HEADER HYDROLASE 18-APR-13 2M75 TITLE THE C-TERMINAL REGION OF DISINTEGRIN MODULATE ITS 3D CONFORMATION AND TITLE 2 COOPERATE WITH RGD LOOP IN REGULATING RECOGNITIONS OF INTEGRINS COMPND MOL_ID: 1; COMPND 2 MOLECULE: ZINC METALLOPROTEINASE/DISINTEGRIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 408-475; COMPND 5 SYNONYM: SNAKE VENOM METALLOPROTEINASE RHODOSTOXIN, SVMP, HEMORRHAGIC COMPND 6 PROTEIN, DISINTEGRIN RHODOSTOMIN, RHO, DISINTEGRIN KISTRIN, PLATELET COMPND 7 AGGREGATION ACTIVATION INHIBITOR; COMPND 8 EC: 3.4.24.-; COMPND 9 ENGINEERED: YES; COMPND 10 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: KOMAGATAELLA PASTORIS; SOURCE 7 EXPRESSION_SYSTEM_COMMON: PICHIA PASTORIS; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 4922; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: VECTOR; SOURCE 10 EXPRESSION_SYSTEM_VECTOR: PPICZ ALPHA A KEYWDS RHODOSTOMIN MUTANT PROTEIN, HYDROLASE EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR W.CHUANG,Y.CHANG,J.SHIU REVDAT 1 22-MAY-13 2M75 0 JRNL AUTH W.CHUANG,Y.CHANG,J.SHIU,C.CHEN,Y.CHEN JRNL TITL THE C-TERMINAL REGION OF DISINTEGRIN MODULATE ITS 3D JRNL TITL 2 CONFORMATION AND COOPERATE WITH RGD LOOP IN REGULATING JRNL TITL 3 RECOGNITIONS OF INTEGRINS JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR 3.185 REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2M75 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 02-MAY-13. REMARK 100 THE RCSB ID CODE IS RCSB103293. 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 P48A/M52W/P53N REMARK 210 MUTANT-1, 90% H2O/10% D2O; 2 MM REMARK 210 RHODOSTOMIN P48A/M52W/P53N MUTANT REMARK 210 -2, 100% D2O; 2 MM [U-15N] REMARK 210 RHODOSTOMIN P48A/M52W/P53N MUTANT REMARK 210 -3, 90% H2O/10% D2O; 2 MM [U-15N] REMARK 210 RHODOSTOMIN P48A/M52W/P53N MUTANT REMARK 210 -4, 100% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-1H NOESY; 2D 1H-1H TOCSY; REMARK 210 3D 1H-15N NOESY; 3D 1H-15N TOCSY; REMARK 210 3D HNHA; 2D 1H-15N HSQC 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 : XWINNMR 2.6, AURELIA 3.1.7 REMARK 210 METHOD USED : DISTANCE GEOMETRY REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 200 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LOWEST 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 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 465 SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 MODELS 1-20 REMARK 465 RES C SSSEQI REMARK 465 GLU A -7 REMARK 465 PHE A -6 REMARK 465 HIS A -5 REMARK 465 HIS A -4 REMARK 465 HIS A -3 REMARK 465 HIS A -2 REMARK 465 HIS A -1 REMARK 465 HIS A 0 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 CYS A 32 H SER A 39 1.57 REMARK 500 H ASP A 15 O LYS A 20 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 CYS A 19 35.19 33.74 REMARK 500 1 PRO A 23 -159.29 -78.59 REMARK 500 1 SER A 39 -134.38 -61.24 REMARK 500 1 ILE A 44 78.93 -60.24 REMARK 500 1 ASP A 51 58.62 -167.03 REMARK 500 1 TYR A 67 -42.70 -140.33 REMARK 500 2 CYS A 32 46.20 -104.64 REMARK 500 2 SER A 39 -159.41 -63.39 REMARK 500 2 ARG A 46 117.32 -160.57 REMARK 500 2 ASP A 51 -17.45 78.84 REMARK 500 2 TRP A 52 -166.30 -106.10 REMARK 500 2 ASP A 55 89.53 -68.41 REMARK 500 3 LEU A 21 178.40 -51.59 REMARK 500 3 ARG A 22 -66.80 -141.86 REMARK 500 3 PRO A 23 -159.90 -72.46 REMARK 500 3 ASP A 51 42.85 -156.80 REMARK 500 4 CYS A 32 41.06 -92.40 REMARK 500 4 SER A 39 -163.78 -60.22 REMARK 500 4 ILE A 44 97.53 -63.10 REMARK 500 4 ASP A 54 142.50 -37.85 REMARK 500 4 TYR A 67 -60.12 -155.61 REMARK 500 5 CYS A 19 19.63 80.61 REMARK 500 5 PRO A 23 -161.76 -79.72 REMARK 500 5 SER A 39 -141.76 -62.46 REMARK 500 5 ILE A 44 82.01 -57.72 REMARK 500 5 ASP A 51 -27.95 77.55 REMARK 500 5 TYR A 67 20.83 -140.88 REMARK 500 6 CYS A 19 39.13 32.22 REMARK 500 6 PRO A 23 -159.32 -78.99 REMARK 500 6 ILE A 44 79.95 -58.27 REMARK 500 6 ASP A 51 44.18 -155.44 REMARK 500 7 LYS A 2 62.16 -114.07 REMARK 500 7 CYS A 19 29.27 36.49 REMARK 500 7 LYS A 20 -111.02 -117.26 REMARK 500 7 CYS A 32 58.16 -97.95 REMARK 500 7 GLN A 35 30.17 71.61 REMARK 500 7 SER A 39 -154.24 -60.53 REMARK 500 7 ILE A 44 83.24 -56.96 REMARK 500 7 ASP A 51 43.06 -154.87 REMARK 500 7 PRO A 65 -160.11 -78.75 REMARK 500 7 ARG A 66 -166.31 -121.33 REMARK 500 7 TYR A 67 -44.07 -155.85 REMARK 500 8 PRO A 23 -162.43 -77.43 REMARK 500 8 CYS A 32 49.30 -97.36 REMARK 500 8 SER A 39 -160.29 -59.65 REMARK 500 8 ASP A 51 40.06 -151.68 REMARK 500 9 LYS A 2 -170.43 -54.88 REMARK 500 9 CYS A 19 35.55 31.60 REMARK 500 9 PRO A 23 -160.03 -77.60 REMARK 500 9 CYS A 32 45.04 -93.54 REMARK 500 REMARK 500 THIS ENTRY HAS 131 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 0.13 SIDE CHAIN REMARK 500 1 ARG A 40 0.31 SIDE CHAIN REMARK 500 1 ARG A 46 0.29 SIDE CHAIN REMARK 500 1 ARG A 49 0.18 SIDE CHAIN REMARK 500 1 ARG A 56 0.30 SIDE CHAIN REMARK 500 1 ARG A 66 0.11 SIDE CHAIN REMARK 500 2 ARG A 22 0.29 SIDE CHAIN REMARK 500 2 ARG A 40 0.32 SIDE CHAIN REMARK 500 2 ARG A 46 0.32 SIDE CHAIN REMARK 500 2 ARG A 49 0.16 SIDE CHAIN REMARK 500 2 ARG A 56 0.32 SIDE CHAIN REMARK 500 2 ARG A 66 0.14 SIDE CHAIN REMARK 500 3 ARG A 22 0.29 SIDE CHAIN REMARK 500 3 ARG A 40 0.32 SIDE CHAIN REMARK 500 3 ARG A 46 0.32 SIDE CHAIN REMARK 500 3 ARG A 49 0.23 SIDE CHAIN REMARK 500 3 ARG A 56 0.28 SIDE CHAIN REMARK 500 3 ARG A 66 0.32 SIDE CHAIN REMARK 500 4 ARG A 22 0.28 SIDE CHAIN REMARK 500 4 ARG A 40 0.32 SIDE CHAIN REMARK 500 4 ARG A 46 0.32 SIDE CHAIN REMARK 500 4 ARG A 49 0.31 SIDE CHAIN REMARK 500 4 ARG A 56 0.29 SIDE CHAIN REMARK 500 4 ARG A 66 0.31 SIDE CHAIN REMARK 500 5 ARG A 22 0.31 SIDE CHAIN REMARK 500 5 ARG A 40 0.31 SIDE CHAIN REMARK 500 5 ARG A 46 0.30 SIDE CHAIN REMARK 500 5 ARG A 49 0.27 SIDE CHAIN REMARK 500 5 ARG A 66 0.17 SIDE CHAIN REMARK 500 6 ARG A 40 0.26 SIDE CHAIN REMARK 500 6 ARG A 46 0.16 SIDE CHAIN REMARK 500 6 ARG A 49 0.32 SIDE CHAIN REMARK 500 6 ARG A 56 0.08 SIDE CHAIN REMARK 500 6 ARG A 66 0.28 SIDE CHAIN REMARK 500 7 ARG A 22 0.20 SIDE CHAIN REMARK 500 7 ARG A 40 0.21 SIDE CHAIN REMARK 500 7 ARG A 46 0.27 SIDE CHAIN REMARK 500 7 ARG A 49 0.24 SIDE CHAIN REMARK 500 7 ARG A 56 0.24 SIDE CHAIN REMARK 500 7 ARG A 66 0.32 SIDE CHAIN REMARK 500 8 ARG A 22 0.27 SIDE CHAIN REMARK 500 8 ARG A 40 0.19 SIDE CHAIN REMARK 500 8 ARG A 46 0.24 SIDE CHAIN REMARK 500 8 ARG A 49 0.24 SIDE CHAIN REMARK 500 8 ARG A 56 0.19 SIDE CHAIN REMARK 500 8 ARG A 66 0.32 SIDE CHAIN REMARK 500 9 ARG A 22 0.28 SIDE CHAIN REMARK 500 9 ARG A 40 0.31 SIDE CHAIN REMARK 500 9 ARG A 46 0.16 SIDE CHAIN REMARK 500 9 ARG A 49 0.32 SIDE CHAIN REMARK 500 REMARK 500 THIS ENTRY HAS 115 PLANE DEVIATIONS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 19210 RELATED DB: BMRB REMARK 900 RELATED ID: 2PJI RELATED DB: PDB REMARK 900 RELATED ID: 2M7F RELATED DB: PDB REMARK 900 RELATED ID: 2M7H RELATED DB: PDB DBREF 2M75 A 1 68 UNP P30403 VM2RH_CALRH 408 475 SEQADV 2M75 GLU A -7 UNP P30403 EXPRESSION TAG SEQADV 2M75 PHE A -6 UNP P30403 EXPRESSION TAG SEQADV 2M75 HIS A -5 UNP P30403 EXPRESSION TAG SEQADV 2M75 HIS A -4 UNP P30403 EXPRESSION TAG SEQADV 2M75 HIS A -3 UNP P30403 EXPRESSION TAG SEQADV 2M75 HIS A -2 UNP P30403 EXPRESSION TAG SEQADV 2M75 HIS A -1 UNP P30403 EXPRESSION TAG SEQADV 2M75 HIS A 0 UNP P30403 EXPRESSION TAG SEQADV 2M75 ALA A 48 UNP P30403 PRO 455 ENGINEERED MUTATION SEQADV 2M75 TRP A 52 UNP P30403 MET 459 ENGINEERED MUTATION SEQADV 2M75 ASN A 53 UNP P30403 PRO 460 ENGINEERED MUTATION SEQRES 1 A 76 GLU PHE HIS HIS HIS HIS HIS HIS GLY LYS GLU CYS ASP SEQRES 2 A 76 CYS SER SER PRO GLU ASN PRO CYS CYS ASP ALA ALA THR SEQRES 3 A 76 CYS LYS LEU ARG PRO GLY ALA GLN CYS GLY GLU GLY LEU SEQRES 4 A 76 CYS CYS GLU GLN CYS LYS PHE SER ARG ALA GLY LYS ILE SEQRES 5 A 76 CYS ARG ILE ALA ARG GLY ASP TRP ASN ASP ASP ARG CYS SEQRES 6 A 76 THR GLY GLN SER ALA ASP CYS PRO 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 ALA A 41 ARG A 46 0 SHEET 2 C 2 ASP A 55 THR A 58 -1 O CYS A 57 N GLY A 42 SSBOND 1 CYS A 4 CYS A 19 1555 1555 2.03 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 2.02 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 ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL MASTER 240 0 0 0 6 0 0 6 0 0 0 6 END