HEADER STRUCTURAL GENOMICS, UNKNOWN FUNCTION 08-SEP-09 3JR7 TITLE THE CRYSTAL STRUCTURE OF THE PROTEIN OF DEGV FAMILY COG1307 WITH TITLE 2 UNKNOWN FUNCTION FROM RUMINOCOCCUS GNAVUS ATCC 29149 COMPND MOL_ID: 1; COMPND 2 MOLECULE: UNCHARACTERIZED EGV FAMILY PROTEIN COG1307; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: RUMINOCOCCUS GNAVUS; SOURCE 3 ORGANISM_TAXID: 411470; SOURCE 4 STRAIN: ATCC 29149; SOURCE 5 GENE: RUMGNA_03254; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PMCSG19 KEYWDS STRUCTURAL GENOMICS, DEGV FAMILY, PSI2, MCSG, PROTEIN STRUCTURE KEYWDS 2 INITIATIVE, MIDWEST CENTER FOR STRUCTURAL GENOMICS, UNKNOWN FUNCTION EXPDTA X-RAY DIFFRACTION AUTHOR R.ZHANG,C.HATZOS,S.CLANCY,A.JOACHIMIAK,MIDWEST CENTER FOR STRUCTURAL AUTHOR 2 GENOMICS (MCSG) REVDAT 2 13-JUL-11 3JR7 1 VERSN REVDAT 1 20-OCT-09 3JR7 0 JRNL AUTH R.ZHANG,C.HATZOS,S.CLANCY,A.JOACHIMIAK JRNL TITL THE CRYSTAL STRUCTURE OF THE PROTEIN OF DEGV FAMILY COG1307 JRNL TITL 2 WITH UNKNOWN FUNCTION FROM RUMINOCOCCUS GNAVUS ATCC 29149 JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0054 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 83.92 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 3 NUMBER OF REFLECTIONS : 55821 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) : 0.164 REMARK 3 R VALUE (WORKING SET) : 0.162 REMARK 3 FREE R VALUE : 0.208 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2970 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) : 2.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.06 REMARK 3 REFLECTION IN BIN (WORKING SET) : 4131 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.52 REMARK 3 BIN R VALUE (WORKING SET) : 0.1800 REMARK 3 BIN FREE R VALUE SET COUNT : 213 REMARK 3 BIN FREE R VALUE : 0.2430 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4294 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 50 REMARK 3 SOLVENT ATOMS : 545 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 22.26 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.58000 REMARK 3 B22 (A**2) : 0.58000 REMARK 3 B33 (A**2) : -0.87000 REMARK 3 B12 (A**2) : 0.29000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.218 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.127 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.076 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 5.929 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.960 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.939 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4391 ; 0.020 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 2965 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5901 ; 1.673 ; 1.976 REMARK 3 BOND ANGLES OTHERS (DEGREES): 7301 ; 0.914 ; 3.001 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 554 ; 6.239 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 188 ;33.580 ;25.638 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 817 ;13.833 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 18 ;18.996 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 677 ; 0.091 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4812 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 796 ; 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): 2759 ; 1.331 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1141 ; 0.484 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4441 ; 2.240 ; 2.000 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1632 ; 3.665 ; 3.000 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1460 ; 5.628 ; 4.500 REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): 7356 ; 1.868 ; 3.000 REMARK 3 SPHERICITY; FREE ATOMS (A**2): 597 ; 7.259 ; 3.000 REMARK 3 SPHERICITY; BONDED ATOMS (A**2): 7305 ; 2.874 ; 3.000 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 : NULL 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: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 3JR7 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 10-SEP-09. REMARK 100 THE RCSB ID CODE IS RCSB055056. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 04-OCT-08 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4.2 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 19-BM REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9794 REMARK 200 MONOCHROMATOR : SI 111 CHANNEL REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : SBC-3 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL3000 REMARK 200 DATA SCALING SOFTWARE : HKL3000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 55821 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 83.920 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 200 DATA REDUNDANCY : 5.200 REMARK 200 R MERGE (I) : 0.07700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 17.8500 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.06 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.5 REMARK 200 DATA REDUNDANCY IN SHELL : 4.50 REMARK 200 R MERGE FOR SHELL (I) : 0.35200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.100 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: HKL3000_SOLVE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 61.82 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.22 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2M SODIUM CHLORIDE, 0.1M PHOSPHATE- REMARK 280 CITRATE, 10%PEG3000, PH 4.2, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 289K 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 53.30700 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 106.61400 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 106.61400 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 53.30700 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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: THIS PROTEIN EXISTS AS MONOMER. 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 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 MSE A 1 REMARK 465 LYS A 2 REMARK 465 THR A 3 REMARK 465 THR A 4 REMARK 465 TYR A 5 REMARK 465 ASN A 6 REMARK 465 ARG A 7 REMARK 465 TRP A 8 REMARK 465 TRP A 9 REMARK 465 LYS A 10 REMARK 465 LYS A 11 REMARK 465 LYS A 12 REMARK 465 VAL A 13 REMARK 465 TRP A 14 REMARK 465 PHE A 15 REMARK 465 GLY A 16 REMARK 465 ARG A 17 REMARK 465 LEU A 198 REMARK 465 VAL A 199 REMARK 465 MSE B 1 REMARK 465 LYS B 2 REMARK 465 THR B 3 REMARK 465 THR B 4 REMARK 465 TYR B 5 REMARK 465 ASN B 6 REMARK 465 ARG B 7 REMARK 465 TRP B 8 REMARK 465 TRP B 9 REMARK 465 LYS B 10 REMARK 465 LYS B 11 REMARK 465 LYS B 12 REMARK 465 VAL B 13 REMARK 465 TRP B 14 REMARK 465 PHE B 15 REMARK 465 GLY B 16 REMARK 465 ARG B 17 REMARK 465 GLY B 201 REMARK 465 ALA B 202 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 CG2 VAL A 179 CE MSE A 233 1.90 REMARK 500 O HOH B 498 O HOH B 567 2.03 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 CYS A 77 CB CYS A 77 SG -0.126 REMARK 500 GLU B 173 CB GLU B 173 CG -0.118 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 ARG A 137 NE - CZ - NH1 ANGL. DEV. = 4.1 DEGREES REMARK 500 ILE A 205 CG1 - CB - CG2 ANGL. DEV. = -14.1 DEGREES REMARK 500 ARG B 224 NE - CZ - NH1 ANGL. DEV. = 4.2 DEGREES REMARK 500 ARG B 224 NE - CZ - NH2 ANGL. DEV. = -3.3 DEGREES 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 MSE A 20 56.49 -111.72 REMARK 500 GLU A 52 -115.52 56.39 REMARK 500 CYS A 94 -179.51 -170.46 REMARK 500 SER A 138 -158.18 -157.70 REMARK 500 SER A 140 -127.44 57.87 REMARK 500 GLU A 221 -176.04 -170.26 REMARK 500 CYS A 256 63.37 -154.18 REMARK 500 ASN A 290 165.69 69.83 REMARK 500 GLU B 52 -117.05 54.96 REMARK 500 LEU B 104 150.73 -44.27 REMARK 500 SER B 138 -159.80 -157.43 REMARK 500 SER B 140 -128.67 56.89 REMARK 500 ASN B 204 42.82 -155.37 REMARK 500 CYS B 256 65.52 -150.71 REMARK 500 ASN B 290 167.02 64.82 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 GLY B 194 ILE B 195 -135.64 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 433 DISTANCE = 5.16 ANGSTROMS REMARK 525 HOH A 452 DISTANCE = 5.57 ANGSTROMS REMARK 525 HOH B 537 DISTANCE = 5.78 ANGSTROMS REMARK 525 HOH B 548 DISTANCE = 5.30 ANGSTROMS REMARK 525 HOH B 564 DISTANCE = 5.11 ANGSTROMS REMARK 525 HOH B 565 DISTANCE = 5.28 ANGSTROMS REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PG6 A 299 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 A 300 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PG6 B 299 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 B 300 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA B 301 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: APC21410 RELATED DB: TARGETDB DBREF 3JR7 A 2 298 UNP A7B6P0 A7B6P0_RUMGN 36 332 DBREF 3JR7 B 2 298 UNP A7B6P0 A7B6P0_RUMGN 36 332 SEQADV 3JR7 MSE A 1 UNP A7B6P0 EXPRESSION TAG SEQADV 3JR7 MSE B 1 UNP A7B6P0 EXPRESSION TAG SEQRES 1 A 298 MSE LYS THR THR TYR ASN ARG TRP TRP LYS LYS LYS VAL SEQRES 2 A 298 TRP PHE GLY ARG LYS ASP MSE SER TYR LYS VAL ILE VAL SEQRES 3 A 298 ASP SER CYS GLY GLU PHE THR PRO GLU MSE LYS ALA ASP SEQRES 4 A 298 GLY GLY PHE GLU HIS VAL ALA LEU GLY ILE GLN ILE GLU SEQRES 5 A 298 ASP THR GLN TRP THR ASP ASP ASP SER LEU LYS GLN GLU SEQRES 6 A 298 GLU LEU LEU LEU LYS ILE ALA GLU SER THR SER CYS ALA SEQRES 7 A 298 LYS THR SER CYS PRO SER PRO GLU ARG TYR MSE GLU SER SEQRES 8 A 298 TYR HIS CYS ASP ALA GLU ARG ILE TYR VAL VAL THR LEU SEQRES 9 A 298 SER ALA GLU LEU SER GLY SER TYR ASN SER ALA VAL LEU SEQRES 10 A 298 GLY LYS ASN LEU TYR GLU GLU GLU TYR GLY GLU LYS GLN SEQRES 11 A 298 ILE HIS VAL PHE ASN SER ARG SER ALA SER VAL GLY GLU SEQRES 12 A 298 THR LEU ILE ALA LEU LYS VAL GLN GLN CYS GLU LYS ALA SEQRES 13 A 298 GLY MSE THR PHE GLU GLU VAL VAL GLU SER VAL GLU CYS SEQRES 14 A 298 TYR ILE GLU GLU GLN HIS THR TYR PHE VAL LEU GLU ASN SEQRES 15 A 298 LEU ASP THR LEU ARG LYS ASN GLY ARG LEU THR GLY ILE SEQRES 16 A 298 LYS SER LEU VAL ALA GLY ALA LEU ASN ILE LYS PRO ILE SEQRES 17 A 298 MSE GLY SER THR PRO GLN GLY THR ILE CYS GLN LYS GLU SEQRES 18 A 298 LYS ALA ARG GLY MSE LYS LYS ALA LEU VAL LYS MSE ALA SEQRES 19 A 298 ASP CYS VAL ALA ALA ASP VAL VAL ASN ALA GLY ASP LYS SEQRES 20 A 298 ILE LEU ALA ILE ALA HIS CYS ASN CYS GLU GLU ARG ALA SEQRES 21 A 298 LYS GLU VAL GLN ARG LEU LEU LYS GLU ARG PHE ALA VAL SEQRES 22 A 298 LYS SER SER PHE ILE VAL ASP THR SER GLY ILE SER THR SEQRES 23 A 298 VAL TYR ALA ASN ASP GLY GLY ILE ILE VAL VAL VAL SEQRES 1 B 298 MSE LYS THR THR TYR ASN ARG TRP TRP LYS LYS LYS VAL SEQRES 2 B 298 TRP PHE GLY ARG LYS ASP MSE SER TYR LYS VAL ILE VAL SEQRES 3 B 298 ASP SER CYS GLY GLU PHE THR PRO GLU MSE LYS ALA ASP SEQRES 4 B 298 GLY GLY PHE GLU HIS VAL ALA LEU GLY ILE GLN ILE GLU SEQRES 5 B 298 ASP THR GLN TRP THR ASP ASP ASP SER LEU LYS GLN GLU SEQRES 6 B 298 GLU LEU LEU LEU LYS ILE ALA GLU SER THR SER CYS ALA SEQRES 7 B 298 LYS THR SER CYS PRO SER PRO GLU ARG TYR MSE GLU SER SEQRES 8 B 298 TYR HIS CYS ASP ALA GLU ARG ILE TYR VAL VAL THR LEU SEQRES 9 B 298 SER ALA GLU LEU SER GLY SER TYR ASN SER ALA VAL LEU SEQRES 10 B 298 GLY LYS ASN LEU TYR GLU GLU GLU TYR GLY GLU LYS GLN SEQRES 11 B 298 ILE HIS VAL PHE ASN SER ARG SER ALA SER VAL GLY GLU SEQRES 12 B 298 THR LEU ILE ALA LEU LYS VAL GLN GLN CYS GLU LYS ALA SEQRES 13 B 298 GLY MSE THR PHE GLU GLU VAL VAL GLU SER VAL GLU CYS SEQRES 14 B 298 TYR ILE GLU GLU GLN HIS THR TYR PHE VAL LEU GLU ASN SEQRES 15 B 298 LEU ASP THR LEU ARG LYS ASN GLY ARG LEU THR GLY ILE SEQRES 16 B 298 LYS SER LEU VAL ALA GLY ALA LEU ASN ILE LYS PRO ILE SEQRES 17 B 298 MSE GLY SER THR PRO GLN GLY THR ILE CYS GLN LYS GLU SEQRES 18 B 298 LYS ALA ARG GLY MSE LYS LYS ALA LEU VAL LYS MSE ALA SEQRES 19 B 298 ASP CYS VAL ALA ALA ASP VAL VAL ASN ALA GLY ASP LYS SEQRES 20 B 298 ILE LEU ALA ILE ALA HIS CYS ASN CYS GLU GLU ARG ALA SEQRES 21 B 298 LYS GLU VAL GLN ARG LEU LEU LYS GLU ARG PHE ALA VAL SEQRES 22 B 298 LYS SER SER PHE ILE VAL ASP THR SER GLY ILE SER THR SEQRES 23 B 298 VAL TYR ALA ASN ASP GLY GLY ILE ILE VAL VAL VAL MODRES 3JR7 MSE A 20 MET SELENOMETHIONINE MODRES 3JR7 MSE A 36 MET SELENOMETHIONINE MODRES 3JR7 MSE A 89 MET SELENOMETHIONINE MODRES 3JR7 MSE A 158 MET SELENOMETHIONINE MODRES 3JR7 MSE A 209 MET SELENOMETHIONINE MODRES 3JR7 MSE A 226 MET SELENOMETHIONINE MODRES 3JR7 MSE A 233 MET SELENOMETHIONINE MODRES 3JR7 MSE B 20 MET SELENOMETHIONINE MODRES 3JR7 MSE B 36 MET SELENOMETHIONINE MODRES 3JR7 MSE B 89 MET SELENOMETHIONINE MODRES 3JR7 MSE B 158 MET SELENOMETHIONINE MODRES 3JR7 MSE B 209 MET SELENOMETHIONINE MODRES 3JR7 MSE B 226 MET SELENOMETHIONINE MODRES 3JR7 MSE B 233 MET SELENOMETHIONINE HET MSE A 20 8 HET MSE A 36 8 HET MSE A 89 8 HET MSE A 158 8 HET MSE A 209 8 HET MSE A 226 8 HET MSE A 233 8 HET MSE B 20 8 HET MSE B 36 8 HET MSE B 89 8 HET MSE B 158 8 HET MSE B 209 8 HET MSE B 226 8 HET MSE B 233 8 HET PG6 A 299 18 HET PO4 A 300 5 HET NA A 301 1 HET NA A 302 1 HET NA A 303 1 HET PG6 B 299 18 HET PO4 B 300 5 HET NA B 301 1 HETNAM MSE SELENOMETHIONINE HETNAM PG6 1-(2-METHOXY-ETHOXY)-2-{2-[2-(2-METHOXY-ETHOXY]- HETNAM 2 PG6 ETHOXY}-ETHANE HETNAM PO4 PHOSPHATE ION HETNAM NA SODIUM ION FORMUL 1 MSE 14(C5 H11 N O2 SE) FORMUL 3 PG6 2(C12 H26 O6) FORMUL 4 PO4 2(O4 P 3-) FORMUL 5 NA 4(NA 1+) FORMUL 11 HOH *545(H2 O) HELIX 1 1 THR A 33 GLY A 40 1 8 HELIX 2 2 LYS A 63 SER A 74 1 12 HELIX 3 3 SER A 84 HIS A 93 1 10 HELIX 4 4 GLY A 110 GLY A 127 1 18 HELIX 5 5 SER A 140 ALA A 156 1 17 HELIX 6 6 THR A 159 GLN A 174 1 16 HELIX 7 7 LEU A 183 ASN A 189 1 7 HELIX 8 8 GLY A 225 VAL A 241 1 17 HELIX 9 9 ASN A 243 ASP A 246 5 4 HELIX 10 10 CYS A 256 PHE A 271 1 16 HELIX 11 11 SER A 282 ASN A 290 1 9 HELIX 12 12 THR B 33 ALA B 38 1 6 HELIX 13 13 LYS B 63 SER B 74 1 12 HELIX 14 14 SER B 84 HIS B 93 1 10 HELIX 15 15 GLY B 110 TYR B 126 1 17 HELIX 16 16 SER B 140 ALA B 156 1 17 HELIX 17 17 THR B 159 GLN B 174 1 16 HELIX 18 18 LEU B 183 ASN B 189 1 7 HELIX 19 19 GLY B 225 VAL B 241 1 17 HELIX 20 20 ASN B 243 ASP B 246 5 4 HELIX 21 21 CYS B 256 PHE B 271 1 16 HELIX 22 22 SER B 282 ASN B 290 1 9 SHEET 1 A 4 PHE A 42 VAL A 45 0 SHEET 2 A 4 TYR A 22 ASP A 27 1 N VAL A 26 O GLU A 43 SHEET 3 A 4 ARG A 98 THR A 103 1 O VAL A 102 N ILE A 25 SHEET 4 A 4 GLN A 130 ASN A 135 1 O PHE A 134 N VAL A 101 SHEET 1 B 3 THR A 54 THR A 57 0 SHEET 2 B 3 GLY A 48 ILE A 51 -1 N ILE A 49 O TRP A 56 SHEET 3 B 3 LYS A 79 SER A 81 -1 O LYS A 79 N GLN A 50 SHEET 1 C 6 ILE A 217 ARG A 224 0 SHEET 2 C 6 ILE A 205 SER A 211 -1 N LYS A 206 O ALA A 223 SHEET 3 C 6 HIS A 175 VAL A 179 -1 N PHE A 178 O MSE A 209 SHEET 4 C 6 ILE A 294 VAL A 298 -1 O VAL A 296 N TYR A 177 SHEET 5 C 6 ILE A 248 HIS A 253 -1 N ALA A 250 O VAL A 297 SHEET 6 C 6 SER A 275 ASP A 280 1 O SER A 275 N LEU A 249 SHEET 1 D 4 PHE B 42 VAL B 45 0 SHEET 2 D 4 TYR B 22 ASP B 27 1 N VAL B 24 O GLU B 43 SHEET 3 D 4 ARG B 98 THR B 103 1 O TYR B 100 N ILE B 25 SHEET 4 D 4 GLN B 130 ASN B 135 1 O PHE B 134 N VAL B 101 SHEET 1 E 3 THR B 54 THR B 57 0 SHEET 2 E 3 GLY B 48 ILE B 51 -1 N ILE B 51 O THR B 54 SHEET 3 E 3 LYS B 79 SER B 81 -1 O LYS B 79 N GLN B 50 SHEET 1 F 6 ILE B 217 ARG B 224 0 SHEET 2 F 6 ILE B 205 SER B 211 -1 N ILE B 208 O LYS B 220 SHEET 3 F 6 THR B 176 VAL B 179 -1 N PHE B 178 O MSE B 209 SHEET 4 F 6 ILE B 294 VAL B 297 -1 O VAL B 296 N TYR B 177 SHEET 5 F 6 ILE B 248 HIS B 253 -1 N ALA B 252 O ILE B 295 SHEET 6 F 6 SER B 275 ASP B 280 1 O VAL B 279 N ILE B 251 SSBOND 1 CYS A 169 CYS B 169 1555 1555 2.16 LINK C ASP A 19 N MSE A 20 1555 1555 1.32 LINK C MSE A 20 N SER A 21 1555 1555 1.31 LINK C GLU A 35 N MSE A 36 1555 1555 1.34 LINK C MSE A 36 N LYS A 37 1555 1555 1.32 LINK C TYR A 88 N MSE A 89 1555 1555 1.34 LINK C MSE A 89 N GLU A 90 1555 1555 1.32 LINK C GLY A 157 N MSE A 158 1555 1555 1.33 LINK C MSE A 158 N THR A 159 1555 1555 1.33 LINK C ILE A 208 N MSE A 209 1555 1555 1.32 LINK C MSE A 209 N GLY A 210 1555 1555 1.33 LINK C GLY A 225 N MSE A 226 1555 1555 1.32 LINK C MSE A 226 N LYS A 227 1555 1555 1.33 LINK C LYS A 232 N MSE A 233 1555 1555 1.33 LINK C MSE A 233 N ALA A 234 1555 1555 1.33 LINK C ASP B 19 N MSE B 20 1555 1555 1.33 LINK C MSE B 20 N SER B 21 1555 1555 1.31 LINK C GLU B 35 N MSE B 36 1555 1555 1.34 LINK C MSE B 36 N LYS B 37 1555 1555 1.33 LINK C TYR B 88 N MSE B 89 1555 1555 1.32 LINK C MSE B 89 N GLU B 90 1555 1555 1.34 LINK C GLY B 157 N MSE B 158 1555 1555 1.33 LINK C MSE B 158 N THR B 159 1555 1555 1.32 LINK C ILE B 208 N MSE B 209 1555 1555 1.32 LINK C MSE B 209 N GLY B 210 1555 1555 1.32 LINK C GLY B 225 N MSE B 226 1555 1555 1.32 LINK C MSE B 226 N LYS B 227 1555 1555 1.33 LINK C LYS B 232 N MSE B 233 1555 1555 1.33 LINK C MSE B 233 N ALA B 234 1555 1555 1.33 SITE 1 AC1 11 LEU A 47 THR A 80 SER A 81 LEU A 108 SITE 2 AC1 11 SER A 109 ARG A 137 PHE A 178 ARG A 191 SITE 3 AC1 11 GLY A 215 ILE A 295 HOH A 326 SITE 1 AC2 5 GLN A 130 THR A 159 PHE A 160 HOH A 529 SITE 2 AC2 5 HOH A 539 SITE 1 AC3 1 ARG A 224 SITE 1 AC4 1 ARG A 87 SITE 1 AC5 11 LEU B 47 THR B 80 CYS B 82 LEU B 108 SITE 2 AC5 11 SER B 109 ARG B 137 PHE B 178 ARG B 191 SITE 3 AC5 11 GLY B 215 ILE B 295 HOH B 348 SITE 1 AC6 7 ASN A 204 HOH A 333 LYS B 23 CYS B 94 SITE 2 AC6 7 ASP B 95 ALA B 96 HOH B 494 SITE 1 AC7 1 CYS B 77 CRYST1 96.899 96.899 159.921 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 0.010320 0.005958 0.000000 0.00000 SCALE2 0.000000 0.011917 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006253 0.00000