HEADER EXOCYTOSIS 01-JUN-21 7OPR TITLE RAB27A FUSION WITH SLP2A-RBDA1 EFFECTOR COVALENT ADDUCT WITH CB1 IN TITLE 2 C123 COMPND MOL_ID: 1; COMPND 2 MOLECULE: SYNAPTOTAGMIN-LIKE PROTEIN 2,RAS-RELATED PROTEIN RAB-27A; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: BREAST CANCER-ASSOCIATED ANTIGEN SGA-72M,EXOPHILIN-4,RAB-27, COMPND 5 GTP-BINDING PROTEIN RAM; COMPND 6 EC: 3.6.5.2; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES; COMPND 9 OTHER_DETAILS: THE LIGAND CB1 IS COVALENTLY BOUND TO CYSTEINE123. I COMPND 10 HAVE MODELLED THE LIGAND CB1 ALREADY COVALENTLY BOUND TO CYS123 INTO COMPND 11 THE PEPTIDE CHAIN, FOR THIS REASON THERE IS A MISMATCH IN THE COMPND 12 SEQUENCE. I AM NOT SURE HOW TO FIX THIS MISMATCH. I HOPE THIS COMPND 13 INFORMATION IS CLEAR.,THE LIGAND CB1 IS COVALENTLY BOUND TO COMPND 14 CYSTEINE123. I HAVE MODELLED THE LIGAND CB1 ALREADY COVALENTLY BOUND COMPND 15 TO CYS123 INTO THE PEPTIDE CHAIN, FOR THIS REASON THERE IS A MISMATCH COMPND 16 IN THE SEQUENCE. I AM NOT SURE HOW TO FIX THIS MISMATCH. I HOPE THIS COMPND 17 INFORMATION IS CLEAR. SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: SYTL2, KIAA1597, SGA72M, SLP2, SLP2A, RAB27A, RAB27; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 511693 KEYWDS GTPASE, EXOSOME, ACRYLAMIDE, CYSTEINE-REACTIVE, EXOCYTOSIS EXPDTA X-RAY DIFFRACTION AUTHOR M.JAMSHIDIHA,M.TERSA,T.LANYON-HOGG,I.PEREZ-DORADO,C.L.SUTHERELL,E.DE AUTHOR 2 VITA,R.M.L.MORGAN,E.W.TATE,E.COTA REVDAT 2 31-JAN-24 7OPR 1 REMARK REVDAT 1 06-APR-22 7OPR 0 JRNL AUTH M.JAMSHIDIHA,T.LANYON-HOGG,C.L.SUTHERELL,G.B.CRAVEN,M.TERSA, JRNL AUTH 2 E.DE VITA,D.BRUSTUR,I.PEREZ-DORADO,S.HASSAN,R.PETRACCA, JRNL AUTH 3 R.M.MORGAN,M.SANZ-HERNANDEZ,J.C.NORMAN,A.ARMSTRONG,D.J.MANN, JRNL AUTH 4 E.COTA,E.W.TATE JRNL TITL IDENTIFICATION OF THE FIRST STRUCTURALLY VALIDATED COVALENT JRNL TITL 2 LIGANDS OF THE SMALL GTPASE RAB27A. JRNL REF RSC MED CHEM V. 13 150 2022 JRNL REFN ESSN 2632-8682 JRNL PMID 35308027 JRNL DOI 10.1039/D1MD00225B REMARK 2 REMARK 2 RESOLUTION. 2.32 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.17_3644 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 : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.32 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 64.33 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 24885 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.186 REMARK 3 R VALUE (WORKING SET) : 0.183 REMARK 3 FREE R VALUE : 0.255 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.870 REMARK 3 FREE R VALUE TEST SET COUNT : 1212 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 5.5000 - 4.8200 0.99 2782 145 0.1884 0.2339 REMARK 3 2 4.8200 - 3.8300 1.00 2662 124 0.1459 0.1909 REMARK 3 3 3.8300 - 3.3400 1.00 2642 140 0.1728 0.2371 REMARK 3 4 3.3400 - 3.0400 1.00 2633 132 0.1855 0.3157 REMARK 3 5 3.0400 - 2.8200 1.00 2603 131 0.1997 0.2910 REMARK 3 6 2.8200 - 2.6500 1.00 2582 144 0.1991 0.2623 REMARK 3 7 2.6500 - 2.5200 1.00 2590 127 0.2171 0.3409 REMARK 3 8 2.5200 - 2.4100 1.00 2599 141 0.2210 0.3086 REMARK 3 9 2.4100 - 2.3200 1.00 2580 128 0.2101 0.2786 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 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) : 0.290 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 25.650 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 32.90 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 36.17 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 : NULL NULL REMARK 3 ANGLE : NULL NULL REMARK 3 CHIRALITY : NULL NULL REMARK 3 PLANARITY : NULL NULL REMARK 3 DIHEDRAL : NULL NULL 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 : 1 REMARK 3 NCS GROUP : 1 REMARK 3 NCS OPERATOR : 1 REMARK 3 REFERENCE SELECTION: (CHAIN A AND (RESID -37 THROUGH -32 OR REMARK 3 (RESID -31 AND (NAME N OR NAME CA OR NAME REMARK 3 C OR NAME O OR NAME CB )) OR RESID -30 REMARK 3 THROUGH -12 OR (RESID -11 AND (NAME N OR REMARK 3 NAME CA OR NAME C OR NAME O OR NAME CB )) REMARK 3 OR RESID -10 THROUGH -7 OR RESID 5 REMARK 3 THROUGH 34 OR RESID 36 THROUGH 49 OR REMARK 3 RESID 51 THROUGH 55 OR RESID 63 OR (RESID REMARK 3 64 AND (NAME N OR NAME CA OR NAME C OR REMARK 3 NAME O OR NAME CB )) OR RESID 65 THROUGH REMARK 3 89 OR RESID 91 THROUGH 110 OR RESID 112 REMARK 3 THROUGH 117 OR RESID 119 THROUGH 123 OR REMARK 3 (RESID 124 AND (NAME N OR NAME CA OR NAME REMARK 3 C OR NAME O OR NAME CB )) OR RESID 125 REMARK 3 THROUGH 138 OR RESID 140 THROUGH 145 OR REMARK 3 (RESID 146 AND (NAME N OR NAME CA OR NAME REMARK 3 C OR NAME O OR NAME CB )) OR RESID 147 REMARK 3 THROUGH 188 OR RESID 194 THROUGH 401)) REMARK 3 SELECTION : (CHAIN B AND (RESID -37 THROUGH 34 OR REMARK 3 RESID 36 THROUGH 49 OR RESID 51 THROUGH REMARK 3 89 OR RESID 91 THROUGH 110 OR RESID 112 REMARK 3 THROUGH 117 OR RESID 119 THROUGH 138 OR REMARK 3 RESID 140 THROUGH 188 OR RESID 194 REMARK 3 THROUGH 501)) REMARK 3 ATOM PAIRS NUMBER : 1194 REMARK 3 RMSD : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 7OPR COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 03-JUN-21. REMARK 100 THE DEPOSITION ID IS D_1292109132. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 17-JUL-17 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I04 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9795 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DIALS REMARK 200 DATA SCALING SOFTWARE : XIA2 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 49537 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.320 REMARK 200 RESOLUTION RANGE LOW (A) : 64.330 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 2.000 REMARK 200 R MERGE (I) : 0.05896 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 9.7700 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.32 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.40 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.7 REMARK 200 DATA REDUNDANCY IN SHELL : 2.00 REMARK 200 R MERGE FOR SHELL (I) : 0.32540 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.230 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: 3BC1 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.28 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.69 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.15M AMMONIUM SULPHATE, 0.1M MES PH REMARK 280 6.0, 15% W/V PEG 4000, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 277.15K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-Y+1/2,-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 30.69250 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 59.12150 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 38.33150 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 59.12150 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 30.69250 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 38.33150 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 7290 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 19240 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -47.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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. (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 GLY A -4 REMARK 465 SER A -3 REMARK 465 GLY A -2 REMARK 465 SER A -1 REMARK 465 GLY A 0 REMARK 465 MET A 1 REMARK 465 SER A 2 REMARK 465 VAL A 189 REMARK 465 ASP A 190 REMARK 465 LYS A 191 REMARK 465 SER A 192 REMARK 465 SER B -5 REMARK 465 GLY B -4 REMARK 465 SER B -3 REMARK 465 GLY B -2 REMARK 465 SER B -1 REMARK 465 GLY B 0 REMARK 465 MET B 1 REMARK 465 SER B 2 REMARK 465 ASP B 3 REMARK 465 GLY B 4 REMARK 465 SER B 56 REMARK 465 GLY B 57 REMARK 465 PRO B 58 REMARK 465 ASP B 59 REMARK 465 GLY B 60 REMARK 465 ALA B 61 REMARK 465 THR B 62 REMARK 465 VAL B 189 REMARK 465 ASP B 190 REMARK 465 LYS B 191 REMARK 465 SER B 192 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 GLU A -27 CG CD OE1 OE2 REMARK 470 GLU A -9 CG CD OE1 OE2 REMARK 470 ARG A -8 CG CD NE CZ NH1 NH2 REMARK 470 ASP A 3 CG OD1 OD2 REMARK 470 GLU B -31 CG CD OE1 OE2 REMARK 470 GLU B -27 CG CD OE1 OE2 REMARK 470 GLU B -11 CG CD OE1 OE2 REMARK 470 GLU B -9 CG CD OE1 OE2 REMARK 470 ARG B -8 CG CD NE CZ NH1 NH2 REMARK 470 ARG B 64 CG CD NE CZ NH1 NH2 REMARK 470 GLU B 124 CG CD OE1 OE2 REMARK 470 GLU B 146 CG CD OE1 OE2 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 A 325 O HOH A 371 2.14 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 TYR A 122 O - C - N ANGL. DEV. = -17.4 DEGREES REMARK 500 CYS B 123 C - N - CA ANGL. DEV. = 33.7 DEGREES REMARK 500 CYS B 123 O - C - N ANGL. DEV. = -18.3 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 ASP A 59 27.47 -147.26 REMARK 500 ASP A 59 27.47 -146.81 REMARK 500 LYS A 134 38.13 71.33 REMARK 500 ARG A 187 48.46 -80.94 REMARK 500 CYS B 123 102.37 -176.54 REMARK 500 LYS B 134 40.30 70.48 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 TYR B 122 CYS B 123 -91.19 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 TYR A 122 -27.76 REMARK 500 CYS B 123 27.46 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 443 DISTANCE = 6.28 ANGSTROMS REMARK 525 HOH A 444 DISTANCE = 6.62 ANGSTROMS REMARK 525 HOH A 445 DISTANCE = 6.72 ANGSTROMS REMARK 525 HOH A 446 DISTANCE = 8.32 ANGSTROMS REMARK 525 HOH A 447 DISTANCE = 9.90 ANGSTROMS REMARK 525 HOH B 394 DISTANCE = 6.70 ANGSTROMS REMARK 525 HOH B 395 DISTANCE = 6.97 ANGSTROMS REMARK 525 HOH B 396 DISTANCE = 7.08 ANGSTROMS REMARK 525 HOH B 397 DISTANCE = 7.26 ANGSTROMS REMARK 525 HOH B 398 DISTANCE = 8.20 ANGSTROMS REMARK 525 HOH B 399 DISTANCE = 8.41 ANGSTROMS REMARK 525 HOH B 400 DISTANCE = 9.81 ANGSTROMS REMARK 525 HOH B 401 DISTANCE = 12.67 ANGSTROMS REMARK 615 REMARK 615 ZERO OCCUPANCY ATOM REMARK 615 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 615 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 615 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 615 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 615 M RES C SSEQI REMARK 615 05Y A 210 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 MG A 202 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 THR A 23 OG1 REMARK 620 2 THR A 41 OG1 83.2 REMARK 620 3 GNP A 201 O3G 170.2 92.4 REMARK 620 4 GNP A 201 O2B 91.6 169.6 91.4 REMARK 620 5 HOH A 326 O 93.7 95.7 95.5 93.6 REMARK 620 6 HOH A 341 O 84.5 85.0 86.3 85.5 178.0 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 202 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 THR B 23 OG1 REMARK 620 2 THR B 41 OG1 80.2 REMARK 620 3 GNP B 201 O3G 177.6 100.7 REMARK 620 4 GNP B 201 O2B 90.2 170.4 88.9 REMARK 620 5 HOH B 321 O 87.3 93.9 90.4 86.0 REMARK 620 6 HOH B 338 O 87.7 94.2 94.4 85.0 169.6 REMARK 620 N 1 2 3 4 5 DBREF 7OPR A -35 -8 UNP Q9HCH5 SYTL2_HUMAN 5 32 DBREF 7OPR A 1 192 UNP P51159 RB27A_HUMAN 1 192 DBREF 7OPR B -35 -8 UNP Q9HCH5 SYTL2_HUMAN 5 32 DBREF 7OPR B 1 192 UNP P51159 RB27A_HUMAN 1 192 SEQADV 7OPR HIS A -37 UNP Q9HCH5 EXPRESSION TAG SEQADV 7OPR MET A -36 UNP Q9HCH5 EXPRESSION TAG SEQADV 7OPR GLY A -7 UNP Q9HCH5 LINKER SEQADV 7OPR SER A -6 UNP Q9HCH5 LINKER SEQADV 7OPR GLY A -4 UNP Q9HCH5 LINKER SEQADV 7OPR SER A -3 UNP Q9HCH5 LINKER SEQADV 7OPR GLY A -2 UNP Q9HCH5 LINKER SEQADV 7OPR SER A -1 UNP Q9HCH5 LINKER SEQADV 7OPR GLY A 0 UNP Q9HCH5 LINKER SEQADV 7OPR LEU A 78 UNP P51159 GLN 78 ENGINEERED MUTATION SEQADV 7OPR SER A 188 UNP P51159 CYS 188 ENGINEERED MUTATION SEQADV 7OPR HIS B -37 UNP Q9HCH5 EXPRESSION TAG SEQADV 7OPR MET B -36 UNP Q9HCH5 EXPRESSION TAG SEQADV 7OPR GLY B -7 UNP Q9HCH5 LINKER SEQADV 7OPR SER B -5 UNP Q9HCH5 LINKER SEQADV 7OPR GLY B -4 UNP Q9HCH5 LINKER SEQADV 7OPR SER B -3 UNP Q9HCH5 LINKER SEQADV 7OPR GLY B -2 UNP Q9HCH5 LINKER SEQADV 7OPR SER B -1 UNP Q9HCH5 LINKER SEQADV 7OPR GLY B 0 UNP Q9HCH5 LINKER SEQADV 7OPR LEU B 78 UNP P51159 GLN 78 ENGINEERED MUTATION SEQADV 7OPR SER B 188 UNP P51159 CYS 188 ENGINEERED MUTATION SEQRES 1 A 229 HIS MET SER PHE LEU THR GLU GLU GLU GLN GLU ALA ILE SEQRES 2 A 229 MET LYS VAL LEU GLN ARG ASP ALA ALA LEU LYS ARG ALA SEQRES 3 A 229 GLU GLU GLU ARG GLY SER GLY SER GLY SER GLY MET SER SEQRES 4 A 229 ASP GLY ASP TYR ASP TYR LEU ILE LYS PHE LEU ALA LEU SEQRES 5 A 229 GLY ASP SER GLY VAL GLY LYS THR SER VAL LEU TYR GLN SEQRES 6 A 229 TYR THR ASP GLY LYS PHE ASN SER LYS PHE ILE THR THR SEQRES 7 A 229 VAL GLY ILE ASP PHE ARG GLU LYS ARG VAL VAL TYR ARG SEQRES 8 A 229 ALA SER GLY PRO ASP GLY ALA THR GLY ARG GLY GLN ARG SEQRES 9 A 229 ILE HIS LEU GLN LEU TRP ASP THR ALA GLY LEU GLU ARG SEQRES 10 A 229 PHE ARG SER LEU THR THR ALA PHE PHE ARG ASP ALA MET SEQRES 11 A 229 GLY PHE LEU LEU LEU PHE ASP LEU THR ASN GLU GLN SER SEQRES 12 A 229 PHE LEU ASN VAL ARG ASN TRP ILE SER GLN LEU GLN MET SEQRES 13 A 229 HIS ALA TYR CYS GLU ASN PRO ASP ILE VAL LEU CYS GLY SEQRES 14 A 229 ASN LYS SER ASP LEU GLU ASP GLN ARG VAL VAL LYS GLU SEQRES 15 A 229 GLU GLU ALA ILE ALA LEU ALA GLU LYS TYR GLY ILE PRO SEQRES 16 A 229 TYR PHE GLU THR SER ALA ALA ASN GLY THR ASN ILE SER SEQRES 17 A 229 GLN ALA ILE GLU MET LEU LEU ASP LEU ILE MET LYS ARG SEQRES 18 A 229 MET GLU ARG SER VAL ASP LYS SER SEQRES 1 B 229 HIS MET SER PHE LEU THR GLU GLU GLU GLN GLU ALA ILE SEQRES 2 B 229 MET LYS VAL LEU GLN ARG ASP ALA ALA LEU LYS ARG ALA SEQRES 3 B 229 GLU GLU GLU ARG GLY SER GLY SER GLY SER GLY MET SER SEQRES 4 B 229 ASP GLY ASP TYR ASP TYR LEU ILE LYS PHE LEU ALA LEU SEQRES 5 B 229 GLY ASP SER GLY VAL GLY LYS THR SER VAL LEU TYR GLN SEQRES 6 B 229 TYR THR ASP GLY LYS PHE ASN SER LYS PHE ILE THR THR SEQRES 7 B 229 VAL GLY ILE ASP PHE ARG GLU LYS ARG VAL VAL TYR ARG SEQRES 8 B 229 ALA SER GLY PRO ASP GLY ALA THR GLY ARG GLY GLN ARG SEQRES 9 B 229 ILE HIS LEU GLN LEU TRP ASP THR ALA GLY LEU GLU ARG SEQRES 10 B 229 PHE ARG SER LEU THR THR ALA PHE PHE ARG ASP ALA MET SEQRES 11 B 229 GLY PHE LEU LEU LEU PHE ASP LEU THR ASN GLU GLN SER SEQRES 12 B 229 PHE LEU ASN VAL ARG ASN TRP ILE SER GLN LEU GLN MET SEQRES 13 B 229 HIS ALA TYR CYS GLU ASN PRO ASP ILE VAL LEU CYS GLY SEQRES 14 B 229 ASN LYS SER ASP LEU GLU ASP GLN ARG VAL VAL LYS GLU SEQRES 15 B 229 GLU GLU ALA ILE ALA LEU ALA GLU LYS TYR GLY ILE PRO SEQRES 16 B 229 TYR PHE GLU THR SER ALA ALA ASN GLY THR ASN ILE SER SEQRES 17 B 229 GLN ALA ILE GLU MET LEU LEU ASP LEU ILE MET LYS ARG SEQRES 18 B 229 MET GLU ARG SER VAL ASP LYS SER HET GNP A 201 32 HET MG A 202 1 HET GOL A 203 6 HET GOL A 204 6 HET GOL A 205 6 HET GOL A 206 6 HET GOL A 207 6 HET GOL A 208 6 HET GOL A 209 6 HET 05Y A 210 22 HET GNP B 201 32 HET MG B 202 1 HET GOL B 203 6 HET GOL B 204 6 HET 05Y B 205 22 HETNAM GNP PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER HETNAM MG MAGNESIUM ION HETNAM GOL GLYCEROL HETNAM 05Y ~{N}-[1-(2-PYRIDIN-2-YLETHYL)BENZIMIDAZOL-2- HETNAM 2 05Y YL]PROPANAMIDE HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 GNP 2(C10 H17 N6 O13 P3) FORMUL 4 MG 2(MG 2+) FORMUL 5 GOL 9(C3 H8 O3) FORMUL 12 05Y 2(C17 H18 N4 O) FORMUL 18 HOH *248(H2 O) HELIX 1 AA1 THR A -32 GLU A -9 1 24 HELIX 2 AA2 GLY A 21 GLY A 32 1 12 HELIX 3 AA3 LEU A 78 ARG A 80 5 3 HELIX 4 AA4 PHE A 81 ALA A 87 1 7 HELIX 5 AA5 PHE A 88 ALA A 92 5 5 HELIX 6 AA6 ASN A 103 ASN A 109 1 7 HELIX 7 AA7 ASN A 109 ALA A 121 1 13 HELIX 8 AA8 LYS A 144 GLY A 156 1 13 HELIX 9 AA9 ASN A 169 ARG A 187 1 19 HELIX 10 AB1 THR B -32 GLU B -9 1 24 HELIX 11 AB2 GLY B 21 GLY B 32 1 12 HELIX 12 AB3 LEU B 78 ARG B 80 5 3 HELIX 13 AB4 PHE B 81 ALA B 87 1 7 HELIX 14 AB5 PHE B 88 ALA B 92 5 5 HELIX 15 AB6 ASN B 103 ASN B 109 1 7 HELIX 16 AB7 ASN B 109 ALA B 121 1 13 HELIX 17 AB8 LEU B 137 ARG B 141 5 5 HELIX 18 AB9 LYS B 144 GLY B 156 1 13 HELIX 19 AC1 ASN B 169 GLU B 186 1 18 SHEET 1 AA1 6 ILE A 44 ARG A 54 0 SHEET 2 AA1 6 GLY A 65 THR A 75 -1 O ASP A 74 N ASP A 45 SHEET 3 AA1 6 TYR A 8 LEU A 15 1 N PHE A 12 O TRP A 73 SHEET 4 AA1 6 PHE A 95 ASP A 100 1 O LEU A 96 N LEU A 13 SHEET 5 AA1 6 ILE A 128 ASN A 133 1 O CYS A 131 N LEU A 97 SHEET 6 AA1 6 TYR A 159 GLU A 161 1 O PHE A 160 N GLY A 132 SHEET 1 AA2 6 ILE B 44 ARG B 54 0 SHEET 2 AA2 6 GLY B 65 THR B 75 -1 O ASP B 74 N ASP B 45 SHEET 3 AA2 6 TYR B 8 LEU B 15 1 N PHE B 12 O TRP B 73 SHEET 4 AA2 6 PHE B 95 ASP B 100 1 O LEU B 96 N LEU B 13 SHEET 5 AA2 6 ILE B 128 ASN B 133 1 O CYS B 131 N LEU B 97 SHEET 6 AA2 6 TYR B 159 GLU B 161 1 O PHE B 160 N GLY B 132 LINK SG CYS A 123 C05 05Y A 210 1555 1555 1.82 LINK SG CYS B 123 C05 05Y B 205 1555 1555 1.82 LINK OG1 THR A 23 MG MG A 202 1555 1555 1.99 LINK OG1 THR A 41 MG MG A 202 1555 1555 2.13 LINK O3G GNP A 201 MG MG A 202 1555 1555 2.05 LINK O2B GNP A 201 MG MG A 202 1555 1555 1.99 LINK MG MG A 202 O HOH A 326 1555 1555 2.01 LINK MG MG A 202 O HOH A 341 1555 1555 2.08 LINK OG1 THR B 23 MG MG B 202 1555 1555 2.16 LINK OG1 THR B 41 MG MG B 202 1555 1555 2.04 LINK O3G GNP B 201 MG MG B 202 1555 1555 1.98 LINK O2B GNP B 201 MG MG B 202 1555 1555 2.27 LINK MG MG B 202 O HOH B 321 1555 1555 2.11 LINK MG MG B 202 O HOH B 338 1555 1555 2.03 CRYST1 61.385 76.663 118.243 90.00 90.00 90.00 P 21 21 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 0.016291 0.000000 0.000000 0.00000 SCALE2 0.000000 0.013044 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008457 0.00000