PDB Short entry for 1BZQ HEADER HYDROLASE/IMMUNE SYSTEM 03-NOV-98 1BZQ TITLE COMPLEX OF A DROMEDARY SINGLE-DOMAIN VHH ANTIBODY FRAGMENT WITH RNASE TITLE 2 A COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROTEIN (RNASE A); COMPND 3 CHAIN: A, B, C, D; COMPND 4 EC: 3.1.27.5; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: PROTEIN (ANTIBODY CAB-RN05); COMPND 7 CHAIN: K, L, M, N; COMPND 8 FRAGMENT: VARIABLE DOMAIN; 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 ORGAN: PANCREAS; SOURCE 6 OTHER_DETAILS: RNASE A SUPPLIED BY SIGMA; SOURCE 7 MOL_ID: 2; SOURCE 8 ORGANISM_SCIENTIFIC: CAMELUS DROMEDARIUS; SOURCE 9 ORGANISM_COMMON: ARABIAN CAMEL; SOURCE 10 ORGANISM_TAXID: 9838; SOURCE 11 CELL: B-LYMPHOCYTES; SOURCE 12 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 13 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS IMMUNOGLUBULIN, ANTIBODY COMPLEX, RIBONUCLEASE, HYDROLASE-IMMUNE KEYWDS 2 SYSTEM COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR K.DECANNIERE,A.DESMYTER,M.GAHROUDHI,M.LAUWEREYS,S.MUYLDERMANS,L.WYNS REVDAT 5 09-AUG-23 1BZQ 1 REMARK REVDAT 4 24-FEB-09 1BZQ 1 VERSN REVDAT 3 01-APR-03 1BZQ 1 JRNL REVDAT 2 15-DEC-99 1BZQ 4 HEADER COMPND REMARK JRNL REVDAT 2 2 4 ATOM SOURCE SEQRES REVDAT 1 11-NOV-98 1BZQ 0 JRNL AUTH K.DECANNIERE,A.DESMYTER,M.LAUWEREYS,M.A.GHAHROUDI, JRNL AUTH 2 S.MUYLDERMANS,L.WYNS JRNL TITL A SINGLE-DOMAIN ANTIBODY FRAGMENT IN COMPLEX WITH RNASE A: JRNL TITL 2 NON-CANONICAL LOOP STRUCTURES AND NANOMOLAR AFFINITY USING JRNL TITL 3 TWO CDR LOOPS. JRNL REF STRUCTURE FOLD.DES. V. 7 361 1999 JRNL REFN ISSN 0969-2126 JRNL PMID 10196124 JRNL DOI 10.1016/S0969-2126(99)80049-5 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH A.DESMYTER,T.R.TRANSUE,M.A.GHAHROUDI,M.H.THI,F.POORTMANS, REMARK 1 AUTH 2 R.HMAERS,S.MUYLDERMANS,L.WYNS REMARK 1 TITL CRYSTAL STRUCTURE OF A CAMEL SINGLE-DOMAIN VH ANTIBODY REMARK 1 TITL 2 FRAGMENT IN COMPLEX WITH LYSOZYME REMARK 1 REF NAT.STRUCT.BIOL. V. 9 803 1998 REMARK 1 REFN ISSN 1072-8368 REMARK 2 REMARK 2 RESOLUTION. 2.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.5 REMARK 3 NUMBER OF REFLECTIONS : 25796 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) : NULL REMARK 3 R VALUE (WORKING SET) : 0.222 REMARK 3 FREE R VALUE : 0.282 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1298 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 7544 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 20 REMARK 3 SOLVENT ATOMS : 0 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 27.26 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 OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.453 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.324 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 DISTANCE RESTRAINTS. RMS SIGMA REMARK 3 BOND LENGTH (A) : 0.007 ; 0.020 REMARK 3 ANGLE DISTANCE (A) : 0.026 ; 0.040 REMARK 3 INTRAPLANAR 1-4 DISTANCE (A) : 0.021 ; 0.050 REMARK 3 H-BOND OR METAL COORDINATION (A) : NULL ; NULL REMARK 3 REMARK 3 PLANE RESTRAINT (A) : NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINT (A**3) : 0.094 ; 0.150 REMARK 3 REMARK 3 NON-BONDED CONTACT RESTRAINTS. REMARK 3 SINGLE TORSION (A) : 0.183 ; 0.300 REMARK 3 MULTIPLE TORSION (A) : 0.235 ; 0.300 REMARK 3 H-BOND (X...Y) (A) : 0.183 ; 0.300 REMARK 3 H-BOND (X-H...Y) (A) : NULL ; NULL REMARK 3 REMARK 3 CONFORMATIONAL TORSION ANGLE RESTRAINTS. REMARK 3 SPECIFIED (DEGREES) : 0.000 ; 15.000 REMARK 3 PLANAR (DEGREES) : 3.200 ; 7.000 REMARK 3 STAGGERED (DEGREES) : 25.900; 15.000 REMARK 3 TRANSVERSE (DEGREES) : 25.800; 20.000 REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 0.833 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 1.524 ; 3.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 0.810 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 1.390 ; 3.000 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REMARK 3 CHAINS A, B, C AND D ARE RNASE A MOLECULES CHAINS K, L, M REMARK 3 AND N ARE ANTIBODY MOLECULES SEPARATE NCS WAS APPLIED TO REMARK 3 EACH GROUP OF MOLECULES REMARK 4 REMARK 4 1BZQ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 05-NOV-98. REMARK 100 THE DEPOSITION ID IS D_1000000024. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 293.0 REMARK 200 PH : 6.4 REMARK 200 NUMBER OF CRYSTALS USED : 2 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : SI CRYSTAL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 25413 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.800 REMARK 200 RESOLUTION RANGE LOW (A) : 15.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 200 DATA REDUNDANCY : 3.800 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.11100 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 8.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.90 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.2 REMARK 200 DATA REDUNDANCY IN SHELL : 3.90 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.33600 REMARK 200 <I/SIGMA(I)> FOR SHELL : 3.900 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: PDB ENTRY 1RUV AND PDB ENTRY 1MEL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.77 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.11 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: HANGING DROP METHOD. 5 MG/ML OF THE REMARK 280 COMPLEX RESERVOIR SOLUTION IS 0.1 M POTASSIUM PHOSPHATE PH 6.4 REMARK 280 15 TO 20% W/V PEG 8000, VAPOR DIFFUSION - HANGING DROP, VAPOR REMARK 280 DIFFUSION, HANGING DROP REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,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 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: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, L 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 APPLY THE FOLLOWING TO CHAINS: B, N 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: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, M 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: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: D, K 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 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 39 CA - CB - CG ANGL. DEV. = 14.5 DEGREES REMARK 500 ASP B 283 CB - CA - C ANGL. DEV. = 12.4 DEGREES REMARK 500 ARG C 433 NE - CZ - NH2 ANGL. DEV. = -3.2 DEGREES REMARK 500 CYS C 440 CA - CB - SG ANGL. DEV. = 7.4 DEGREES REMARK 500 ARG K 838 NE - CZ - NH2 ANGL. DEV. = 3.9 DEGREES REMARK 500 ARG K 872 NE - CZ - NH1 ANGL. DEV. = 5.0 DEGREES REMARK 500 ARG K 872 NE - CZ - NH2 ANGL. DEV. = -5.3 DEGREES REMARK 500 ARG K 904 CD - NE - CZ ANGL. DEV. = 14.1 DEGREES REMARK 500 ARG K 904 NE - CZ - NH1 ANGL. DEV. = 4.3 DEGREES REMARK 500 ARG L1122 NE - CZ - NH1 ANGL. DEV. = 3.0 DEGREES REMARK 500 ARG M1219 NE - CZ - NH2 ANGL. DEV. = -4.9 DEGREES REMARK 500 ASP M1252 CB - CG - OD1 ANGL. DEV. = 6.3 DEGREES REMARK 500 THR M1318 N - CA - CB ANGL. DEV. = 12.6 DEGREES REMARK 500 ARG N1445 CD - NE - CZ ANGL. DEV. = 11.6 DEGREES REMARK 500 ARG N1472 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 ARG N1472 NE - CZ - NH2 ANGL. DEV. = -3.9 DEGREES REMARK 500 ARG N1524 CD - NE - CZ ANGL. DEV. = 10.7 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 16 27.62 -71.11 REMARK 500 ALA A 19 148.66 -174.74 REMARK 500 SER A 21 -82.37 -54.55 REMARK 500 SER A 22 -157.70 -79.03 REMARK 500 HIS A 48 53.08 -102.32 REMARK 500 GLN A 60 -135.89 -102.19 REMARK 500 ASN A 71 36.13 -95.99 REMARK 500 THR A 87 -167.68 -71.17 REMARK 500 SER B 216 26.79 -72.83 REMARK 500 ALA B 219 145.74 179.22 REMARK 500 SER B 221 -79.40 -57.60 REMARK 500 SER B 222 -160.57 -75.93 REMARK 500 HIS B 248 50.82 -99.87 REMARK 500 GLN B 260 -135.96 -102.66 REMARK 500 ASN B 271 33.86 -97.42 REMARK 500 THR B 287 -166.84 -70.16 REMARK 500 ASP B 321 -63.70 -90.95 REMARK 500 SER C 416 25.82 -69.28 REMARK 500 ALA C 419 148.79 -178.13 REMARK 500 SER C 421 -82.46 -54.51 REMARK 500 SER C 422 -158.46 -77.90 REMARK 500 HIS C 448 50.55 -101.89 REMARK 500 GLN C 460 -138.62 -105.26 REMARK 500 ASN C 471 34.20 -96.99 REMARK 500 THR C 487 -169.58 -68.81 REMARK 500 SER D 616 33.92 -74.39 REMARK 500 ALA D 619 148.07 -179.02 REMARK 500 SER D 621 -81.39 -54.52 REMARK 500 SER D 622 -159.67 -74.83 REMARK 500 ASN D 634 31.22 72.25 REMARK 500 HIS D 648 55.69 -104.28 REMARK 500 GLN D 660 -137.01 -104.00 REMARK 500 ASN D 671 35.32 -98.50 REMARK 500 THR D 687 -167.55 -67.74 REMARK 500 ASP D 721 -62.97 -92.35 REMARK 500 TYR K 829 -168.38 -116.38 REMARK 500 LYS K 843 179.20 -52.68 REMARK 500 GLU K 902 -122.91 47.96 REMARK 500 SER K 921 157.40 -49.75 REMARK 500 TYR L1029 -168.15 -112.36 REMARK 500 LYS L1043 179.66 -59.14 REMARK 500 ALA L1092 171.91 179.94 REMARK 500 GLU L1102 -122.98 44.99 REMARK 500 SER L1121 156.74 -48.45 REMARK 500 TYR M1229 -166.69 -115.07 REMARK 500 LYS M1243 -177.38 -51.64 REMARK 500 ASN M1277 59.03 -91.68 REMARK 500 GLU M1302 -123.61 48.90 REMARK 500 TYR N1429 -164.94 -114.66 REMARK 500 LYS N1443 -176.27 -48.98 REMARK 500 REMARK 500 THIS ENTRY HAS 52 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 A 2001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 B 2002 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 C 2003 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 D 2004 DBREF 1BZQ A 1 124 UNP P61823 RNAS1_BOVIN 27 150 DBREF 1BZQ B 201 324 UNP P61823 RNAS1_BOVIN 27 150 DBREF 1BZQ C 401 524 UNP P61823 RNAS1_BOVIN 27 150 DBREF 1BZQ D 601 724 UNP P61823 RNAS1_BOVIN 27 150 DBREF 1BZQ K 801 924 PDB 1BZQ 1BZQ 801 924 DBREF 1BZQ L 1001 1124 PDB 1BZQ 1BZQ 1001 1124 DBREF 1BZQ M 1201 1324 PDB 1BZQ 1BZQ 1201 1324 DBREF 1BZQ N 1401 1524 PDB 1BZQ 1BZQ 1401 1524 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 124 LYS GLU THR ALA ALA ALA LYS PHE GLU ARG GLN HIS MET SEQRES 2 B 124 ASP SER SER THR SER ALA ALA SER SER SER ASN TYR CYS SEQRES 3 B 124 ASN GLN MET MET LYS SER ARG ASN LEU THR LYS ASP ARG SEQRES 4 B 124 CYS LYS PRO VAL ASN THR PHE VAL HIS GLU SER LEU ALA SEQRES 5 B 124 ASP VAL GLN ALA VAL CYS SER GLN LYS ASN VAL ALA CYS SEQRES 6 B 124 LYS ASN GLY GLN THR ASN CYS TYR GLN SER TYR SER THR SEQRES 7 B 124 MET SER ILE THR ASP CYS ARG GLU THR GLY SER SER LYS SEQRES 8 B 124 TYR PRO ASN CYS ALA TYR LYS THR THR GLN ALA ASN LYS SEQRES 9 B 124 HIS ILE ILE VAL ALA CYS GLU GLY ASN PRO TYR VAL PRO SEQRES 10 B 124 VAL HIS PHE ASP ALA SER VAL 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 124 LYS GLU THR ALA ALA ALA LYS PHE GLU ARG GLN HIS MET SEQRES 2 D 124 ASP SER SER THR SER ALA ALA SER SER SER ASN TYR CYS SEQRES 3 D 124 ASN GLN MET MET LYS SER ARG ASN LEU THR LYS ASP ARG SEQRES 4 D 124 CYS LYS PRO VAL ASN THR PHE VAL HIS GLU SER LEU ALA SEQRES 5 D 124 ASP VAL GLN ALA VAL CYS SER GLN LYS ASN VAL ALA CYS SEQRES 6 D 124 LYS ASN GLY GLN THR ASN CYS TYR GLN SER TYR SER THR SEQRES 7 D 124 MET SER ILE THR ASP CYS ARG GLU THR GLY SER SER LYS SEQRES 8 D 124 TYR PRO ASN CYS ALA TYR LYS THR THR GLN ALA ASN LYS SEQRES 9 D 124 HIS ILE ILE VAL ALA CYS GLU GLY ASN PRO TYR VAL PRO SEQRES 10 D 124 VAL HIS PHE ASP ALA SER VAL SEQRES 1 K 124 GLN VAL GLN LEU VAL GLU SER GLY GLY GLY LEU VAL GLN SEQRES 2 K 124 ALA GLY GLY SER LEU ARG LEU SER CYS ALA ALA SER GLY SEQRES 3 K 124 TYR ALA TYR THR TYR ILE TYR MET GLY TRP PHE ARG GLN SEQRES 4 K 124 ALA PRO GLY LYS GLU ARG GLU GLY VAL ALA ALA MET ASP SEQRES 5 K 124 SER GLY GLY GLY GLY THR LEU TYR ALA ASP SER VAL LYS SEQRES 6 K 124 GLY ARG PHE THR ILE SER ARG ASP LYS GLY LYS ASN THR SEQRES 7 K 124 VAL TYR LEU GLN MET ASP SER LEU LYS PRO GLU ASP THR SEQRES 8 K 124 ALA THR TYR TYR CYS ALA ALA GLY GLY TYR GLU LEU ARG SEQRES 9 K 124 ASP ARG THR TYR GLY GLN TRP GLY GLN GLY THR GLN VAL SEQRES 10 K 124 THR VAL SER SER ARG GLY ARG SEQRES 1 L 124 GLN VAL GLN LEU VAL GLU SER GLY GLY GLY LEU VAL GLN SEQRES 2 L 124 ALA GLY GLY SER LEU ARG LEU SER CYS ALA ALA SER GLY SEQRES 3 L 124 TYR ALA TYR THR TYR ILE TYR MET GLY TRP PHE ARG GLN SEQRES 4 L 124 ALA PRO GLY LYS GLU ARG GLU GLY VAL ALA ALA MET ASP SEQRES 5 L 124 SER GLY GLY GLY GLY THR LEU TYR ALA ASP SER VAL LYS SEQRES 6 L 124 GLY ARG PHE THR ILE SER ARG ASP LYS GLY LYS ASN THR SEQRES 7 L 124 VAL TYR LEU GLN MET ASP SER LEU LYS PRO GLU ASP THR SEQRES 8 L 124 ALA THR TYR TYR CYS ALA ALA GLY GLY TYR GLU LEU ARG SEQRES 9 L 124 ASP ARG THR TYR GLY GLN TRP GLY GLN GLY THR GLN VAL SEQRES 10 L 124 THR VAL SER SER ARG GLY ARG SEQRES 1 M 124 GLN VAL GLN LEU VAL GLU SER GLY GLY GLY LEU VAL GLN SEQRES 2 M 124 ALA GLY GLY SER LEU ARG LEU SER CYS ALA ALA SER GLY SEQRES 3 M 124 TYR ALA TYR THR TYR ILE TYR MET GLY TRP PHE ARG GLN SEQRES 4 M 124 ALA PRO GLY LYS GLU ARG GLU GLY VAL ALA ALA MET ASP SEQRES 5 M 124 SER GLY GLY GLY GLY THR LEU TYR ALA ASP SER VAL LYS SEQRES 6 M 124 GLY ARG PHE THR ILE SER ARG ASP LYS GLY LYS ASN THR SEQRES 7 M 124 VAL TYR LEU GLN MET ASP SER LEU LYS PRO GLU ASP THR SEQRES 8 M 124 ALA THR TYR TYR CYS ALA ALA GLY GLY TYR GLU LEU ARG SEQRES 9 M 124 ASP ARG THR TYR GLY GLN TRP GLY GLN GLY THR GLN VAL SEQRES 10 M 124 THR VAL SER SER ARG GLY ARG SEQRES 1 N 124 GLN VAL GLN LEU VAL GLU SER GLY GLY GLY LEU VAL GLN SEQRES 2 N 124 ALA GLY GLY SER LEU ARG LEU SER CYS ALA ALA SER GLY SEQRES 3 N 124 TYR ALA TYR THR TYR ILE TYR MET GLY TRP PHE ARG GLN SEQRES 4 N 124 ALA PRO GLY LYS GLU ARG GLU GLY VAL ALA ALA MET ASP SEQRES 5 N 124 SER GLY GLY GLY GLY THR LEU TYR ALA ASP SER VAL LYS SEQRES 6 N 124 GLY ARG PHE THR ILE SER ARG ASP LYS GLY LYS ASN THR SEQRES 7 N 124 VAL TYR LEU GLN MET ASP SER LEU LYS PRO GLU ASP THR SEQRES 8 N 124 ALA THR TYR TYR CYS ALA ALA GLY GLY TYR GLU LEU ARG SEQRES 9 N 124 ASP ARG THR TYR GLY GLN TRP GLY GLN GLY THR GLN VAL SEQRES 10 N 124 THR VAL SER SER ARG GLY ARG HET PO4 A2001 5 HET PO4 B2002 5 HET PO4 C2003 5 HET PO4 D2004 5 HETNAM PO4 PHOSPHATE ION FORMUL 9 PO4 4(O4 P 3-) HELIX 1 1 ALA A 4 HIS A 12 1 9 HELIX 2 2 TYR A 25 SER A 32 1 8 HELIX 3 3 LEU A 51 SER A 59 1 9 HELIX 4 4 ALA B 204 HIS B 212 1 9 HELIX 5 5 TYR B 225 SER B 232 1 8 HELIX 6 6 LEU B 251 SER B 259 1 9 HELIX 7 7 ALA C 404 HIS C 412 1 9 HELIX 8 8 TYR C 425 SER C 432 1 8 HELIX 9 9 LEU C 451 SER C 459 1 9 HELIX 10 10 ALA D 604 HIS D 612 1 9 HELIX 11 11 TYR D 625 SER D 632 1 8 HELIX 12 12 LEU D 651 SER D 659 1 9 HELIX 13 13 PRO K 888 ASP K 890 5 3 HELIX 14 14 ASP K 905 THR K 907 5 3 HELIX 15 15 PRO L 1088 ASP L 1090 5 3 HELIX 16 16 ASP L 1105 THR L 1107 5 3 HELIX 17 17 PRO M 1288 ASP M 1290 5 3 HELIX 18 18 ASP M 1305 THR M 1307 5 3 HELIX 19 19 PRO N 1488 ASP N 1490 5 3 HELIX 20 20 ASP N 1505 THR N 1507 5 3 SHEET 1 A 3 VAL A 43 VAL A 47 0 SHEET 2 A 3 MET A 79 GLU A 86 -1 N CYS A 84 O ASN A 44 SHEET 3 A 3 TYR A 97 LYS A 104 -1 N LYS A 104 O MET A 79 SHEET 1 B 4 LYS A 61 VAL A 63 0 SHEET 2 B 4 CYS A 72 GLN A 74 -1 N GLN A 74 O LYS A 61 SHEET 3 B 4 HIS A 105 ALA A 109 -1 N VAL A 108 O TYR A 73 SHEET 4 B 4 HIS A 119 VAL A 124 -1 N VAL A 124 O HIS A 105 SHEET 1 C 3 VAL B 243 VAL B 247 0 SHEET 2 C 3 MET B 279 GLU B 286 -1 N CYS B 284 O ASN B 244 SHEET 3 C 3 TYR B 297 LYS B 304 -1 N LYS B 304 O MET B 279 SHEET 1 D 4 LYS B 261 VAL B 263 0 SHEET 2 D 4 CYS B 272 GLN B 274 -1 N GLN B 274 O LYS B 261 SHEET 3 D 4 HIS B 305 ALA B 309 -1 N VAL B 308 O TYR B 273 SHEET 4 D 4 HIS B 319 VAL B 324 -1 N VAL B 324 O HIS B 305 SHEET 1 E 3 VAL C 443 VAL C 447 0 SHEET 2 E 3 MET C 479 GLU C 486 -1 N CYS C 484 O ASN C 444 SHEET 3 E 3 TYR C 497 LYS C 504 -1 N LYS C 504 O MET C 479 SHEET 1 F 4 LYS C 461 VAL C 463 0 SHEET 2 F 4 CYS C 472 GLN C 474 -1 N GLN C 474 O LYS C 461 SHEET 3 F 4 HIS C 505 ALA C 509 -1 N VAL C 508 O TYR C 473 SHEET 4 F 4 HIS C 519 VAL C 524 -1 N VAL C 524 O HIS C 505 SHEET 1 G 3 VAL D 643 VAL D 647 0 SHEET 2 G 3 MET D 679 GLU D 686 -1 N CYS D 684 O ASN D 644 SHEET 3 G 3 TYR D 697 LYS D 704 -1 N LYS D 704 O MET D 679 SHEET 1 H 4 LYS D 661 VAL D 663 0 SHEET 2 H 4 CYS D 672 GLN D 674 -1 N GLN D 674 O LYS D 661 SHEET 3 H 4 HIS D 705 ALA D 709 -1 N VAL D 708 O TYR D 673 SHEET 4 H 4 HIS D 719 VAL D 724 -1 N VAL D 724 O HIS D 705 SHEET 1 I 4 GLN K 803 SER K 807 0 SHEET 2 I 4 LEU K 818 SER K 825 -1 N SER K 825 O GLN K 803 SHEET 3 I 4 THR K 878 MET K 883 -1 N MET K 883 O LEU K 818 SHEET 4 I 4 PHE K 868 SER K 871 -1 N SER K 871 O TYR K 880 SHEET 1 J 5 GLY K 810 GLN K 813 0 SHEET 2 J 5 THR K 915 SER K 920 1 N THR K 918 O GLY K 810 SHEET 3 J 5 ALA K 892 ALA K 898 -1 N TYR K 894 O THR K 915 SHEET 4 J 5 TYR K 833 GLN K 839 -1 N GLN K 839 O THR K 893 SHEET 5 J 5 GLU K 846 ASP K 852 -1 N MET K 851 O MET K 834 SHEET 1 K 4 GLN L1003 SER L1007 0 SHEET 2 K 4 LEU L1018 SER L1025 -1 N SER L1025 O GLN L1003 SHEET 3 K 4 THR L1078 MET L1083 -1 N MET L1083 O LEU L1018 SHEET 4 K 4 PHE L1068 SER L1071 -1 N SER L1071 O TYR L1080 SHEET 1 L 5 GLY L1010 GLN L1013 0 SHEET 2 L 5 THR L1115 SER L1120 1 N THR L1118 O GLY L1010 SHEET 3 L 5 ALA L1092 ALA L1098 -1 N TYR L1094 O THR L1115 SHEET 4 L 5 TYR L1033 GLN L1039 -1 N GLN L1039 O THR L1093 SHEET 5 L 5 GLU L1046 ASP L1052 -1 N MET L1051 O MET L1034 SHEET 1 M 4 GLN M1203 SER M1207 0 SHEET 2 M 4 LEU M1218 SER M1225 -1 N SER M1225 O GLN M1203 SHEET 3 M 4 THR M1278 MET M1283 -1 N MET M1283 O LEU M1218 SHEET 4 M 4 PHE M1268 SER M1271 -1 N SER M1271 O TYR M1280 SHEET 1 N 5 GLY M1210 GLN M1213 0 SHEET 2 N 5 THR M1315 SER M1320 1 N THR M1318 O GLY M1210 SHEET 3 N 5 ALA M1292 ALA M1298 -1 N TYR M1294 O THR M1315 SHEET 4 N 5 TYR M1233 GLN M1239 -1 N GLN M1239 O THR M1293 SHEET 5 N 5 GLU M1246 ASP M1252 -1 N MET M1251 O MET M1234 SHEET 1 O 4 GLN N1403 SER N1407 0 SHEET 2 O 4 LEU N1418 SER N1425 -1 N SER N1425 O GLN N1403 SHEET 3 O 4 THR N1478 MET N1483 -1 N MET N1483 O LEU N1418 SHEET 4 O 4 PHE N1468 SER N1471 -1 N SER N1471 O TYR N1480 SHEET 1 P 5 GLY N1410 GLN N1413 0 SHEET 2 P 5 THR N1515 SER N1520 1 N THR N1518 O GLY N1410 SHEET 3 P 5 ALA N1492 ALA N1498 -1 N TYR N1494 O THR N1515 SHEET 4 P 5 TYR N1433 GLN N1439 -1 N GLN N1439 O THR N1493 SHEET 5 P 5 GLU N1446 ASP N1452 -1 N MET N1451 O MET N1434 SSBOND 1 CYS A 26 CYS A 84 1555 1555 2.03 SSBOND 2 CYS A 40 CYS A 95 1555 1555 2.02 SSBOND 3 CYS A 58 CYS A 110 1555 1555 2.03 SSBOND 4 CYS A 65 CYS A 72 1555 1555 2.02 SSBOND 5 CYS B 226 CYS B 284 1555 1555 2.04 SSBOND 6 CYS B 240 CYS B 295 1555 1555 2.03 SSBOND 7 CYS B 258 CYS B 310 1555 1555 2.02 SSBOND 8 CYS B 265 CYS B 272 1555 1555 2.05 SSBOND 9 CYS C 426 CYS C 484 1555 1555 2.03 SSBOND 10 CYS C 440 CYS C 495 1555 1555 2.04 SSBOND 11 CYS C 458 CYS C 510 1555 1555 2.03 SSBOND 12 CYS C 465 CYS C 472 1555 1555 2.03 SSBOND 13 CYS D 626 CYS D 684 1555 1555 2.03 SSBOND 14 CYS D 640 CYS D 695 1555 1555 2.01 SSBOND 15 CYS D 658 CYS D 710 1555 1555 2.03 SSBOND 16 CYS D 665 CYS D 672 1555 1555 2.04 SSBOND 17 CYS K 822 CYS K 896 1555 1555 2.02 SSBOND 18 CYS L 1022 CYS L 1096 1555 1555 2.00 SSBOND 19 CYS M 1222 CYS M 1296 1555 1555 2.02 SSBOND 20 CYS N 1422 CYS N 1496 1555 1555 2.04 CISPEP 1 TYR A 92 PRO A 93 0 3.22 CISPEP 2 ASN A 113 PRO A 114 0 2.71 CISPEP 3 TYR B 292 PRO B 293 0 10.75 CISPEP 4 ASN B 313 PRO B 314 0 7.87 CISPEP 5 TYR C 492 PRO C 493 0 5.00 CISPEP 6 ASN C 513 PRO C 514 0 9.78 CISPEP 7 TYR D 692 PRO D 693 0 6.28 CISPEP 8 ASN D 713 PRO D 714 0 2.60 SITE 1 AC1 5 LYS A 7 GLN A 11 HIS A 12 HIS A 119 SITE 2 AC1 5 PHE A 120 SITE 1 AC2 5 GLN B 211 HIS B 212 LYS B 241 HIS B 319 SITE 2 AC2 5 PHE B 320 SITE 1 AC3 4 GLN C 411 HIS C 412 HIS C 519 PHE C 520 SITE 1 AC4 5 GLN D 611 HIS D 612 LYS D 641 HIS D 719 SITE 2 AC4 5 PHE D 720 CRYST1 66.520 66.820 69.340 91.43 117.34 97.33 P 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 0.015033 0.001934 0.007992 0.00000 SCALE2 0.000000 0.015089 0.001437 0.00000 SCALE3 0.000000 0.000000 0.016309 0.00000 MTRIX1 1 -0.999900 -0.007600 0.011920 40.10823 1 MTRIX2 1 0.007660 -0.999960 0.004920 21.82327 1 MTRIX3 1 0.011890 0.005010 0.999920 0.24119 1 MTRIX1 2 -0.141330 0.989960 0.002970 18.14327 1 MTRIX2 2 0.989940 0.141310 0.006670 27.06758 1 MTRIX3 2 0.006180 0.003880 -0.999970 23.75913 1 MTRIX1 3 0.135240 -0.990780 0.007440 43.21379 1 MTRIX2 3 -0.990610 -0.135360 -0.019110 3.47927 1 MTRIX3 3 0.019940 -0.004790 -0.999790 24.06191 1 MTRIX1 4 -0.999470 -0.032370 0.002190 39.81419 1 MTRIX2 4 0.032390 -0.999420 0.010790 22.21932 1 MTRIX3 4 0.001840 0.010850 0.999940 0.08047 1 MTRIX1 5 -0.155410 0.987840 -0.004110 17.90425 1 MTRIX2 5 0.987820 0.155430 0.007350 27.18056 1 MTRIX3 5 0.007900 -0.002920 -0.999960 23.90588 1 MTRIX1 6 0.133240 -0.991080 -0.002560 43.05147 1 MTRIX2 6 -0.991020 -0.133210 -0.011670 3.49825 1 MTRIX3 6 0.011220 0.004090 -0.999930 23.90540 1