 1 15-SEP-10 3NYY 0 JRNL AUTH JOINT CENTER FOR STRUCTURAL GENOMICS (JCSG) JRNL TITL CRYSTAL STRUCTURE OF A PUTATIVE GLYCYL-GLYCINE ENDOPEPTIDASE JRNL TITL 2 LYTM (RUMGNA_02482) FROM RUMINOCOCCUS GNAVUS ATCC 29149 AT JRNL TITL 3 1.60 A RESOLUTION JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 1.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0110 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD WITH PHASES REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 28.58 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 36638 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.150 REMARK 3 R VALUE (WORKING SET) : 0.149 REMARK 3 FREE R VALUE : 0.175 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1825 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.60 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.64 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2550 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.96 REMARK 3 BIN R VALUE (WORKING SET) : 0.2230 REMARK 3 BIN FREE R VALUE SET COUNT : 125 REMARK 3 BIN FREE R VALUE : 0.2370 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1994 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 82 REMARK 3 SOLVENT ATOMS : 269 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 16.68 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 22.23 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.64000 REMARK 3 B22 (A**2) : -0.30000 REMARK 3 B33 (A**2) : -0.85000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.77000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.076 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.076 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.048 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.724 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.971 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.960 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2251 ; 0.016 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 1572 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3059 ; 1.587 ; 1.979 REMARK 3 BOND ANGLES OTHERS (DEGREES): 3832 ; 1.022 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 283 ; 6.077 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 108 ;29.963 ;23.889 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 349 ;12.347 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 14 ;17.879 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 300 ; 0.103 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2500 ; 0.008 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 471 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 1302 ; 1.801 ; 3.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 536 ; 0.471 ; 3.000 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2112 ; 2.954 ; 5.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 949 ; 4.094 ; 8.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 932 ; 5.871 ;11.000 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 1 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 0 A 278 REMARK 3 ORIGIN FOR THE GROUP (A): 30.0873 38.2348 0.6610 REMARK 3 T TENSOR REMARK 3 T11: 0.0040 T22: 0.0022 REMARK 3 T33: 0.0180 T12: 0.0018 REMARK 3 T13: -0.0044 T23: -0.0026 REMARK 3 L TENSOR REMARK 3 L11: 0.3325 L22: 0.3335 REMARK 3 L33: 1.1882 L12: 0.0423 REMARK 3 L13: -0.3672 L23: 0.0543 REMARK 3 S TENSOR REMARK 3 S11: 0.0074 S12: 0.0038 S13: -0.0033 REMARK 3 S21: 0.0223 S22: 0.0102 S23: -0.0048 REMARK 3 S31: 0.0346 S32: 0.0226 S33: -0.0176 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: 1. A MET-INHIBITION PROTOCOL WAS USED REMARK 3 FOR SELENOMETHIONINE INCORPORATION DURING PROTEIN EXPRESSION. REMARK 3 THE OCCUPANCY OF THE SE ATOMS IN THE MSE RESIDUES WAS REDUCED TO REMARK 3 0.75 FOR THE REDUCED SCATTERING POWER DUE TO PARTIAL S-MET REMARK 3 INCORPORATION. 2. PEG FRAGMENTS (2PE), SULFATE (SO4) MODELED ARE REMARK 3 PRESENT IN CRYSTALLIZATION/CRYO CONDITIONS. 3. DENSITY FOR REMARK 3 REGION 143-149 IS POOR AND MODEL IS NOT RELIABLE. 4. HYDROGENS REMARK 3 HAVE BEEN ADDED IN THE RIDING POSITIONS. 5. ATOM RECORD CONTAINS REMARK 3 SUM OF TLS AND RESIDUAL B FACTORS. ANISOU RECORD CONTAINS SUM OF REMARK 3 TLS AND RESIDUAL U FACTORS. 6. WATERS WERE EXCLUDED FROM REMARK 3 AUTOMATIC TLS ASSIGNMENT. REMARK 4 REMARK 4 3NYY COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 27-JUL-10. REMARK 100 THE DEPOSITION ID IS D_1000060454. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 09-JUN-10 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL11-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.95369,0.97951,0.97905 REMARK 200 MONOCHROMATOR : SINGLE CRYSTAL SI(111) BENT REMARK 200 MONOCHROMATOR (HORIZONTAL REMARK 200 FOCUSING) REMARK 200 OPTICS : FLAT MIRROR (VERTICAL FOCUSING) REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 325 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA 3.3.15 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 36639 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.600 REMARK 200 RESOLUTION RANGE LOW (A) : 28.576 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 3.200 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.07900 REMARK 200 FOR THE DATA SET : 8.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.64 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 3.10 REMARK 200 R MERGE FOR SHELL (I) : 0.39300 REMARK 200 R SYM FOR SHELL (I) : 0.39300 REMARK 200 FOR SHELL : 1.900 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: SHELX, SHELXD, AUTOSHARP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 49.36 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.43 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 30.000000000% PEG-400, 0.200000000M REMARK 280 LISO4, 0.1M CACODYLATE PH 6.5, NANODROP, VAPOR DIFFUSION, REMARK 280 SITTING 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 45.66800 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 30.78600 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 45.66800 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 30.78600 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 REMARK 350 TOTAL BURIED SURFACE AREA: 3810 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 25070 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -109.0 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 91.33600 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 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 A 468 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 ARG A 279 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 LYS A 85 NZ REMARK 470 ASP A 129 CG OD1 OD2 REMARK 470 LYS A 149 CG CD CE NZ REMARK 470 ARG A 150 CD NE CZ NH1 NH2 REMARK 470 TYR A 231 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 SER A 278 OG 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 TYR A 146 67.93 20.06 REMARK 500 ALA A 271 64.70 -111.53 REMARK 500 REMARK 500 REMARK: NULL REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 2PE A 281 REMARK 610 2PE A 282 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 2PE A 280 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 2PE A 281 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 2PE A 282 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 283 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 284 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 285 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 286 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 416854 RELATED DB: TARGETDB REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE CONSTRUCT (RESIDUES 29-279) WAS EXPRESSED WITH A PURIFICATION REMARK 999 TAG MGSDKIHHHHHHENLYFQG. THE TAG WAS REMOVED WITH TEV PROTEASE REMARK 999 LEAVING ONLY A GLYCINE (0) FOLLOWED BY THE TARGET SEQUENCE. DBREF 3NYY A 29 279 UNP A7B4J8 A7B4J8_RUMGN 29 279 SEQADV 3NYY GLY A 0 UNP A7B4J8 EXPRESSION TAG SEQRES 1 A 252 GLY VAL SER GLY PHE GLN ARG LEU GLN LYS PRO VAL VAL SEQRES 2 A 252 SER GLN PRO ASP PHE ARG ARG GLN PRO VAL SER GLU THR SEQRES 3 A 252 MSE GLN VAL TYR LEU LYS GLN ALA ALA ASP PRO GLY ARG SEQRES 4 A 252 ASP VAL GLY LEU TYR TRP MSE ALA THR ASP PHE GLU ASN SEQRES 5 A 252 ARG ARG PHE PRO GLY LYS VAL SER PRO SER GLY PHE GLN SEQRES 6 A 252 LYS LEU TYR ARG GLN TRP ARG ASN GLN THR GLY TRP ASP SEQRES 7 A 252 ALA TYR VAL GLN SER CYS ARG ALA ILE TRP ASN ASP VAL SEQRES 8 A 252 LYS TYR PHE PRO ILE PRO GLN SER LEU ASP ASP THR GLU SEQRES 9 A 252 ASP LYS ILE SER TYR VAL ASP SER TRP MSE PHE GLU ARG SEQRES 10 A 252 ASN TYR GLY GLY LYS ARG GLY HIS GLU GLY THR ASP ILE SEQRES 11 A 252 MSE ALA GLU LYS ASN THR PRO GLY TYR TYR PRO VAL VAL SEQRES 12 A 252 SER MSE THR ASP GLY VAL VAL THR GLU LYS GLY TRP LEU SEQRES 13 A 252 GLU LYS GLY GLY TRP ARG ILE GLY ILE THR ALA PRO THR SEQRES 14 A 252 GLY ALA TYR PHE TYR TYR ALA HIS LEU ASP SER TYR ALA SEQRES 15 A 252 GLU LEU GLU LYS GLY ASP PRO VAL LYS ALA GLY ASP LEU SEQRES 16 A 252 LEU GLY TYR MSE GLY ASP SER GLY TYR GLY GLU GLU GLY SEQRES 17 A 252 THR THR GLY GLU PHE PRO VAL HIS LEU HIS LEU GLY ILE SEQRES 18 A 252 TYR LEU LYS GLU GLY THR GLU GLU ILE SER VAL ASN PRO SEQRES 19 A 252 TYR PRO VAL LEU ARG TYR ALA GLU ASN ALA ARG ILE LYS SEQRES 20 A 252 CYS VAL TYR SER ARG MODRES 3NYY MSE A 54 MET SELENOMETHIONINE MODRES 3NYY MSE A 73 MET SELENOMETHIONINE MODRES 3NYY MSE A 141 MET SELENOMETHIONINE MODRES 3NYY MSE A 158 MET SELENOMETHIONINE MODRES 3NYY MSE A 172 MET SELENOMETHIONINE MODRES 3NYY MSE A 226 MET SELENOMETHIONINE HET MSE A 54 13 HET MSE A 73 8 HET MSE A 141 13 HET MSE A 158 8 HET MSE A 172 8 HET MSE A 226 8 HET 2PE A 280 28 HET 2PE A 281 25 HET 2PE A 282 16 HET SO4 A 283 5 HET SO4 A 284 5 HET SO4 A 285 5 HET SO4 A 286 10 HETNAM MSE SELENOMETHIONINE HETNAM 2PE NONAETHYLENE GLYCOL HETNAM SO4 SULFATE ION FORMUL 1 MSE 6(C5 H11 N O2 SE) FORMUL 2 2PE 3(C18 H38 O10) FORMUL 5 SO4 4(O4 S 2-) FORMUL 9 HOH *269(H2 O) HELIX 1 1 SER A 30 GLN A 36 1 7 HELIX 2 2 GLN A 42 GLN A 48 1 7 HELIX 3 3 SER A 51 LYS A 59 1 9 HELIX 4 4 ASP A 63 ASP A 76 1 14 HELIX 5 5 SER A 87 ARG A 99 1 13 HELIX 6 6 GLY A 103 ASN A 116 1 14 HELIX 7 7 SER A 139 ASN A 145 1 7 HELIX 8 8 PRO A 261 ALA A 268 1 8 SHEET 1 A 2 GLN A 125 SER A 126 0 SHEET 2 A 2 LYS A 274 CYS A 275 1 O CYS A 275 N GLN A 125 SHEET 1 B 7 ILE A 134 SER A 135 0 SHEET 2 B 7 THR A 155 ALA A 159 -1 O MSE A 158 N SER A 135 SHEET 3 B 7 HIS A 243 GLU A 252 -1 O LEU A 244 N ILE A 157 SHEET 4 B 7 TYR A 199 LEU A 205 -1 N TYR A 201 O GLY A 247 SHEET 5 B 7 GLY A 187 THR A 193 -1 N ILE A 192 O PHE A 200 SHEET 6 B 7 GLY A 175 LEU A 183 -1 N GLU A 179 O GLY A 191 SHEET 7 B 7 PRO A 216 VAL A 217 -1 O VAL A 217 N GLY A 175 SHEET 1 C 4 ILE A 134 SER A 135 0 SHEET 2 C 4 THR A 155 ALA A 159 -1 O MSE A 158 N SER A 135 SHEET 3 C 4 HIS A 243 GLU A 252 -1 O LEU A 244 N ILE A 157 SHEET 4 C 4 GLU A 255 VAL A 259 -1 O GLU A 255 N GLU A 252 SHEET 1 D 3 PRO A 168 VAL A 170 0 SHEET 2 D 3 LEU A 222 TYR A 225 -1 O LEU A 223 N VAL A 169 SHEET 3 D 3 SER A 207 TYR A 208 -1 N SER A 207 O TYR A 225 LINK C THR A 53 N MSE A 54 1555 1555 1.33 LINK C MSE A 54 N GLN A 55 1555 1555 1.34 LINK C TRP A 72 N MSE A 73 1555 1555 1.34 LINK C MSE A 73 N ALA A 74 1555 1555 1.32 LINK C TRP A 140 N MSE A 141 1555 1555 1.32 LINK C MSE A 141 N PHE A 142 1555 1555 1.33 LINK C ILE A 157 N MSE A 158 1555 1555 1.33 LINK C MSE A 158 N ALA A 159 1555 1555 1.34 LINK C SER A 171 N MSE A 172 1555 1555 1.31 LINK C MSE A 172 N THR A 173 1555 1555 1.33 LINK C TYR A 225 N MSE A 226 1555 1555 1.34 LINK C MSE A 226 N GLY A 227 1555 1555 1.33 SITE 1 AC1 14 PHE A 32 GLN A 97 TRP A 98 GLN A 101 SITE 2 AC1 14 LYS A 180 TRP A 188 ASP A 206 SER A 207 SITE 3 AC1 14 TYR A 208 ALA A 209 LEU A 211 GLU A 212 SITE 4 AC1 14 HOH A 296 HOH A 336 SITE 1 AC2 17 LYS A 59 GLN A 60 ALA A 62 HIS A 152 SITE 2 AC2 17 GLU A 179 TYR A 199 TYR A 201 TYR A 249 SITE 3 AC2 17 LYS A 251 THR A 254 GLU A 255 GLU A 256 SITE 4 AC2 17 HOH A 326 HOH A 417 HOH A 546 HOH A 547 SITE 5 AC2 17 HOH A 548 SITE 1 AC3 11 SER A 51 GLU A 52 THR A 53 ARG A 81 SITE 2 AC3 11 LYS A 161 ASN A 162 SO4 A 286 HOH A 404 SITE 3 AC3 11 HOH A 499 HOH A 553 HOH A 555 SITE 1 AC4 5 ARG A 46 ARG A 144 ARG A 150 HOH A 319 SITE 2 AC4 5 HOH A 360 SITE 1 AC5 5 TYR A 95 TRP A 104 ARG A 112 HOH A 372 SITE 2 AC5 5 HOH A 541 SITE 1 AC6 6 SER A 87 PRO A 88 SER A 89 LYS A 213 SITE 2 AC6 6 HOH A 338 HOH A 375 SITE 1 AC7 8 ARG A 80 ARG A 81 ASN A 162 THR A 163 SITE 2 AC7 8 PRO A 164 2PE A 282 HOH A 404 HOH A 439 CRYST1 91.336 61.572 52.804 90.00 108.50 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 0.010949 0.000000 0.003664 0.00000 SCALE2 0.000000 0.016241 0.000000 0.00000 SCALE3 0.000000 0.000000 0.019970 0.00000