HEADER TOXIN 11-JUN-25 9RIT TITLE CO-CRYSTAL OF BROADLY NEUTRALIZING BIPARATOPIC VHH IN COMPLEX WITH TITLE 2 CARDIOTOXIN (P01468) NAJA PALLIDA COMPND MOL_ID: 1; COMPND 2 MOLECULE: VARIABLE DOMAIN OF HEAVY-CHAIN ONLY ANTIBODY (VHH); COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES; COMPND 5 OTHER_DETAILS: PROTEIN. VARIABLE DOMAIN OF HEAVY-CHAIN ONLY ANTIBODY COMPND 6 (VHH); COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: CYTOTOXIN 1; COMPND 9 CHAIN: C, D; COMPND 10 SYNONYM: CTX-1,CARDIOTOXIN GAMMA; COMPND 11 OTHER_DETAILS: CYTOTOXIN 1 SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: VICUGNA PACOS; SOURCE 3 ORGANISM_TAXID: 30538; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 6 MOL_ID: 2; SOURCE 7 ORGANISM_SCIENTIFIC: NAJA PALLIDA; SOURCE 8 ORGANISM_COMMON: RED SPITTING COBRA; SOURCE 9 ORGANISM_TAXID: 8658 KEYWDS NANOBODY, VHH, ANTIBODY, TOXIN, SNAKE TOXIN, SNAKE VENOM, KEYWDS 2 NEUTRALIZING, CYTOTOXIN, BIPARATOPIC EXPDTA X-RAY DIFFRACTION AUTHOR N.J.BURLET,A.H.LAUSTSEN,J.P.MORTH REVDAT 3 03-DEC-25 9RIT 1 JRNL REVDAT 2 12-NOV-25 9RIT 1 JRNL REVDAT 1 05-NOV-25 9RIT 0 JRNL AUTH S.AHMADI,N.J.BURLET,M.BENARD-VALLE,A.GUADARRAMA-MARTINEZ, JRNL AUTH 2 S.KERWIN,I.A.CARDOSO,A.E.MARRIOTT,R.J.EDGE,E.CRITTENDEN, JRNL AUTH 3 E.NERI-CASTRO,M.L.FERNANDEZ-QUINTERO,G.T.T.NGUYEN,C.O'BRIEN, JRNL AUTH 4 Y.WOUTERS,K.KALOGEROPOULOS,S.THUMTECHO,T.W.EBERSOLE, JRNL AUTH 5 C.H.DAHL,E.U.GLEGG-SORENSEN,T.JANSEN,K.BODDUM,E.MANOUSAKI, JRNL AUTH 6 E.RIVERA-DE-TORRE,A.B.WARD,J.P.MORTH,A.ALAGON,S.P.MACKESSY, JRNL AUTH 7 S.AINSWORTH,S.K.MENZIES,N.R.CASEWELL,T.P.JENKINS,A.LJUNGARS, JRNL AUTH 8 A.H.LAUSTSEN JRNL TITL NANOBODY-BASED RECOMBINANT ANTIVENOM FOR COBRA, MAMBA AND JRNL TITL 2 RINKHALS BITES. JRNL REF NATURE V. 647 716 2025 JRNL REFN ESSN 1476-4687 JRNL PMID 41162699 JRNL DOI 10.1038/S41586-025-09661-0 REMARK 2 REMARK 2 RESOLUTION. 1.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.20.1_4487 REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : GEOSTD + MONOMER LIBRARY + CDL V1.2 REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 51.26 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 95.8 REMARK 3 NUMBER OF REFLECTIONS : 42821 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.224 REMARK 3 R VALUE (WORKING SET) : 0.222 REMARK 3 FREE R VALUE : 0.258 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.990 REMARK 3 FREE R VALUE TEST SET COUNT : 2138 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 51.2600 - 3.9400 0.96 2930 154 0.1854 0.2168 REMARK 3 2 3.9400 - 3.1300 0.99 2850 149 0.1955 0.2222 REMARK 3 3 3.1300 - 2.7300 0.99 2827 147 0.2176 0.2298 REMARK 3 4 2.7300 - 2.4800 0.99 2816 148 0.2256 0.2348 REMARK 3 5 2.4800 - 2.3100 0.98 2756 145 0.2266 0.2692 REMARK 3 6 2.3100 - 2.1700 0.89 2519 133 0.2125 0.2863 REMARK 3 7 2.1700 - 2.0600 0.97 2722 144 0.2256 0.2741 REMARK 3 8 2.0600 - 1.9700 0.97 2722 143 0.2288 0.2831 REMARK 3 9 1.9700 - 1.9000 0.98 2726 144 0.2404 0.2992 REMARK 3 10 1.9000 - 1.8300 0.97 2702 142 0.2515 0.3037 REMARK 3 11 1.8300 - 1.7700 0.95 2665 140 0.2696 0.3099 REMARK 3 12 1.7700 - 1.7200 0.97 2711 143 0.2737 0.3153 REMARK 3 13 1.7200 - 1.6800 0.97 2693 141 0.2873 0.3567 REMARK 3 14 1.6800 - 1.6400 0.93 2605 138 0.3076 0.3605 REMARK 3 15 1.6400 - 1.6000 0.88 2439 127 0.3198 0.3356 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.10 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.212 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 28.648 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 16.63 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 20.98 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 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.008 2865 REMARK 3 ANGLE : 1.128 3867 REMARK 3 CHIRALITY : 0.060 404 REMARK 3 PLANARITY : 0.008 499 REMARK 3 DIHEDRAL : 6.348 395 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : 2 REMARK 3 NCS GROUP : ens_1 REMARK 3 NCS OPERATOR : 1 REMARK 3 REFERENCE SELECTION: NULL REMARK 3 SELECTION : (chain "A" and (resid 1 through 6 or REMARK 3 resid 8 through 44 or resid 46 through REMARK 3 118)) REMARK 3 ATOM PAIRS NUMBER : NULL REMARK 3 RMSD : NULL REMARK 3 NCS OPERATOR : 2 REMARK 3 REFERENCE SELECTION: NULL REMARK 3 SELECTION : (chain "B" and (resid 1 through 6 or REMARK 3 resid 8 through 44 or resid 46 through REMARK 3 118)) REMARK 3 ATOM PAIRS NUMBER : NULL REMARK 3 RMSD : NULL REMARK 3 NCS GROUP : ens_2 REMARK 3 NCS OPERATOR : 1 REMARK 3 REFERENCE SELECTION: NULL REMARK 3 SELECTION : (chain "C" and (resid 1 through 12 or REMARK 3 resid 14 through 60)) REMARK 3 ATOM PAIRS NUMBER : NULL REMARK 3 RMSD : NULL REMARK 3 NCS OPERATOR : 2 REMARK 3 REFERENCE SELECTION: NULL REMARK 3 SELECTION : (chain "D" and (resid 1 through 12 or REMARK 3 resid 14 through 60)) REMARK 3 ATOM PAIRS NUMBER : NULL REMARK 3 RMSD : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 9RIT COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 11-JUN-25. REMARK 100 THE DEPOSITION ID IS D_1292148382. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 24-OCT-24 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : MAX IV REMARK 200 BEAMLINE : BIOMAX REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.976200 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 : 42821 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.600 REMARK 200 RESOLUTION RANGE LOW (A) : 51.260 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 95.9 REMARK 200 DATA REDUNDANCY : 7.900 REMARK 200 R MERGE (I) : 0.13000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 9.4900 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.70 REMARK 200 COMPLETENESS FOR SHELL (%) : 89.6 REMARK 200 DATA REDUNDANCY IN SHELL : 6.30 REMARK 200 R MERGE FOR SHELL (I) : 0.90000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.470 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 38.24 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.98 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2M AMMONIUM ACETATE, 0.1M SODIUM REMARK 280 ACETATE, PH 4.6, 30% W/V PEG 4000. 25% (V/V) GLYCEROL AS REMARK 280 CRYOPROTECTION., VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 2 2 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -X,Y,-Z+1/2 REMARK 290 4555 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 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 71.50700 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 71.50700 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 0.00000 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: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC 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 350 APPLY THE FOLLOWING TO CHAINS: B REMARK 350 BIOMT1 2 1.000000 0.000000 0.000000 -41.94300 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH D 232 LIES ON A SPECIAL POSITION. 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 SER A 119 REMARK 465 GLU A 120 REMARK 465 ASN A 121 REMARK 465 LEU A 122 REMARK 465 TYR A 123 REMARK 465 PHE A 124 REMARK 465 GLN A 125 REMARK 465 SER B 119 REMARK 465 GLU B 120 REMARK 465 ASN B 121 REMARK 465 LEU B 122 REMARK 465 TYR B 123 REMARK 465 PHE B 124 REMARK 465 GLN B 125 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 HOH B 312 O HOH B 387 2.02 REMARK 500 OE1 GLN B 3 O HOH B 301 2.02 REMARK 500 O HOH A 331 O HOH A 387 2.06 REMARK 500 OE1 GLN A 3 O HOH A 301 2.13 REMARK 500 OE1 GLU B 101 O HOH B 302 2.14 REMARK 500 OE1 GLN A 111 O HOH A 302 2.16 REMARK 500 O HOH A 317 O HOH A 370 2.17 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 OG SER A 7 OG SER A 7 4555 1.69 REMARK 500 NZ LYS A 84 OE1 GLN B 1 1455 1.95 REMARK 500 O HOH B 386 O HOH C 108 1545 2.17 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 GLN A 1 CA - C - N ANGL. DEV. = -14.1 DEGREES REMARK 500 LEU C 20 CA - CB - CG ANGL. DEV. = 16.6 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 ASN C 55 43.80 -140.44 REMARK 500 ASN D 55 40.15 -140.09 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 396 DISTANCE = 6.03 ANGSTROMS DBREF 9RIT A 1 125 PDB 9RIT 9RIT 1 125 DBREF 9RIT B 1 125 PDB 9RIT 9RIT 1 125 DBREF 9RIT C 1 60 UNP P01468 3SA1_NAJPA 1 60 DBREF 9RIT D 1 60 UNP P01468 3SA1_NAJPA 1 60 SEQRES 1 A 125 GLN VAL GLN LEU GLN GLU SER GLY GLY GLY LEU VAL GLN SEQRES 2 A 125 ALA GLY GLY SER LEU ARG LEU SER CYS ALA ALA SER GLY SEQRES 3 A 125 ARG THR PHE SER SER TYR ALA MET ALA TRP PHE ARG GLN SEQRES 4 A 125 ALA PRO GLY LYS GLU ARG GLU PHE VAL ALA SER ILE SER SEQRES 5 A 125 TRP ASN GLY ASP SER THR TYR TYR ALA ASP SER VAL LYS SEQRES 6 A 125 GLY ARG PHE THR ILE SER GLY ASP ASN ALA LYS ASN THR SEQRES 7 A 125 TRP TYR LEU GLN MET LYS SER LEU LYS PRO GLU ASP THR SEQRES 8 A 125 ALA VAL TYR TYR CYS ASN THR GLU ASP GLU GLY SER GLY SEQRES 9 A 125 THR TYR TYR GLU TRP GLY GLN GLY THR GLN VAL THR VAL SEQRES 10 A 125 SER SER GLU ASN LEU TYR PHE GLN SEQRES 1 B 125 GLN VAL GLN LEU GLN GLU SER GLY GLY GLY LEU VAL GLN SEQRES 2 B 125 ALA GLY GLY SER LEU ARG LEU SER CYS ALA ALA SER GLY SEQRES 3 B 125 ARG THR PHE SER SER TYR ALA MET ALA TRP PHE ARG GLN SEQRES 4 B 125 ALA PRO GLY LYS GLU ARG GLU PHE VAL ALA SER ILE SER SEQRES 5 B 125 TRP ASN GLY ASP SER THR TYR TYR ALA ASP SER VAL LYS SEQRES 6 B 125 GLY ARG PHE THR ILE SER GLY ASP ASN ALA LYS ASN THR SEQRES 7 B 125 TRP TYR LEU GLN MET LYS SER LEU LYS PRO GLU ASP THR SEQRES 8 B 125 ALA VAL TYR TYR CYS ASN THR GLU ASP GLU GLY SER GLY SEQRES 9 B 125 THR TYR TYR GLU TRP GLY GLN GLY THR GLN VAL THR VAL SEQRES 10 B 125 SER SER GLU ASN LEU TYR PHE GLN SEQRES 1 C 60 LEU LYS CYS ASN GLN LEU ILE PRO PRO PHE TRP LYS THR SEQRES 2 C 60 CYS PRO LYS GLY LYS ASN LEU CYS TYR LYS MET THR MET SEQRES 3 C 60 ARG ALA ALA PRO MET VAL PRO VAL LYS ARG GLY CYS ILE SEQRES 4 C 60 ASP VAL CYS PRO LYS SER SER LEU LEU ILE LYS TYR MET SEQRES 5 C 60 CYS CYS ASN THR ASP LYS CYS ASN SEQRES 1 D 60 LEU LYS CYS ASN GLN LEU ILE PRO PRO PHE TRP LYS THR SEQRES 2 D 60 CYS PRO LYS GLY LYS ASN LEU CYS TYR LYS MET THR MET SEQRES 3 D 60 ARG ALA ALA PRO MET VAL PRO VAL LYS ARG GLY CYS ILE SEQRES 4 D 60 ASP VAL CYS PRO LYS SER SER LEU LEU ILE LYS TYR MET SEQRES 5 D 60 CYS CYS ASN THR ASP LYS CYS ASN HET ACT A 201 7 HET ACT A 202 7 HET ACT B 201 7 HET ACT B 202 7 HET ACT B 203 7 HET ACT D 101 7 HETNAM ACT ACETATE ION FORMUL 5 ACT 6(C2 H3 O2 1-) FORMUL 11 HOH *270(H2 O) HELIX 1 AA1 LYS A 87 THR A 91 5 5 HELIX 2 AA2 LYS B 87 THR B 91 5 5 SHEET 1 AA1 4 VAL A 2 SER A 7 0 SHEET 2 AA1 4 LEU A 18 GLY A 26 -1 O ALA A 23 N GLN A 5 SHEET 3 AA1 4 THR A 78 MET A 83 -1 O MET A 83 N LEU A 18 SHEET 4 AA1 4 PHE A 68 ASP A 73 -1 N THR A 69 O GLN A 82 SHEET 1 AA2 6 GLY A 10 GLN A 13 0 SHEET 2 AA2 6 THR A 113 SER A 118 1 O SER A 118 N VAL A 12 SHEET 3 AA2 6 ALA A 92 ASN A 97 -1 N TYR A 94 O THR A 113 SHEET 4 AA2 6 ALA A 33 GLN A 39 -1 N PHE A 37 O TYR A 95 SHEET 5 AA2 6 GLU A 46 SER A 52 -1 O GLU A 46 N ARG A 38 SHEET 6 AA2 6 THR A 58 TYR A 60 -1 O TYR A 59 N SER A 50 SHEET 1 AA3 4 VAL B 2 SER B 7 0 SHEET 2 AA3 4 LEU B 18 GLY B 26 -1 O ALA B 23 N GLN B 5 SHEET 3 AA3 4 THR B 78 MET B 83 -1 O MET B 83 N LEU B 18 SHEET 4 AA3 4 PHE B 68 ASP B 73 -1 N SER B 71 O TYR B 80 SHEET 1 AA4 6 GLY B 10 GLN B 13 0 SHEET 2 AA4 6 THR B 113 SER B 118 1 O SER B 118 N VAL B 12 SHEET 3 AA4 6 ALA B 92 ASN B 97 -1 N TYR B 94 O THR B 113 SHEET 4 AA4 6 ALA B 33 GLN B 39 -1 N PHE B 37 O TYR B 95 SHEET 5 AA4 6 GLU B 46 SER B 52 -1 O GLU B 46 N ARG B 38 SHEET 6 AA4 6 THR B 58 TYR B 60 -1 O TYR B 59 N SER B 50 SHEET 1 AA5 2 LYS C 2 ASN C 4 0 SHEET 2 AA5 2 TRP C 11 THR C 13 -1 O LYS C 12 N CYS C 3 SHEET 1 AA6 3 ALA C 29 ILE C 39 0 SHEET 2 AA6 3 LEU C 20 MET C 26 -1 N MET C 24 O LYS C 35 SHEET 3 AA6 3 ILE C 49 CYS C 54 -1 O CYS C 54 N CYS C 21 SHEET 1 AA7 2 LYS D 2 ASN D 4 0 SHEET 2 AA7 2 TRP D 11 THR D 13 -1 O LYS D 12 N CYS D 3 SHEET 1 AA8 3 ALA D 29 ILE D 39 0 SHEET 2 AA8 3 LEU D 20 MET D 26 -1 N MET D 24 O VAL D 34 SHEET 3 AA8 3 ILE D 49 CYS D 54 -1 O CYS D 54 N CYS D 21 SSBOND 1 CYS A 22 CYS A 96 1555 1555 2.02 SSBOND 2 CYS B 22 CYS B 96 1555 1555 2.03 SSBOND 3 CYS C 3 CYS C 21 1555 1555 2.04 SSBOND 4 CYS C 14 CYS C 38 1555 1555 2.04 SSBOND 5 CYS C 42 CYS C 53 1555 1555 2.04 SSBOND 6 CYS C 54 CYS C 59 1555 1555 2.03 SSBOND 7 CYS D 3 CYS D 21 1555 1555 2.03 SSBOND 8 CYS D 14 CYS D 38 1555 1555 2.04 SSBOND 9 CYS D 42 CYS D 53 1555 1555 2.03 SSBOND 10 CYS D 54 CYS D 59 1555 1555 2.03 CISPEP 1 PRO C 8 PRO C 9 0 -0.69 CISPEP 2 PRO D 8 PRO D 9 0 -0.64 CRYST1 41.943 54.905 143.014 90.00 90.00 90.00 P 2 2 21 8 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 0.023842 0.000000 0.000000 0.00000 SCALE2 0.000000 0.018213 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006992 0.00000 MTRIX1 1 0.999983 0.003331 0.004745 21.00542 1 MTRIX2 1 -0.003111 0.998955 -0.045597 -27.72196 1 MTRIX3 1 -0.004892 0.045581 0.998949 -0.05938 1 MTRIX1 2 0.999986 -0.001814 -0.004991 -21.18129 1 MTRIX2 2 0.001707 0.999769 -0.021406 -27.03924 1 MTRIX3 2 0.005028 0.021397 0.999758 -0.03833 1 CONECT 151 753 CONECT 753 151 CONECT 1080 1671 CONECT 1671 1080 CONECT 1864 2016 CONECT 1965 2147 CONECT 2016 1864 CONECT 2147 1965 CONECT 2176 2263 CONECT 2263 2176 CONECT 2269 2307 CONECT 2307 2269 CONECT 2340 2485 CONECT 2434 2616 CONECT 2485 2340 CONECT 2616 2434 CONECT 2645 2732 CONECT 2732 2645 CONECT 2738 2776 CONECT 2776 2738 CONECT 2787 2788 2789 2790 CONECT 2788 2787 CONECT 2789 2787 CONECT 2790 2787 2791 2792 2793 CONECT 2791 2790 CONECT 2792 2790 CONECT 2793 2790 CONECT 2794 2795 2796 2797 CONECT 2795 2794 CONECT 2796 2794 CONECT 2797 2794 2798 2799 2800 CONECT 2798 2797 CONECT 2799 2797 CONECT 2800 2797 CONECT 2801 2802 2803 2804 CONECT 2802 2801 CONECT 2803 2801 CONECT 2804 2801 2805 2806 2807 CONECT 2805 2804 CONECT 2806 2804 CONECT 2807 2804 CONECT 2808 2809 2810 2811 CONECT 2809 2808 CONECT 2810 2808 CONECT 2811 2808 2812 2813 2814 CONECT 2812 2811 CONECT 2813 2811 CONECT 2814 2811 CONECT 2815 2816 2817 2818 CONECT 2816 2815 CONECT 2817 2815 CONECT 2818 2815 2819 2820 2821 CONECT 2819 2818 CONECT 2820 2818 CONECT 2821 2818 CONECT 2822 2823 2824 2825 CONECT 2823 2822 CONECT 2824 2822 CONECT 2825 2822 2826 2827 2828 CONECT 2826 2825 CONECT 2827 2825 CONECT 2828 2825 MASTER 359 0 6 2 30 0 0 12 3052 4 62 30 END