HEADER HYDROLASE 29-SEP-11 2LJV TITLE SOLUTION STRUCTURE OF RHODOSTOMIN G50L MUTANT COMPND MOL_ID: 1; COMPND 2 MOLECULE: DISINTEGRIN RHODOSTOMIN; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: DISINTEGRIN KISTRIN, PLATELET AGGREGATION ACTIVATION COMPND 5 INHIBITOR; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CALLOSELASMA RHODOSTOMA; SOURCE 3 ORGANISM_COMMON: MALAYAN PIT VIPER; SOURCE 4 ORGANISM_TAXID: 8717; SOURCE 5 GENE: RHOD; SOURCE 6 EXPRESSION_SYSTEM: PICHIA PASTORIS; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 4922; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: X33; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: VECTOR; SOURCE 10 EXPRESSION_SYSTEM_VECTOR: PPICZAA KEYWDS DISINTEGRIN, RGD, INTEGRIN, HYDROLASE EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR W.CHUANG,J.SHIU,C.CHEN,Y.CHEN,Y.CHANG,C.HUANG REVDAT 2 14-JUN-23 2LJV 1 REMARK SEQADV REVDAT 1 03-OCT-12 2LJV 0 JRNL AUTH J.SHIU,C.CHEN,Y.CHEN,Y.CHANG JRNL TITL DESIGN OF INTEGRIN ALPHAVBETA3-SPECIFIC DISINTEGRIN FOR JRNL TITL 2 CANCER THERAPY JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : TOPSPIN 1.3, X-PLOR NIH REMARK 3 AUTHORS : BRUKER BIOSPIN (TOPSPIN) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2LJV COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 06-OCT-11. REMARK 100 THE DEPOSITION ID IS D_1000102470. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 300 REMARK 210 PH : 6.0 REMARK 210 IONIC STRENGTH : 0 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 2 MM RHODOSTOMIN G50L MUTANT-1, REMARK 210 90% H2O/10% D2O; 2 MM REMARK 210 RHODOSTOMIN G50L MUTANT-2, 100% REMARK 210 D2O; 2 MM [U-99% 15N] REMARK 210 RHODOSTOMIN G50L MUTANT-3, 90% REMARK 210 H2O/10% D2O; 2 MM [U-99% 15N] REMARK 210 RHODOSTOMIN G50L MUTANT-4, 100% REMARK 210 D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 3D 1H-15N NOESY; REMARK 210 3D 1H-15N TOCSY; 3D HNHA; 2D 1H- REMARK 210 1H NOESY; 2D 1H-1H TOCSY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NULL REMARK 210 METHOD USED : DGSA-DISTANCE GEOMETRY SIMULATED REMARK 210 ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 200 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LOWEST REMARK 210 ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: NULL REMARK 215 REMARK 215 NMR STUDY REMARK 215 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM SOLUTION REMARK 215 NMR DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE THAT REMARK 215 CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES ON REMARK 215 THESE RECORDS ARE MEANINGLESS. REMARK 300 REMARK 300 BIOMOLECULE: 1 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 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS 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 ARG A 22 H GLY A 24 1.54 REMARK 500 O LYS A 43 H CYS A 57 1.57 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 1 GLU A 10 45.54 -149.88 REMARK 500 1 CYS A 19 25.98 38.09 REMARK 500 1 LYS A 20 -157.53 -110.63 REMARK 500 1 PRO A 23 63.30 -56.16 REMARK 500 1 ALA A 25 -142.84 -106.74 REMARK 500 1 GLN A 26 -32.63 -131.18 REMARK 500 1 CYS A 32 37.67 -88.06 REMARK 500 1 PRO A 48 -103.28 -76.75 REMARK 500 1 ARG A 49 -38.00 -175.97 REMARK 500 1 LEU A 50 -172.06 -64.10 REMARK 500 1 PRO A 65 -158.16 -79.32 REMARK 500 2 CYS A 19 31.18 38.20 REMARK 500 2 CYS A 32 40.12 -154.60 REMARK 500 2 SER A 39 -93.70 -52.27 REMARK 500 2 PRO A 48 -160.44 -79.64 REMARK 500 2 ARG A 49 44.83 -143.61 REMARK 500 2 LEU A 50 -166.58 -128.66 REMARK 500 2 PRO A 65 -160.81 -78.62 REMARK 500 3 GLU A 3 -38.34 -175.94 REMARK 500 3 CYS A 19 35.22 38.45 REMARK 500 3 ARG A 40 169.35 -44.08 REMARK 500 3 ARG A 49 46.50 -86.34 REMARK 500 3 LEU A 50 -96.57 -129.14 REMARK 500 3 ASP A 51 36.31 -143.70 REMARK 500 4 CYS A 19 25.59 38.02 REMARK 500 4 CYS A 32 55.35 -144.11 REMARK 500 4 SER A 39 -99.42 -51.17 REMARK 500 4 ARG A 49 49.82 -86.52 REMARK 500 4 LEU A 50 -99.05 -129.10 REMARK 500 5 GLU A 10 56.65 -107.62 REMARK 500 5 CYS A 19 36.59 38.08 REMARK 500 5 CYS A 32 50.72 -140.72 REMARK 500 5 SER A 39 -105.90 -52.64 REMARK 500 5 CYS A 45 -39.40 -138.65 REMARK 500 5 LEU A 50 -110.76 -72.15 REMARK 500 5 ASP A 51 38.74 -140.37 REMARK 500 5 PRO A 65 -87.94 -78.09 REMARK 500 6 GLU A 10 46.70 -99.00 REMARK 500 6 CYS A 32 69.38 -116.56 REMARK 500 6 SER A 39 -107.65 -59.19 REMARK 500 6 PRO A 65 -93.00 -77.57 REMARK 500 6 ARG A 66 -168.76 -161.54 REMARK 500 7 SER A 39 -103.00 -80.47 REMARK 500 7 ASP A 51 62.49 119.47 REMARK 500 7 PRO A 65 -162.52 -79.68 REMARK 500 8 CYS A 19 36.57 38.40 REMARK 500 8 PRO A 23 -169.64 -77.28 REMARK 500 8 GLN A 26 -50.35 -123.11 REMARK 500 8 SER A 39 -127.03 -68.98 REMARK 500 8 PRO A 48 -92.39 -81.64 REMARK 500 REMARK 500 THIS ENTRY HAS 148 RAMACHANDRAN OUTLIERS. 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 1 ARG A 22 0.09 SIDE CHAIN REMARK 500 1 ARG A 40 0.17 SIDE CHAIN REMARK 500 1 ARG A 46 0.31 SIDE CHAIN REMARK 500 1 ARG A 49 0.17 SIDE CHAIN REMARK 500 1 ARG A 56 0.20 SIDE CHAIN REMARK 500 1 ARG A 66 0.32 SIDE CHAIN REMARK 500 2 ARG A 22 0.18 SIDE CHAIN REMARK 500 2 ARG A 40 0.22 SIDE CHAIN REMARK 500 2 ARG A 46 0.24 SIDE CHAIN REMARK 500 2 ARG A 49 0.20 SIDE CHAIN REMARK 500 2 ARG A 56 0.21 SIDE CHAIN REMARK 500 2 ARG A 66 0.32 SIDE CHAIN REMARK 500 3 ARG A 22 0.31 SIDE CHAIN REMARK 500 3 ARG A 40 0.26 SIDE CHAIN REMARK 500 3 ARG A 46 0.11 SIDE CHAIN REMARK 500 3 ARG A 49 0.31 SIDE CHAIN REMARK 500 3 ARG A 56 0.22 SIDE CHAIN REMARK 500 3 ARG A 66 0.30 SIDE CHAIN REMARK 500 4 ARG A 22 0.28 SIDE CHAIN REMARK 500 4 ARG A 40 0.12 SIDE CHAIN REMARK 500 4 ARG A 49 0.32 SIDE CHAIN REMARK 500 4 ARG A 56 0.23 SIDE CHAIN REMARK 500 4 ARG A 66 0.11 SIDE CHAIN REMARK 500 5 ARG A 22 0.23 SIDE CHAIN REMARK 500 5 ARG A 40 0.24 SIDE CHAIN REMARK 500 5 ARG A 46 0.31 SIDE CHAIN REMARK 500 5 ARG A 49 0.31 SIDE CHAIN REMARK 500 5 ARG A 56 0.30 SIDE CHAIN REMARK 500 5 ARG A 66 0.27 SIDE CHAIN REMARK 500 6 ARG A 22 0.20 SIDE CHAIN REMARK 500 6 ARG A 40 0.29 SIDE CHAIN REMARK 500 6 ARG A 46 0.27 SIDE CHAIN REMARK 500 6 ARG A 49 0.28 SIDE CHAIN REMARK 500 6 ARG A 56 0.32 SIDE CHAIN REMARK 500 6 ARG A 66 0.20 SIDE CHAIN REMARK 500 7 ARG A 22 0.20 SIDE CHAIN REMARK 500 7 ARG A 40 0.18 SIDE CHAIN REMARK 500 7 ARG A 46 0.31 SIDE CHAIN REMARK 500 7 ARG A 49 0.29 SIDE CHAIN REMARK 500 7 ARG A 56 0.27 SIDE CHAIN REMARK 500 7 ARG A 66 0.14 SIDE CHAIN REMARK 500 8 ARG A 22 0.26 SIDE CHAIN REMARK 500 8 ARG A 40 0.32 SIDE CHAIN REMARK 500 8 ARG A 46 0.32 SIDE CHAIN REMARK 500 8 ARG A 49 0.30 SIDE CHAIN REMARK 500 8 ARG A 56 0.31 SIDE CHAIN REMARK 500 8 ARG A 66 0.28 SIDE CHAIN REMARK 500 9 ARG A 22 0.15 SIDE CHAIN REMARK 500 9 ARG A 40 0.20 SIDE CHAIN REMARK 500 9 ARG A 46 0.26 SIDE CHAIN REMARK 500 REMARK 500 THIS ENTRY HAS 117 PLANE DEVIATIONS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 17963 RELATED DB: BMRB DBREF 2LJV A 1 68 UNP P30403 VMRH_AGKRH 408 475 SEQADV 2LJV LEU A 50 UNP P30403 GLY 457 ENGINEERED MUTATION SEQRES 1 A 68 GLY LYS GLU CYS ASP CYS SER SER PRO GLU ASN PRO CYS SEQRES 2 A 68 CYS ASP ALA ALA THR CYS LYS LEU ARG PRO GLY ALA GLN SEQRES 3 A 68 CYS GLY GLU GLY LEU CYS CYS GLU GLN CYS LYS PHE SER SEQRES 4 A 68 ARG ALA GLY LYS ILE CYS ARG ILE PRO ARG LEU ASP MET SEQRES 5 A 68 PRO ASP ASP ARG CYS THR GLY GLN SER ALA ASP CYS PRO SEQRES 6 A 68 ARG TYR HIS SHEET 1 A 2 CYS A 14 ASP A 15 0 SHEET 2 A 2 LYS A 20 LEU A 21 -1 O LYS A 20 N ASP A 15 SHEET 1 B 2 CYS A 33 GLU A 34 0 SHEET 2 B 2 LYS A 37 PHE A 38 -1 O LYS A 37 N GLU A 34 SHEET 1 C 2 LYS A 43 ARG A 46 0 SHEET 2 C 2 ASP A 55 CYS A 57 -1 O CYS A 57 N LYS A 43 SSBOND 1 CYS A 4 CYS A 19 1555 1555 2.02 SSBOND 2 CYS A 6 CYS A 14 1555 1555 2.02 SSBOND 3 CYS A 13 CYS A 36 1555 1555 2.02 SSBOND 4 CYS A 27 CYS A 33 1555 1555 2.01 SSBOND 5 CYS A 32 CYS A 57 1555 1555 2.02 SSBOND 6 CYS A 45 CYS A 64 1555 1555 2.02 CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 P 1 1 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 1.000000 0.000000 0.000000 0.00000 SCALE2 0.000000 1.000000 0.000000 0.00000 SCALE3 0.000000 0.000000 1.000000 0.00000 MODEL 1