HEADER IMMUNE SYSTEM 08-JUL-99 1QD0 TITLE CAMELID HEAVY CHAIN VARIABLE DOMAINS PROVIDE EFFICIENT COMBINING SITES TITLE 2 TO HAPTENS COMPND MOL_ID: 1; COMPND 2 MOLECULE: VHH-R2 ANTI-RR6 ANTIBODY; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: VARIABLE DOMAIN OF A HEAVY CHAIN ANTIBODY SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: LAMA GLAMA; SOURCE 3 ORGANISM_COMMON: LLAMA; SOURCE 4 ORGANISM_TAXID: 9844; SOURCE 5 TISSUE: BLOOD; SOURCE 6 CELL: PERIPHERAL BLOOD LYMPHOCYTE KEYWDS CAMELID VH, IMMUNOGLOBULIN FRAGMENT, AZO-DYE, IMMUNE SYSTEM EXPDTA X-RAY DIFFRACTION AUTHOR S.SPINELLI,L.G.J.FRENKEN,P.HERMANS,T.VERRIPS,K.BROWN,M.TEGONI, AUTHOR 2 C.CAMBILLAU REVDAT 7 28-FEB-18 1QD0 1 REMARK REVDAT 6 31-JAN-18 1QD0 1 REMARK REVDAT 5 04-OCT-17 1QD0 1 REMARK REVDAT 4 13-JUL-11 1QD0 1 VERSN REVDAT 3 24-FEB-09 1QD0 1 VERSN REVDAT 2 01-APR-03 1QD0 1 JRNL REVDAT 1 19-JUL-00 1QD0 0 JRNL AUTH S.SPINELLI,L.G.FRENKEN,P.HERMANS,T.VERRIPS,K.BROWN,M.TEGONI, JRNL AUTH 2 C.CAMBILLAU JRNL TITL CAMELID HEAVY-CHAIN VARIABLE DOMAINS PROVIDE EFFICIENT JRNL TITL 2 COMBINING SITES TO HAPTENS. JRNL REF BIOCHEMISTRY V. 39 1217 2000 JRNL REFN ISSN 0006-2960 JRNL PMID 10684599 JRNL DOI 10.1021/BI991830W REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH C.HAMERS-CASTERMAN,T.ATARHOUCH,S.MUYLDERMANS,G.ROBINSON, REMARK 1 AUTH 2 C.HAMERS,E.B.SONGA,N.BENDAHMAN,R.HAMERS REMARK 1 TITL NATURALLY OCCURRING ANTIBODIES DEVOID OF LIGHT CHAINS REMARK 1 REF NATURE V. 363 446 1993 REMARK 1 REFN ISSN 0028-0836 REMARK 1 DOI 10.1038/363446A0 REMARK 2 REMARK 2 RESOLUTION. 2.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR 3.843 REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 12.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 2.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 80.0 REMARK 3 NUMBER OF REFLECTIONS : 8300 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING SET) : 0.210 REMARK 3 FREE R VALUE : 0.280 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : 800 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 977 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 74 REMARK 3 SOLVENT ATOMS : 54 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 30.00 REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.016 REMARK 3 BOND ANGLES (DEGREES) : 1.300 REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1QD0 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 14-JUL-99. REMARK 100 THE DEPOSITION ID IS D_1000009303. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 29-APR-98 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 4.2 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : BM14 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.933 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : OTHER REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO, AUTOMAR REMARK 200 DATA SCALING SOFTWARE : MARSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 57351 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.0 REMARK 200 DATA REDUNDANCY : 3.000 REMARK 200 R MERGE (I) : 0.06000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 9.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.60 REMARK 200 COMPLETENESS FOR SHELL (%) : 62.0 REMARK 200 DATA REDUNDANCY IN SHELL : 2.50 REMARK 200 R MERGE FOR SHELL (I) : 0.25000 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: NULL REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 55.05 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.74 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: AMMONIUM SULFATE, SODIUM ACETATE, REMARK 280 GLYCEROL, PH 4.2, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE REMARK 280 20.0K, TEMPERATURE 293.0K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 32 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+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+1/3 REMARK 290 6555 -X,-X+Y,-Z+2/3 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 80.73333 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 40.36667 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 40.36667 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 80.73333 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: 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3520 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 13190 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -90.0 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 350 BIOMT2 2 -0.866025 0.500000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 -40.36667 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 GLN A 1 CG CD OE1 NE2 REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 LYS A 90 CE NZ 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 O LYS A 79 N THR A 80 1.46 REMARK 500 NH1 ARG A 19 OE1 GLN A 85 1.51 REMARK 500 OD2 ASP A 93 O HOH A 1053 1.76 REMARK 500 O VAL A 82 N TYR A 83 1.80 REMARK 500 O GLY A 91 OG1 THR A 94 2.06 REMARK 500 OE1 GLU A 49 NZ LYS A 64 2.07 REMARK 500 NZ LYS A 59 O87 RR6 A 1003 2.11 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 VAL A 12 C GLN A 13 N -0.215 REMARK 500 GLY A 16 CA GLY A 16 C 0.228 REMARK 500 GLY A 16 C GLY A 16 O 0.103 REMARK 500 VAL A 51 CA VAL A 51 CB -0.144 REMARK 500 LYS A 79 C THR A 80 N -0.311 REMARK 500 VAL A 82 C TYR A 83 N -0.202 REMARK 500 GLU A 92 C ASP A 93 N -0.180 REMARK 500 ASP A 93 C THR A 94 N -0.302 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 GLY A 16 CA - C - N ANGL. DEV. = -14.9 DEGREES REMARK 500 ALA A 28 CB - CA - C ANGL. DEV. = -14.9 DEGREES REMARK 500 ALA A 28 N - CA - CB ANGL. DEV. = 21.6 DEGREES REMARK 500 ARG A 70 NE - CZ - NH2 ANGL. DEV. = 3.5 DEGREES REMARK 500 ARG A 75 NE - CZ - NH2 ANGL. DEV. = 3.4 DEGREES REMARK 500 LYS A 79 CA - C - N ANGL. DEV. = 30.0 DEGREES REMARK 500 LYS A 79 O - C - N ANGL. DEV. = -39.0 DEGREES REMARK 500 THR A 80 C - N - CA ANGL. DEV. = 36.8 DEGREES REMARK 500 VAL A 82 CA - C - N ANGL. DEV. = 18.0 DEGREES REMARK 500 VAL A 82 O - C - N ANGL. DEV. = -22.7 DEGREES REMARK 500 GLY A 119 O - C - N ANGL. DEV. = 11.5 DEGREES REMARK 500 GLN A 120 CB - CA - C ANGL. DEV. = -16.1 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 ALA A 95 -168.17 174.93 REMARK 500 PRO A 112 1.22 -63.87 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 LYS A 79 THR A 80 101.26 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 ARG A 70 0.09 SIDE CHAIN REMARK 500 ARG A 102 0.23 SIDE CHAIN REMARK 500 ARG A 105 0.11 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 LYS A 79 18.73 REMARK 500 VAL A 82 19.10 REMARK 500 REMARK 500 REMARK: NULL 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 CU A1001 CU REMARK 620 N RES CSSEQI ATOM REMARK 620 1 RR6 A1003 O29 REMARK 620 2 RR6 A1003 N1 85.6 REMARK 620 3 RR6 A1003 N2 106.7 27.9 REMARK 620 4 HIS A 34 NE2 92.2 166.9 160.3 REMARK 620 5 RR6 A1003 O28 176.1 96.9 74.7 86.1 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CU A1002 CU REMARK 620 N RES CSSEQI ATOM REMARK 620 1 RR6 A1003 O79 REMARK 620 2 RR6 A1003 N52 87.1 REMARK 620 3 RR6 A1003 O78 150.3 86.2 REMARK 620 4 HIS A 32 NE2 93.8 172.4 89.3 REMARK 620 5 RR6 A1003 O41 96.3 94.2 113.0 93.2 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CU A 1001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CU A 1002 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE RR6 A 1003 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1HCV RELATED DB: PDB REMARK 900 1HCV PERTAINS TO THE SAME CLASS OF CAMELID ANTIBODY FRAGMENTS DBREF 1QD0 A 1 128 GB 4165532 CAA15412 1 128 SEQADV 1QD0 ALA A 29 GB 4165532 THR 29 CONFLICT SEQADV 1QD0 GLY A 91 GB 4165532 PRO 91 CONFLICT SEQADV 1QD0 ALA A 107 GB 4165532 ASP 107 CONFLICT SEQRES 1 A 128 GLN VAL GLN LEU GLN GLU SER GLY GLY GLY LEU VAL GLN SEQRES 2 A 128 ALA GLY GLY SER LEU ARG LEU SER CYS ALA ALA SER GLY SEQRES 3 A 128 ARG ALA ALA SER GLY HIS GLY HIS TYR GLY MET GLY TRP SEQRES 4 A 128 PHE ARG GLN VAL PRO GLY LYS GLU ARG GLU PHE VAL ALA SEQRES 5 A 128 ALA ILE ARG TRP SER GLY LYS GLU THR TRP TYR LYS ASP SEQRES 6 A 128 SER VAL LYS GLY ARG PHE THR ILE SER ARG ASP ASN ALA SEQRES 7 A 128 LYS THR THR VAL TYR LEU GLN MET ASN SER LEU LYS GLY SEQRES 8 A 128 GLU ASP THR ALA VAL TYR TYR CYS ALA ALA ARG PRO VAL SEQRES 9 A 128 ARG VAL ALA ASP ILE SER LEU PRO VAL GLY PHE ASP TYR SEQRES 10 A 128 TRP GLY GLN GLY THR GLN VAL THR VAL SER SER HET CU A1001 1 HET CU A1002 1 HET RR6 A1003 72 HETNAM CU COPPER (II) ION HETNAM RR6 3-HYDROXY-7-(4-{1-[2-HYDROXY-3-(2-HYDROXY-5-SULFO- HETNAM 2 RR6 PHENYLAZO)-BENZYL]-2-SULFO-ETHYLAMINO}-[1,2,5]TRIAZIN- HETNAM 3 RR6 2-YLAMINO)-2-(2-HYDROXY-5-SULFO-PHENYLAZO)-NAPTHALENE- HETNAM 4 RR6 1,8-DISULFONIC ACID HETSYN RR6 AZO-DYE RR6 HAPTEN FORMUL 2 CU 2(CU 2+) FORMUL 4 RR6 C35 H25 N9 O22 S6 FORMUL 5 HOH *54(H2 O) SHEET 1 A 4 GLN A 3 SER A 7 0 SHEET 2 A 4 SER A 17 SER A 25 -1 N SER A 21 O SER A 7 SHEET 3 A 4 VAL A 82 ASN A 87 -1 O VAL A 82 N CYS A 22 SHEET 4 A 4 PHE A 71 SER A 74 -1 O THR A 72 N GLN A 85 SHEET 1 B 5 THR A 61 TYR A 63 0 SHEET 2 B 5 GLU A 49 ILE A 54 -1 O ALA A 53 N TRP A 62 SHEET 3 B 5 GLY A 36 GLN A 42 -1 O MET A 37 N ILE A 54 SHEET 4 B 5 ALA A 95 ARG A 102 -1 O VAL A 96 N GLN A 42 SHEET 5 B 5 TYR A 117 TRP A 118 -1 N TYR A 117 O ALA A 101 SHEET 1 B1 6 THR A 61 TYR A 63 0 SHEET 2 B1 6 GLU A 49 ILE A 54 -1 O ALA A 53 N TRP A 62 SHEET 3 B1 6 GLY A 36 GLN A 42 -1 O MET A 37 N ILE A 54 SHEET 4 B1 6 ALA A 95 ARG A 102 -1 O VAL A 96 N GLN A 42 SHEET 5 B1 6 THR A 122 SER A 127 -1 O THR A 122 N TYR A 97 SHEET 6 B1 6 LEU A 11 GLN A 13 1 O VAL A 12 N SER A 127 SSBOND 1 CYS A 22 CYS A 99 1555 1555 2.03 LINK CU CU A1001 O29 RR6 A1003 1555 1555 2.22 LINK CU CU A1001 N1 RR6 A1003 1555 1555 2.05 LINK CU CU A1001 N2 RR6 A1003 1555 1555 2.58 LINK CU CU A1001 NE2 HIS A 34 1555 1555 2.35 LINK CU CU A1001 O28 RR6 A1003 1555 1555 2.04 LINK CU CU A1002 O79 RR6 A1003 1555 1555 2.14 LINK CU CU A1002 N52 RR6 A1003 1555 1555 1.90 LINK CU CU A1002 O78 RR6 A1003 1555 1555 2.05 LINK CU CU A1002 NE2 HIS A 32 1555 1555 2.18 LINK CU CU A1002 O41 RR6 A1003 1555 6554 2.64 SITE 1 AC1 2 HIS A 34 RR6 A1003 SITE 1 AC2 3 HIS A 32 HIS A 34 RR6 A1003 SITE 1 AC3 17 HIS A 32 HIS A 34 GLY A 36 GLY A 45 SITE 2 AC3 17 ARG A 55 TRP A 56 SER A 57 LYS A 59 SITE 3 AC3 17 ARG A 102 PRO A 103 VAL A 104 ARG A 105 SITE 4 AC3 17 VAL A 106 CU A1001 CU A1002 HOH A1035 SITE 5 AC3 17 HOH A1037 CRYST1 46.700 46.700 121.100 90.00 90.00 120.00 P 32 2 1 6 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 0.021413 0.012363 0.000000 0.00000 SCALE2 0.000000 0.024726 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008258 0.00000