HEADER HYDROLASE/IMMUNE SYSTEM 11-MAR-07 2P42 TITLE COMPLEX OF A CAMELID SINGLE-DOMAIN VHH ANTIBODY FRAGMENT WITH RNASE A TITLE 2 AT 1.8A RESOLUTION: SE3-MONO-2 CRYSTAL FORM WITH THREE SE-MET SITES TITLE 3 (M34, M51, M83) IN VHH SCAFFOLD COMPND MOL_ID: 1; COMPND 2 MOLECULE: RIBONUCLEASE PANCREATIC; COMPND 3 CHAIN: A, C; COMPND 4 SYNONYM: RNASE 1, RNASE A; COMPND 5 EC: 3.1.27.5; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: ANTIBODY CAB-RN05; COMPND 8 CHAIN: B, D; COMPND 9 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BOS TAURUS; SOURCE 3 ORGANISM_COMMON: CATTLE; SOURCE 4 ORGANISM_TAXID: 9913; SOURCE 5 MOL_ID: 2; SOURCE 6 ORGANISM_SCIENTIFIC: CAMELUS DROMEDARIUS; SOURCE 7 ORGANISM_COMMON: ARABIAN CAMEL; SOURCE 8 ORGANISM_TAXID: 9838; SOURCE 9 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 10 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS SEMET PHASING, CAMELID SINGLE-DOMAIN ANTIBODY, VHH, CAB-RN05, RNASE KEYWDS 2 A, YEAST SURFACE DISPLAY., HYDROLASE-IMMUNE SYSTEM COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR V.TERESHKO,S.UYSAL,A.KOIDE,K.MARGALEF,S.KOIDE,A.A.KOSSIAKOFF REVDAT 4 13-JUL-11 2P42 1 VERSN REVDAT 3 24-FEB-09 2P42 1 VERSN REVDAT 2 12-AUG-08 2P42 1 JRNL REVDAT 1 11-MAR-08 2P42 0 JRNL AUTH V.TERESHKO,S.UYSAL,A.KOIDE,K.MARGALEF,S.KOIDE,A.A.KOSSIAKOFF JRNL TITL TOWARD CHAPERONE-ASSISTED CRYSTALLOGRAPHY: PROTEIN JRNL TITL 2 ENGINEERING ENHANCEMENT OF CRYSTAL PACKING AND X-RAY PHASING JRNL TITL 3 CAPABILITIES OF A CAMELID SINGLE-DOMAIN ANTIBODY (VHH) JRNL TITL 4 SCAFFOLD JRNL REF PROTEIN SCI. V. 17 1175 2008 JRNL REFN ISSN 0961-8368 JRNL PMID 18445622 JRNL DOI 10.1110/PS.034892.108 REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0005 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) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.1 REMARK 3 NUMBER OF REFLECTIONS : 42032 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) : 0.173 REMARK 3 R VALUE (WORKING SET) : 0.171 REMARK 3 FREE R VALUE : 0.215 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2228 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) : 1.80 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.85 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2571 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 82.60 REMARK 3 BIN R VALUE (WORKING SET) : 0.1870 REMARK 3 BIN FREE R VALUE SET COUNT : 131 REMARK 3 BIN FREE R VALUE : 0.2150 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3722 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 1 REMARK 3 SOLVENT ATOMS : 473 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 17.23 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.93000 REMARK 3 B22 (A**2) : -0.23000 REMARK 3 B33 (A**2) : 1.59000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 1.22000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.129 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.126 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.078 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 5.372 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.955 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.929 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3804 ; 0.013 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 3235 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5135 ; 1.131 ; 1.889 REMARK 3 BOND ANGLES OTHERS (DEGREES): 7568 ; 0.702 ; 2.143 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 482 ; 6.489 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 171 ;34.355 ;24.152 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 631 ;13.808 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 23 ;13.222 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 546 ; 0.063 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4319 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 780 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 580 ; 0.203 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 3068 ; 0.199 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1850 ; 0.190 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 2000 ; 0.086 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 297 ; 0.146 ; 0.200 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): 19 ; 0.243 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 56 ; 0.279 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 15 ; 0.130 ; 0.200 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): 2971 ; 1.256 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1022 ; 0.278 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3847 ; 1.531 ; 2.000 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1596 ; 2.511 ; 3.000 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1288 ; 3.467 ; 4.500 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 : 4 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 4 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 1 A 124 REMARK 3 RESIDUE RANGE : A 201 A 325 REMARK 3 RESIDUE RANGE : C 125 C 131 REMARK 3 RESIDUE RANGE : B 122 B 125 REMARK 3 ORIGIN FOR THE GROUP (A): 8.1187 -9.1674 11.0718 REMARK 3 T TENSOR REMARK 3 T11: -0.0034 T22: -0.0176 REMARK 3 T33: -0.0536 T12: -0.0235 REMARK 3 T13: 0.0026 T23: -0.0156 REMARK 3 L TENSOR REMARK 3 L11: 1.1311 L22: 0.7879 REMARK 3 L33: 0.5651 L12: 0.4106 REMARK 3 L13: -0.0116 L23: 0.1675 REMARK 3 S TENSOR REMARK 3 S11: 0.0325 S12: 0.0646 S13: -0.0181 REMARK 3 S21: 0.0359 S22: -0.0433 S23: 0.0131 REMARK 3 S31: 0.1178 S32: -0.0612 S33: 0.0108 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 5 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 1 B 121 REMARK 3 RESIDUE RANGE : A 326 A 328 REMARK 3 RESIDUE RANGE : B 126 B 213 REMARK 3 RESIDUE RANGE : A 332 A 339 REMARK 3 RESIDUE RANGE : B 214 B 220 REMARK 3 ORIGIN FOR THE GROUP (A): 33.1774 9.2800 1.0942 REMARK 3 T TENSOR REMARK 3 T11: -0.0142 T22: -0.0145 REMARK 3 T33: -0.0385 T12: -0.0151 REMARK 3 T13: -0.0049 T23: 0.0074 REMARK 3 L TENSOR REMARK 3 L11: 1.5084 L22: 0.8763 REMARK 3 L33: 1.0665 L12: 0.6838 REMARK 3 L13: -1.1331 L23: -0.6584 REMARK 3 S TENSOR REMARK 3 S11: 0.0824 S12: -0.0082 S13: 0.0420 REMARK 3 S21: -0.0106 S22: -0.0147 S23: 0.0103 REMARK 3 S31: -0.0308 S32: -0.0101 S33: -0.0677 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 4 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : C 1 C 124 REMARK 3 RESIDUE RANGE : A 329 A 331 REMARK 3 RESIDUE RANGE : C 132 C 253 REMARK 3 RESIDUE RANGE : D 122 D 124 REMARK 3 ORIGIN FOR THE GROUP (A): -12.9235 10.1580 21.3111 REMARK 3 T TENSOR REMARK 3 T11: -0.0219 T22: -0.0100 REMARK 3 T33: -0.0501 T12: -0.0179 REMARK 3 T13: -0.0211 T23: -0.0209 REMARK 3 L TENSOR REMARK 3 L11: 1.1052 L22: 0.6741 REMARK 3 L33: 0.8007 L12: 0.3017 REMARK 3 L13: -0.4715 L23: -0.1921 REMARK 3 S TENSOR REMARK 3 S11: -0.0195 S12: -0.0323 S13: -0.0043 REMARK 3 S21: 0.0086 S22: 0.0643 S23: -0.0224 REMARK 3 S31: -0.0917 S32: 0.0997 S33: -0.0448 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 4 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : D 1 D 121 REMARK 3 RESIDUE RANGE : D 125 D 215 REMARK 3 RESIDUE RANGE : C 254 C 261 REMARK 3 RESIDUE RANGE : D 216 D 220 REMARK 3 ORIGIN FOR THE GROUP (A): -39.0340 -7.3802 32.1136 REMARK 3 T TENSOR REMARK 3 T11: -0.0106 T22: -0.0261 REMARK 3 T33: -0.0269 T12: -0.0028 REMARK 3 T13: 0.0022 T23: 0.0003 REMARK 3 L TENSOR REMARK 3 L11: 1.5653 L22: 0.9641 REMARK 3 L33: 0.2576 L12: 0.7980 REMARK 3 L13: -0.0375 L23: -0.0972 REMARK 3 S TENSOR REMARK 3 S11: -0.0257 S12: -0.0357 S13: -0.0333 REMARK 3 S21: 0.0554 S22: -0.0037 S23: -0.0442 REMARK 3 S31: 0.0137 S32: 0.0130 S33: 0.0294 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH 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 2P42 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 05-APR-07. REMARK 100 THE RCSB ID CODE IS RCSB041939. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-APR-04 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 17-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97955, 0.97936 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : MIRROR REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 210 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-3000 REMARK 200 DATA SCALING SOFTWARE : HKL-3000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 44260 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.1 REMARK 200 DATA REDUNDANCY : 1.800 REMARK 200 R MERGE (I) : 0.09500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: SOLVE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 46.37 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.29 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: HAMPTON RESEARCH INDEX SCREEN, REMARK 280 SOLUTION #85: MGCL2, PEG3350, HEPES BUFFER, PH 7.5, VAPOR REMARK 280 DIFFUSION, TEMPERATURE 295K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 27.50100 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 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 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: 1140 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 12250 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -4.7 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 350 REMARK 350 BIOMOLECULE: 2 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: 1140 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 12350 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -5.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, D 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 -1 REMARK 465 SER B 0 REMARK 465 GLY D -1 REMARK 465 SER D 0 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 ASP B 105 CB - CG - OD2 ANGL. DEV. = 7.4 DEGREES REMARK 500 ASP C 14 CB - CG - OD2 ANGL. DEV. = 5.6 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 GLN A 60 -148.05 -98.72 REMARK 500 ASN A 71 35.65 -94.09 REMARK 500 ASN A 94 79.95 -103.98 REMARK 500 TYR B 29 -168.42 -125.08 REMARK 500 ASN B 77 53.89 -90.38 REMARK 500 GLU B 102 -135.91 56.34 REMARK 500 GLN C 60 -139.79 -103.70 REMARK 500 ASN C 71 38.94 -97.65 REMARK 500 ASN C 94 78.85 -106.55 REMARK 500 TYR D 29 -156.76 -122.79 REMARK 500 ASN D 77 55.80 -95.76 REMARK 500 GLU D 102 -133.25 51.23 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 C 239 DISTANCE = 5.73 ANGSTROMS REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 201 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 203 O REMARK 620 2 HOH A 202 O 83.9 REMARK 620 3 HOH C 127 O 93.8 98.1 REMARK 620 4 HOH C 125 O 92.1 173.8 86.9 REMARK 620 5 HOH A 204 O 87.2 90.0 171.9 85.1 REMARK 620 6 HOH C 126 O 174.8 94.6 91.3 89.0 87.9 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 201 REMARK 999 REMARK 999 SEQUENCE REMARK 999 AT THE TIME OF PROCESSING, THE SEQUENCE OF VHH REMARK 999 ANTIBODY IS NOT AVAILABLE AT THE UNP SEQUENCE DATABASE. REMARK 999 THE ANTIBODY IS TRUNCATED AT RESIDUE 121 AND SE-MET REMARK 999 IS INCORPORATED AT POSITIONS M34, M51, AND M83. DBREF 2P42 A 1 124 UNP P61823 RNAS1_BOVIN 27 150 DBREF 2P42 C 1 124 UNP P61823 RNAS1_BOVIN 27 150 DBREF 2P42 B -1 121 PDB 2P42 2P42 -1 121 DBREF 2P42 D -1 121 PDB 2P42 2P42 -1 121 SEQRES 1 A 124 LYS GLU THR ALA ALA ALA LYS PHE GLU ARG GLN HIS MET SEQRES 2 A 124 ASP SER SER THR SER ALA ALA SER SER SER ASN TYR CYS SEQRES 3 A 124 ASN GLN MET MET LYS SER ARG ASN LEU THR LYS ASP ARG SEQRES 4 A 124 CYS LYS PRO VAL ASN THR PHE VAL HIS GLU SER LEU ALA SEQRES 5 A 124 ASP VAL GLN ALA VAL CYS SER GLN LYS ASN VAL ALA CYS SEQRES 6 A 124 LYS ASN GLY GLN THR ASN CYS TYR GLN SER TYR SER THR SEQRES 7 A 124 MET SER ILE THR ASP CYS ARG GLU THR GLY SER SER LYS SEQRES 8 A 124 TYR PRO ASN CYS ALA TYR LYS THR THR GLN ALA ASN LYS SEQRES 9 A 124 HIS ILE ILE VAL ALA CYS GLU GLY ASN PRO TYR VAL PRO SEQRES 10 A 124 VAL HIS PHE ASP ALA SER VAL SEQRES 1 B 123 GLY SER GLN VAL GLN LEU VAL GLU SER GLY GLY GLY LEU SEQRES 2 B 123 VAL GLN ALA GLY GLY SER LEU ARG LEU SER CYS ALA ALA SEQRES 3 B 123 SER GLY TYR ALA TYR THR TYR ILE TYR MSE GLY TRP PHE SEQRES 4 B 123 ARG GLN ALA PRO GLY LYS GLU ARG GLU GLY VAL ALA ALA SEQRES 5 B 123 MSE ASP SER GLY GLY GLY GLY THR LEU TYR ALA ASP SER SEQRES 6 B 123 VAL LYS GLY ARG PHE THR ILE SER ARG ASP LYS GLY LYS SEQRES 7 B 123 ASN THR VAL TYR LEU GLN MSE ASP SER LEU LYS PRO GLU SEQRES 8 B 123 ASP THR ALA THR TYR TYR CYS ALA ALA GLY GLY TYR GLU SEQRES 9 B 123 LEU ARG ASP ARG THR TYR GLY GLN TRP GLY GLN GLY THR SEQRES 10 B 123 GLN VAL THR VAL SER SER SEQRES 1 C 124 LYS GLU THR ALA ALA ALA LYS PHE GLU ARG GLN HIS MET SEQRES 2 C 124 ASP SER SER THR SER ALA ALA SER SER SER ASN TYR CYS SEQRES 3 C 124 ASN GLN MET MET LYS SER ARG ASN LEU THR LYS ASP ARG SEQRES 4 C 124 CYS LYS PRO VAL ASN THR PHE VAL HIS GLU SER LEU ALA SEQRES 5 C 124 ASP VAL GLN ALA VAL CYS SER GLN LYS ASN VAL ALA CYS SEQRES 6 C 124 LYS ASN GLY GLN THR ASN CYS TYR GLN SER TYR SER THR SEQRES 7 C 124 MET SER ILE THR ASP CYS ARG GLU THR GLY SER SER LYS SEQRES 8 C 124 TYR PRO ASN CYS ALA TYR LYS THR THR GLN ALA ASN LYS SEQRES 9 C 124 HIS ILE ILE VAL ALA CYS GLU GLY ASN PRO TYR VAL PRO SEQRES 10 C 124 VAL HIS PHE ASP ALA SER VAL SEQRES 1 D 123 GLY SER GLN VAL GLN LEU VAL GLU SER GLY GLY GLY LEU SEQRES 2 D 123 VAL GLN ALA GLY GLY SER LEU ARG LEU SER CYS ALA ALA SEQRES 3 D 123 SER GLY TYR ALA TYR THR TYR ILE TYR MSE GLY TRP PHE SEQRES 4 D 123 ARG GLN ALA PRO GLY LYS GLU ARG GLU GLY VAL ALA ALA SEQRES 5 D 123 MSE ASP SER GLY GLY GLY GLY THR LEU TYR ALA ASP SER SEQRES 6 D 123 VAL LYS GLY ARG PHE THR ILE SER ARG ASP LYS GLY LYS SEQRES 7 D 123 ASN THR VAL TYR LEU GLN MSE ASP SER LEU LYS PRO GLU SEQRES 8 D 123 ASP THR ALA THR TYR TYR CYS ALA ALA GLY GLY TYR GLU SEQRES 9 D 123 LEU ARG ASP ARG THR TYR GLY GLN TRP GLY GLN GLY THR SEQRES 10 D 123 GLN VAL THR VAL SER SER MODRES 2P42 MSE B 34 MET SELENOMETHIONINE MODRES 2P42 MSE B 51 MET SELENOMETHIONINE MODRES 2P42 MSE B 83 MET SELENOMETHIONINE MODRES 2P42 MSE D 34 MET SELENOMETHIONINE MODRES 2P42 MSE D 51 MET SELENOMETHIONINE MODRES 2P42 MSE D 83 MET SELENOMETHIONINE HET MSE B 34 8 HET MSE B 51 8 HET MSE B 83 8 HET MSE D 34 8 HET MSE D 51 8 HET MSE D 83 8 HET MG A 201 1 HETNAM MSE SELENOMETHIONINE HETNAM MG MAGNESIUM ION FORMUL 2 MSE 6(C5 H11 N O2 SE) FORMUL 5 MG MG 2+ FORMUL 6 HOH *473(H2 O) HELIX 1 1 THR A 3 MET A 13 1 11 HELIX 2 2 ASN A 24 ARG A 33 1 10 HELIX 3 3 SER A 50 VAL A 57 1 8 HELIX 4 4 CYS A 58 GLN A 60 5 3 HELIX 5 5 ASP B 62 LYS B 65 5 4 HELIX 6 6 LYS B 87 THR B 91 5 5 HELIX 7 7 ARG B 104 TYR B 108 5 5 HELIX 8 8 THR C 3 MET C 13 1 11 HELIX 9 9 ASN C 24 ARG C 33 1 10 HELIX 10 10 SER C 50 VAL C 57 1 8 HELIX 11 11 CYS C 58 GLN C 60 5 3 HELIX 12 12 ASP D 62 LYS D 65 5 4 HELIX 13 13 LYS D 87 THR D 91 5 5 HELIX 14 14 ARG D 104 TYR D 108 5 5 SHEET 1 A 5 VAL A 43 VAL A 47 0 SHEET 2 A 5 MET A 79 GLU A 86 -1 O CYS A 84 N ASN A 44 SHEET 3 A 5 TYR A 97 GLU A 111 -1 O LYS A 98 N ARG A 85 SHEET 4 A 5 CYS A 72 GLN A 74 -1 N TYR A 73 O VAL A 108 SHEET 5 A 5 LYS A 61 VAL A 63 -1 N VAL A 63 O CYS A 72 SHEET 1 B 4 VAL A 43 VAL A 47 0 SHEET 2 B 4 MET A 79 GLU A 86 -1 O CYS A 84 N ASN A 44 SHEET 3 B 4 TYR A 97 GLU A 111 -1 O LYS A 98 N ARG A 85 SHEET 4 B 4 VAL A 116 VAL A 124 -1 O VAL A 118 N ALA A 109 SHEET 1 C 4 GLN B 3 GLY B 8 0 SHEET 2 C 4 LEU B 18 SER B 25 -1 O SER B 25 N GLN B 3 SHEET 3 C 4 THR B 78 MSE B 83 -1 O MSE B 83 N LEU B 18 SHEET 4 C 4 PHE B 68 SER B 71 -1 N THR B 69 O GLN B 82 SHEET 1 D 6 GLY B 10 GLN B 13 0 SHEET 2 D 6 THR B 115 SER B 120 1 O THR B 118 N GLY B 10 SHEET 3 D 6 ALA B 92 ALA B 98 -1 N TYR B 94 O THR B 115 SHEET 4 D 6 TYR B 33 GLN B 39 -1 N PHE B 37 O TYR B 95 SHEET 5 D 6 GLU B 46 ASP B 52 -1 O ALA B 49 N TRP B 36 SHEET 6 D 6 LEU B 59 TYR B 60 -1 O LEU B 59 N ALA B 50 SHEET 1 E 4 GLY B 10 GLN B 13 0 SHEET 2 E 4 THR B 115 SER B 120 1 O THR B 118 N GLY B 10 SHEET 3 E 4 ALA B 92 ALA B 98 -1 N TYR B 94 O THR B 115 SHEET 4 E 4 GLN B 110 TRP B 111 -1 O GLN B 110 N ALA B 98 SHEET 1 F 5 VAL C 43 VAL C 47 0 SHEET 2 F 5 MET C 79 GLU C 86 -1 O CYS C 84 N ASN C 44 SHEET 3 F 5 TYR C 97 GLU C 111 -1 O LYS C 98 N ARG C 85 SHEET 4 F 5 CYS C 72 GLN C 74 -1 N TYR C 73 O VAL C 108 SHEET 5 F 5 LYS C 61 VAL C 63 -1 N VAL C 63 O CYS C 72 SHEET 1 G 4 VAL C 43 VAL C 47 0 SHEET 2 G 4 MET C 79 GLU C 86 -1 O CYS C 84 N ASN C 44 SHEET 3 G 4 TYR C 97 GLU C 111 -1 O LYS C 98 N ARG C 85 SHEET 4 G 4 VAL C 116 VAL C 124 -1 O VAL C 118 N ALA C 109 SHEET 1 H 4 GLN D 3 GLY D 8 0 SHEET 2 H 4 LEU D 18 SER D 25 -1 O SER D 25 N GLN D 3 SHEET 3 H 4 THR D 78 MSE D 83 -1 O MSE D 83 N LEU D 18 SHEET 4 H 4 PHE D 68 SER D 71 -1 N THR D 69 O GLN D 82 SHEET 1 I 6 GLY D 10 GLN D 13 0 SHEET 2 I 6 THR D 115 SER D 120 1 O SER D 120 N VAL D 12 SHEET 3 I 6 ALA D 92 ALA D 98 -1 N TYR D 94 O THR D 115 SHEET 4 I 6 TYR D 33 GLN D 39 -1 N PHE D 37 O TYR D 95 SHEET 5 I 6 GLU D 46 ASP D 52 -1 O ALA D 49 N TRP D 36 SHEET 6 I 6 LEU D 59 TYR D 60 -1 O LEU D 59 N ALA D 50 SHEET 1 J 4 GLY D 10 GLN D 13 0 SHEET 2 J 4 THR D 115 SER D 120 1 O SER D 120 N VAL D 12 SHEET 3 J 4 ALA D 92 ALA D 98 -1 N TYR D 94 O THR D 115 SHEET 4 J 4 GLN D 110 TRP D 111 -1 O GLN D 110 N ALA D 98 SSBOND 1 CYS A 26 CYS A 84 1555 1555 2.05 SSBOND 2 CYS A 40 CYS A 95 1555 1555 2.05 SSBOND 3 CYS A 58 CYS A 110 1555 1555 2.09 SSBOND 4 CYS A 65 CYS A 72 1555 1555 1.99 SSBOND 5 CYS B 22 CYS B 96 1555 1555 2.14 SSBOND 6 CYS C 26 CYS C 84 1555 1555 2.02 SSBOND 7 CYS C 40 CYS C 95 1555 1555 2.04 SSBOND 8 CYS C 58 CYS C 110 1555 1555 2.05 SSBOND 9 CYS C 65 CYS C 72 1555 1555 2.00 SSBOND 10 CYS D 22 CYS D 96 1555 1555 2.11 LINK MG MG A 201 O HOH A 203 1555 1555 2.06 LINK MG MG A 201 O HOH A 202 1555 1555 2.11 LINK MG MG A 201 O HOH C 127 1555 1555 2.05 LINK MG MG A 201 O HOH C 125 1555 1555 2.21 LINK MG MG A 201 O HOH A 204 1555 1555 2.24 LINK MG MG A 201 O HOH C 126 1555 1555 2.06 LINK C TYR B 33 N MSE B 34 1555 1555 1.34 LINK C MSE B 34 N GLY B 35 1555 1555 1.32 LINK C ALA B 50 N MSE B 51 1555 1555 1.33 LINK C MSE B 51 N ASP B 52 1555 1555 1.34 LINK C GLN B 82 N MSE B 83 1555 1555 1.32 LINK C MSE B 83 N ASP B 84 1555 1555 1.33 LINK C TYR D 33 N MSE D 34 1555 1555 1.31 LINK C MSE D 34 N GLY D 35 1555 1555 1.32 LINK C ALA D 50 N MSE D 51 1555 1555 1.34 LINK C MSE D 51 N ASP D 52 1555 1555 1.33 LINK C GLN D 82 N MSE D 83 1555 1555 1.32 LINK C MSE D 83 N ASP D 84 1555 1555 1.34 CISPEP 1 TYR A 92 PRO A 93 0 18.01 CISPEP 2 ASN A 113 PRO A 114 0 11.45 CISPEP 3 TYR C 92 PRO C 93 0 14.81 CISPEP 4 ASN C 113 PRO C 114 0 14.50 SITE 1 AC1 6 HOH A 202 HOH A 203 HOH A 204 HOH C 125 SITE 2 AC1 6 HOH C 126 HOH C 127 CRYST1 69.545 55.002 65.705 90.00 100.21 90.00 P 1 21 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 0.014379 0.000000 0.002590 0.00000 SCALE2 0.000000 0.018181 0.000000 0.00000 SCALE3 0.000000 0.000000 0.015464 0.00000