HEADER IMMUNE SYSTEM 22-JAN-21 7BNW TITLE LLAMA NANOBODY NB18 RAISED AGAINST GLDL FROM FLAVOBACTERIUM JONHSONIAE COMPND MOL_ID: 1; COMPND 2 MOLECULE: NANOBODY NB18; COMPND 3 CHAIN: A, B, C, D; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: LAMA GLAMA; SOURCE 3 ORGANISM_COMMON: LLAMA; SOURCE 4 ORGANISM_TAXID: 9844; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS NANOBODY, TYPE IX SECRETION SYSTEM, IMMUNE SYSTEM EXPDTA X-RAY DIFFRACTION AUTHOR N.T.TRINH,C.CAMBILLAU,P.LEONE REVDAT 3 31-JAN-24 7BNW 1 REMARK REVDAT 2 23-JUN-21 7BNW 1 JRNL REVDAT 1 26-MAY-21 7BNW 0 JRNL AUTH T.T.N.TRINH,A.GAUBERT,P.MELANI,C.CAMBILLAU,A.ROUSSEL,P.LEONE JRNL TITL CRYSTAL STRUCTURES OF TWO CAMELID NANOBODIES RAISED AGAINST JRNL TITL 2 GLDL, A COMPONENT OF THE TYPE IX SECRETION SYSTEM FROM JRNL TITL 3 FLAVOBACTERIUM JOHNSONIAE. JRNL REF ACTA CRYSTALLOGR.,SECT.F V. 77 171 2021 JRNL REFN ESSN 2053-230X JRNL PMID 34100775 JRNL DOI 10.1107/S2053230X21005185 REMARK 2 REMARK 2 RESOLUTION. 2.59 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0267 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.59 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 44.45 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 18270 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) : 0.195 REMARK 3 R VALUE (WORKING SET) : 0.193 REMARK 3 FREE R VALUE : 0.243 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.800 REMARK 3 FREE R VALUE TEST SET COUNT : 926 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) : 2.59 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.66 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1293 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.04 REMARK 3 BIN R VALUE (WORKING SET) : 0.2300 REMARK 3 BIN FREE R VALUE SET COUNT : 61 REMARK 3 BIN FREE R VALUE : 0.3010 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3633 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 276 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 73.14 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.50000 REMARK 3 B22 (A**2) : 1.50000 REMARK 3 B33 (A**2) : -3.00000 REMARK 3 B12 (A**2) : 0.00000 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): 0.131 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.063 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.157 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 10.966 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.941 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.910 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3708 ; 0.013 ; 0.013 REMARK 3 BOND LENGTHS OTHERS (A): 3401 ; 0.002 ; 0.018 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5020 ; 1.778 ; 1.641 REMARK 3 BOND ANGLES OTHERS (DEGREES): 7756 ; 1.278 ; 1.583 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 476 ; 8.127 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 197 ;30.966 ;20.203 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 574 ;18.998 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 35 ;21.299 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 468 ; 0.072 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4329 ; 0.010 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 973 ; 0.002 ; 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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 NCS TYPE: LOCAL REMARK 3 NUMBER OF DIFFERENT NCS PAIRS : 6 REMARK 3 GROUP CHAIN1 RANGE CHAIN2 RANGE COUNT RMS WEIGHT REMARK 3 1 A 2 113 B 2 113 3425 0.130 0.050 REMARK 3 2 A 2 113 C 2 113 3151 0.130 0.050 REMARK 3 3 A 2 113 D 2 113 3341 0.120 0.050 REMARK 3 4 B 2 113 C 2 113 3081 0.150 0.050 REMARK 3 5 B 2 113 D 2 113 3322 0.120 0.050 REMARK 3 6 C 2 113 D 2 113 3131 0.130 0.050 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 : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 2 A 113 REMARK 3 ORIGIN FOR THE GROUP (A): 76.0872 71.9761 11.1712 REMARK 3 T TENSOR REMARK 3 T11: 0.2707 T22: 0.1538 REMARK 3 T33: 0.0558 T12: 0.0085 REMARK 3 T13: -0.0637 T23: -0.0013 REMARK 3 L TENSOR REMARK 3 L11: 2.3457 L22: 1.8415 REMARK 3 L33: 1.2126 L12: -0.3613 REMARK 3 L13: 0.2437 L23: 0.1209 REMARK 3 S TENSOR REMARK 3 S11: -0.0172 S12: 0.0025 S13: 0.2396 REMARK 3 S21: 0.3174 S22: -0.1008 S23: -0.1994 REMARK 3 S31: 0.0713 S32: -0.0259 S33: 0.1181 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 2 B 113 REMARK 3 ORIGIN FOR THE GROUP (A): 48.7253 65.6867 2.6798 REMARK 3 T TENSOR REMARK 3 T11: 0.2362 T22: 0.2045 REMARK 3 T33: 0.0250 T12: 0.0340 REMARK 3 T13: 0.0414 T23: 0.0288 REMARK 3 L TENSOR REMARK 3 L11: 1.5198 L22: 0.7640 REMARK 3 L33: 1.1799 L12: -0.1540 REMARK 3 L13: -0.2044 L23: -0.3753 REMARK 3 S TENSOR REMARK 3 S11: -0.0265 S12: 0.1194 S13: -0.1125 REMARK 3 S21: 0.1079 S22: 0.0624 S23: 0.0595 REMARK 3 S31: -0.1602 S32: -0.0613 S33: -0.0358 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : C 2 C 113 REMARK 3 ORIGIN FOR THE GROUP (A): 97.5409 53.5172 16.9514 REMARK 3 T TENSOR REMARK 3 T11: 0.6263 T22: 0.1115 REMARK 3 T33: 0.2081 T12: 0.1692 REMARK 3 T13: -0.3593 T23: -0.0931 REMARK 3 L TENSOR REMARK 3 L11: 1.6489 L22: 3.6505 REMARK 3 L33: 4.2621 L12: 0.1716 REMARK 3 L13: 2.5721 L23: 1.1921 REMARK 3 S TENSOR REMARK 3 S11: 0.4458 S12: 0.3768 S13: -0.2125 REMARK 3 S21: 0.6129 S22: -0.0962 S23: -0.3099 REMARK 3 S31: 0.7502 S32: 0.5345 S33: -0.3496 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : D 2 D 113 REMARK 3 ORIGIN FOR THE GROUP (A): 73.9704 47.3113 -7.8488 REMARK 3 T TENSOR REMARK 3 T11: 0.1260 T22: 0.0837 REMARK 3 T33: 0.4201 T12: 0.0343 REMARK 3 T13: 0.0103 T23: -0.1179 REMARK 3 L TENSOR REMARK 3 L11: 1.8351 L22: 3.0177 REMARK 3 L33: 0.5762 L12: -0.6649 REMARK 3 L13: 0.3102 L23: 0.6790 REMARK 3 S TENSOR REMARK 3 S11: 0.1473 S12: 0.0513 S13: -0.4738 REMARK 3 S21: 0.0088 S22: 0.1434 S23: 0.4378 REMARK 3 S31: 0.0043 S32: 0.1837 S33: -0.2908 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 U VALUES : WITH TLS ADDED REMARK 4 REMARK 4 7BNW COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 22-JAN-21. REMARK 100 THE DEPOSITION ID IS D_1292113640. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 09-JAN-18 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SOLEIL REMARK 200 BEAMLINE : PROXIMA 1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.978 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 16M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 19199 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.590 REMARK 200 RESOLUTION RANGE LOW (A) : 44.450 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 6.500 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 9.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.59 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.75 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: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: 1T2J REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 55.27 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.75 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 100MM SODIUM ACETATE PH 4.5, 200MM REMARK 280 CALCIUM ACETATE, 30% PEG 400, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 65 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/6 REMARK 290 6555 X-Y,X,Z+5/6 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 79.26333 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 39.63167 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 59.44750 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 19.81583 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 99.07917 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 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: 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: 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 350 REMARK 350 BIOMOLECULE: 4 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 MET A -1 REMARK 465 ALA A 0 REMARK 465 GLN A 1 REMARK 465 HIS A 114 REMARK 465 HIS A 115 REMARK 465 HIS A 116 REMARK 465 HIS A 117 REMARK 465 HIS A 118 REMARK 465 HIS A 119 REMARK 465 MET B -1 REMARK 465 ALA B 0 REMARK 465 GLN B 1 REMARK 465 HIS B 114 REMARK 465 HIS B 115 REMARK 465 HIS B 116 REMARK 465 HIS B 117 REMARK 465 HIS B 118 REMARK 465 HIS B 119 REMARK 465 MET C -1 REMARK 465 ALA C 0 REMARK 465 GLN C 1 REMARK 465 HIS C 114 REMARK 465 HIS C 115 REMARK 465 HIS C 116 REMARK 465 HIS C 117 REMARK 465 HIS C 118 REMARK 465 HIS C 119 REMARK 465 MET D -1 REMARK 465 ALA D 0 REMARK 465 GLN D 1 REMARK 465 HIS D 114 REMARK 465 HIS D 115 REMARK 465 HIS D 116 REMARK 465 HIS D 117 REMARK 465 HIS D 118 REMARK 465 HIS D 119 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 ARG C 32 CG CD NE CZ NH1 NH2 REMARK 470 TRP C 52A CG CD1 CD2 NE1 CE2 CE3 CZ2 REMARK 470 TRP C 52A CZ3 CH2 REMARK 470 LYS C 83 CG CD CE NZ REMARK 470 GLU C 85 CG CD OE1 OE2 REMARK 470 ARG C 95 CG CD NE CZ NH1 NH2 REMARK 470 ARG C 98 CG CD NE CZ NH1 NH2 REMARK 470 TYR C 100D CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 GLN C 105 CG CD OE1 NE2 REMARK 470 TRP D 52A CG CD1 CD2 NE1 CE2 CE3 CZ2 REMARK 470 TRP D 52A CZ3 CH2 REMARK 470 ARG D 96 CG CD NE CZ NH1 NH2 REMARK 470 ARG D 98 CG CD NE CZ NH1 NH2 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 OG SER A 30 O HOH A 201 2.09 REMARK 500 O HOH B 232 O HOH B 264 2.13 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 B 32 NE - CZ - NH2 ANGL. DEV. = 4.5 DEGREES REMARK 500 ARG C 45 NE - CZ - NH2 ANGL. DEV. = -3.1 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 SER A 30 -71.54 -61.02 REMARK 500 THR A 53 -70.48 -15.87 REMARK 500 SER A 54 -118.58 -104.46 REMARK 500 ARG A 98 -73.95 -96.30 REMARK 500 ASP A 101 98.50 -162.02 REMARK 500 SER B 29 62.37 -103.87 REMARK 500 SER B 30 -92.45 -102.65 REMARK 500 ASP B 101 92.92 -165.07 REMARK 500 SER C 31 47.01 -162.71 REMARK 500 ASN C 56 -135.77 -86.14 REMARK 500 ARG C 98 -94.11 -79.44 REMARK 500 PHE C 99 60.78 -115.06 REMARK 500 ASP C 101 87.89 -167.99 REMARK 500 SER D 30 -81.01 -30.18 REMARK 500 ASP D 101 91.23 -162.16 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 SER A 54 GLY A 55 149.83 REMARK 500 PRO C 28 SER C 29 -148.62 REMARK 500 ASN C 56 VAL C 57 -143.21 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 266 DISTANCE = 7.20 ANGSTROMS REMARK 525 HOH A 267 DISTANCE = 7.61 ANGSTROMS REMARK 525 HOH A 268 DISTANCE = 7.68 ANGSTROMS REMARK 525 HOH A 269 DISTANCE = 7.69 ANGSTROMS REMARK 525 HOH A 270 DISTANCE = 7.96 ANGSTROMS REMARK 525 HOH A 271 DISTANCE = 8.45 ANGSTROMS REMARK 525 HOH A 272 DISTANCE = 8.84 ANGSTROMS REMARK 525 HOH A 273 DISTANCE = 9.72 ANGSTROMS REMARK 525 HOH A 274 DISTANCE = 9.77 ANGSTROMS REMARK 525 HOH A 275 DISTANCE = 13.02 ANGSTROMS REMARK 525 HOH B 279 DISTANCE = 6.23 ANGSTROMS REMARK 525 HOH B 280 DISTANCE = 6.66 ANGSTROMS REMARK 525 HOH B 281 DISTANCE = 7.09 ANGSTROMS REMARK 525 HOH B 282 DISTANCE = 8.04 ANGSTROMS REMARK 525 HOH B 283 DISTANCE = 8.75 ANGSTROMS REMARK 525 HOH B 284 DISTANCE = 9.61 ANGSTROMS REMARK 525 HOH B 285 DISTANCE = 10.50 ANGSTROMS REMARK 525 HOH B 286 DISTANCE = 10.93 ANGSTROMS REMARK 525 HOH B 287 DISTANCE = 11.56 ANGSTROMS REMARK 525 HOH B 288 DISTANCE = 13.11 ANGSTROMS REMARK 525 HOH B 289 DISTANCE = 13.72 ANGSTROMS REMARK 525 HOH C 245 DISTANCE = 6.68 ANGSTROMS REMARK 525 HOH C 246 DISTANCE = 6.99 ANGSTROMS REMARK 525 HOH C 247 DISTANCE = 7.08 ANGSTROMS REMARK 525 HOH C 248 DISTANCE = 7.16 ANGSTROMS REMARK 525 HOH C 249 DISTANCE = 8.01 ANGSTROMS REMARK 525 HOH C 250 DISTANCE = 8.19 ANGSTROMS REMARK 525 HOH C 251 DISTANCE = 8.41 ANGSTROMS REMARK 525 HOH C 252 DISTANCE = 8.48 ANGSTROMS REMARK 525 HOH C 253 DISTANCE = 9.67 ANGSTROMS REMARK 525 HOH C 254 DISTANCE = 10.08 ANGSTROMS REMARK 525 HOH C 255 DISTANCE = 12.17 ANGSTROMS REMARK 525 HOH D 246 DISTANCE = 6.17 ANGSTROMS REMARK 525 HOH D 247 DISTANCE = 6.36 ANGSTROMS REMARK 525 HOH D 248 DISTANCE = 6.88 ANGSTROMS REMARK 525 HOH D 249 DISTANCE = 6.90 ANGSTROMS REMARK 525 HOH D 250 DISTANCE = 7.00 ANGSTROMS REMARK 525 HOH D 251 DISTANCE = 8.06 ANGSTROMS REMARK 525 HOH D 252 DISTANCE = 8.24 ANGSTROMS REMARK 525 HOH D 253 DISTANCE = 9.68 ANGSTROMS REMARK 525 HOH D 254 DISTANCE = 10.16 ANGSTROMS REMARK 525 HOH D 255 DISTANCE = 10.31 ANGSTROMS REMARK 525 HOH D 256 DISTANCE = 18.84 ANGSTROMS REMARK 525 HOH D 257 DISTANCE = 22.11 ANGSTROMS DBREF 7BNW A -1 119 PDB 7BNW 7BNW -1 119 DBREF 7BNW B -1 119 PDB 7BNW 7BNW -1 119 DBREF 7BNW C -1 119 PDB 7BNW 7BNW -1 119 DBREF 7BNW D -1 119 PDB 7BNW 7BNW -1 119 SEQRES 1 A 129 MET ALA GLN VAL GLN LEU VAL GLU SER GLY GLY GLY SER SEQRES 2 A 129 VAL GLN ALA GLY GLY SER LEU ARG LEU SER CYS ALA ALA SEQRES 3 A 129 SER GLY VAL PRO SER SER SER ARG VAL MET GLY TRP PHE SEQRES 4 A 129 ARG GLN ALA PRO GLY LYS GLN ARG GLU PHE VAL ALA ALA SEQRES 5 A 129 ILE SER TRP THR SER GLY ASN VAL TYR TYR ALA ASP SER SEQRES 6 A 129 VAL LYS GLY ARG PHE THR ILE THR ARG ASP ASN ALA LYS SEQRES 7 A 129 ASN THR MET TYR LEU GLN MET ASP SER LEU LYS PRO GLU SEQRES 8 A 129 ASP THR ALA VAL TYR TYR CYS ASN ALA ARG ARG ILE ARG SEQRES 9 A 129 PHE GLY VAL ARG VAL TYR ASP TYR TRP GLY GLN GLY THR SEQRES 10 A 129 GLN VAL THR VAL SER SER HIS HIS HIS HIS HIS HIS SEQRES 1 B 129 MET ALA GLN VAL GLN LEU VAL GLU SER GLY GLY GLY SER SEQRES 2 B 129 VAL GLN ALA GLY GLY SER LEU ARG LEU SER CYS ALA ALA SEQRES 3 B 129 SER GLY VAL PRO SER SER SER ARG VAL MET GLY TRP PHE SEQRES 4 B 129 ARG GLN ALA PRO GLY LYS GLN ARG GLU PHE VAL ALA ALA SEQRES 5 B 129 ILE SER TRP THR SER GLY ASN VAL TYR TYR ALA ASP SER SEQRES 6 B 129 VAL LYS GLY ARG PHE THR ILE THR ARG ASP ASN ALA LYS SEQRES 7 B 129 ASN THR MET TYR LEU GLN MET ASP SER LEU LYS PRO GLU SEQRES 8 B 129 ASP THR ALA VAL TYR TYR CYS ASN ALA ARG ARG ILE ARG SEQRES 9 B 129 PHE GLY VAL ARG VAL TYR ASP TYR TRP GLY GLN GLY THR SEQRES 10 B 129 GLN VAL THR VAL SER SER HIS HIS HIS HIS HIS HIS SEQRES 1 C 129 MET ALA GLN VAL GLN LEU VAL GLU SER GLY GLY GLY SER SEQRES 2 C 129 VAL GLN ALA GLY GLY SER LEU ARG LEU SER CYS ALA ALA SEQRES 3 C 129 SER GLY VAL PRO SER SER SER ARG VAL MET GLY TRP PHE SEQRES 4 C 129 ARG GLN ALA PRO GLY LYS GLN ARG GLU PHE VAL ALA ALA SEQRES 5 C 129 ILE SER TRP THR SER GLY ASN VAL TYR TYR ALA ASP SER SEQRES 6 C 129 VAL LYS GLY ARG PHE THR ILE THR ARG ASP ASN ALA LYS SEQRES 7 C 129 ASN THR MET TYR LEU GLN MET ASP SER LEU LYS PRO GLU SEQRES 8 C 129 ASP THR ALA VAL TYR TYR CYS ASN ALA ARG ARG ILE ARG SEQRES 9 C 129 PHE GLY VAL ARG VAL TYR ASP TYR TRP GLY GLN GLY THR SEQRES 10 C 129 GLN VAL THR VAL SER SER HIS HIS HIS HIS HIS HIS SEQRES 1 D 129 MET ALA GLN VAL GLN LEU VAL GLU SER GLY GLY GLY SER SEQRES 2 D 129 VAL GLN ALA GLY GLY SER LEU ARG LEU SER CYS ALA ALA SEQRES 3 D 129 SER GLY VAL PRO SER SER SER ARG VAL MET GLY TRP PHE SEQRES 4 D 129 ARG GLN ALA PRO GLY LYS GLN ARG GLU PHE VAL ALA ALA SEQRES 5 D 129 ILE SER TRP THR SER GLY ASN VAL TYR TYR ALA ASP SER SEQRES 6 D 129 VAL LYS GLY ARG PHE THR ILE THR ARG ASP ASN ALA LYS SEQRES 7 D 129 ASN THR MET TYR LEU GLN MET ASP SER LEU LYS PRO GLU SEQRES 8 D 129 ASP THR ALA VAL TYR TYR CYS ASN ALA ARG ARG ILE ARG SEQRES 9 D 129 PHE GLY VAL ARG VAL TYR ASP TYR TRP GLY GLN GLY THR SEQRES 10 D 129 GLN VAL THR VAL SER SER HIS HIS HIS HIS HIS HIS FORMUL 5 HOH *276(H2 O) HELIX 1 AA1 LYS A 83 THR A 87 5 5 HELIX 2 AA2 LYS B 83 THR B 87 5 5 HELIX 3 AA3 LYS C 83 THR C 87 5 5 HELIX 4 AA4 LYS D 83 THR D 87 5 5 SHEET 1 AA1 4 GLN A 3 SER A 7 0 SHEET 2 AA1 4 LEU A 18 SER A 25 -1 O SER A 21 N SER A 7 SHEET 3 AA1 4 THR A 77 MET A 82 -1 O MET A 82 N LEU A 18 SHEET 4 AA1 4 PHE A 67 ASP A 72 -1 N ASP A 72 O THR A 77 SHEET 1 AA2 6 GLY A 10 GLN A 13 0 SHEET 2 AA2 6 THR A 107 SER A 112 1 O THR A 110 N GLY A 10 SHEET 3 AA2 6 ALA A 88 ILE A 97 -1 N TYR A 90 O THR A 107 SHEET 4 AA2 6 VAL A 33 GLN A 39 -1 N GLN A 39 O VAL A 89 SHEET 5 AA2 6 GLU A 46 SER A 52 -1 O GLU A 46 N ARG A 38 SHEET 6 AA2 6 VAL A 57 TYR A 59 -1 O TYR A 58 N ALA A 50 SHEET 1 AA3 4 GLY A 10 GLN A 13 0 SHEET 2 AA3 4 THR A 107 SER A 112 1 O THR A 110 N GLY A 10 SHEET 3 AA3 4 ALA A 88 ILE A 97 -1 N TYR A 90 O THR A 107 SHEET 4 AA3 4 ARG A 100B TRP A 103 -1 O TYR A 102 N ALA A 94 SHEET 1 AA4 4 LEU B 4 SER B 7 0 SHEET 2 AA4 4 LEU B 18 ALA B 24 -1 O SER B 21 N SER B 7 SHEET 3 AA4 4 THR B 77 MET B 82 -1 O MET B 82 N LEU B 18 SHEET 4 AA4 4 PHE B 67 ASP B 72 -1 N ASP B 72 O THR B 77 SHEET 1 AA5 6 GLY B 10 GLN B 13 0 SHEET 2 AA5 6 THR B 107 SER B 112 1 O THR B 110 N GLY B 10 SHEET 3 AA5 6 ALA B 88 ARG B 98 -1 N TYR B 90 O THR B 107 SHEET 4 AA5 6 VAL B 33 GLN B 39 -1 N GLN B 39 O VAL B 89 SHEET 5 AA5 6 GLU B 46 SER B 52 -1 O GLU B 46 N ARG B 38 SHEET 6 AA5 6 VAL B 57 TYR B 59 -1 O TYR B 58 N ALA B 50 SHEET 1 AA6 4 GLY B 10 GLN B 13 0 SHEET 2 AA6 4 THR B 107 SER B 112 1 O THR B 110 N GLY B 10 SHEET 3 AA6 4 ALA B 88 ARG B 98 -1 N TYR B 90 O THR B 107 SHEET 4 AA6 4 VAL B 100A TRP B 103 -1 O TYR B 102 N ALA B 94 SHEET 1 AA7 4 LEU C 4 SER C 7 0 SHEET 2 AA7 4 LEU C 18 ALA C 24 -1 O SER C 21 N SER C 7 SHEET 3 AA7 4 THR C 77 MET C 82 -1 O MET C 82 N LEU C 18 SHEET 4 AA7 4 PHE C 67 ASP C 72 -1 N ASP C 72 O THR C 77 SHEET 1 AA8 6 GLY C 10 GLN C 13 0 SHEET 2 AA8 6 THR C 107 SER C 112 1 O THR C 110 N GLY C 10 SHEET 3 AA8 6 ALA C 88 ILE C 97 -1 N TYR C 90 O THR C 107 SHEET 4 AA8 6 VAL C 33 GLN C 39 -1 N PHE C 37 O TYR C 91 SHEET 5 AA8 6 GLU C 46 SER C 52 -1 O GLU C 46 N ARG C 38 SHEET 6 AA8 6 VAL C 57 TYR C 59 -1 O TYR C 58 N ALA C 50 SHEET 1 AA9 4 GLY C 10 GLN C 13 0 SHEET 2 AA9 4 THR C 107 SER C 112 1 O THR C 110 N GLY C 10 SHEET 3 AA9 4 ALA C 88 ILE C 97 -1 N TYR C 90 O THR C 107 SHEET 4 AA9 4 ARG C 100B TRP C 103 -1 O TYR C 102 N ALA C 94 SHEET 1 AB1 4 GLN D 3 SER D 7 0 SHEET 2 AB1 4 LEU D 18 SER D 25 -1 O SER D 21 N SER D 7 SHEET 3 AB1 4 THR D 77 MET D 82 -1 O MET D 82 N LEU D 18 SHEET 4 AB1 4 PHE D 67 ASP D 72 -1 N ASP D 72 O THR D 77 SHEET 1 AB2 6 GLY D 10 GLN D 13 0 SHEET 2 AB2 6 THR D 107 SER D 112 1 O THR D 110 N GLY D 10 SHEET 3 AB2 6 ALA D 88 ARG D 98 -1 N TYR D 90 O THR D 107 SHEET 4 AB2 6 VAL D 33 GLN D 39 -1 N PHE D 37 O TYR D 91 SHEET 5 AB2 6 GLU D 46 SER D 52 -1 O GLU D 46 N ARG D 38 SHEET 6 AB2 6 VAL D 57 TYR D 59 -1 O TYR D 58 N ALA D 50 SHEET 1 AB3 4 GLY D 10 GLN D 13 0 SHEET 2 AB3 4 THR D 107 SER D 112 1 O THR D 110 N GLY D 10 SHEET 3 AB3 4 ALA D 88 ARG D 98 -1 N TYR D 90 O THR D 107 SHEET 4 AB3 4 VAL D 100A TRP D 103 -1 O TYR D 102 N ALA D 94 SSBOND 1 CYS A 22 CYS A 92 1555 1555 2.15 SSBOND 2 CYS B 22 CYS B 92 1555 1555 1.94 SSBOND 3 CYS C 22 CYS C 92 1555 1555 2.06 SSBOND 4 CYS D 22 CYS D 92 1555 1555 2.03 CRYST1 95.857 95.857 118.895 90.00 90.00 120.00 P 65 24 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 0.010432 0.006023 0.000000 0.00000 SCALE2 0.000000 0.012046 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008411 0.00000