HEADER TOXIN 30-NOV-16 5MJE TITLE CRYSTAL STRUCTURE OF THE HIGB2 TOXIN IN COMPLEX WITH NB8 COMPND MOL_ID: 1; COMPND 2 MOLECULE: CYTOTOXIC TRANSLATIONAL REPRESSOR OF TOXIN-ANTITOXIN COMPND 3 STABILITY SYSTEM; COMPND 4 CHAIN: A; COMPND 5 SYNONYM: TOXIN HIGB-2,UNCHARACTERIZED PROTEIN; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: NANOBODY 8; COMPND 9 CHAIN: B; COMPND 10 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: VIBRIO CHOLERAE; SOURCE 3 ORGANISM_TAXID: 666; SOURCE 4 GENE: EN12_16040, ERS013138_03879, ERS013140_03929, ERS013166_04476, SOURCE 5 ERS013173_04173, ERS013186_03907, ERS013199_03648, ERS013200_04302, SOURCE 6 ERS013207_03773; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 9 MOL_ID: 2; SOURCE 10 ORGANISM_SCIENTIFIC: LAMA GLAMA; SOURCE 11 ORGANISM_TAXID: 9844; SOURCE 12 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 13 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS TOXIN-ANTITOXIN SYSTEM, TOXIN EXPDTA X-RAY DIFFRACTION AUTHOR S.HADZI,R.LORIS REVDAT 3 16-OCT-19 5MJE 1 REMARK REVDAT 2 17-MAY-17 5MJE 1 JRNL REVDAT 1 05-APR-17 5MJE 0 JRNL AUTH S.HADZI,A.GARCIA-PINO,S.HAESAERTS,D.JURENAS,K.GERDES,J.LAH, JRNL AUTH 2 R.LORIS JRNL TITL RIBOSOME-DEPENDENT VIBRIO CHOLERAE MRNASE HIGB2 IS REGULATED JRNL TITL 2 BY A BETA-STRAND SLIDING MECHANISM. JRNL REF NUCLEIC ACIDS RES. V. 45 4972 2017 JRNL REFN ESSN 1362-4962 JRNL PMID 28334932 JRNL DOI 10.1093/NAR/GKX138 REMARK 2 REMARK 2 RESOLUTION. 2.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.10.1_2155 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 46.47 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.370 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.9 REMARK 3 NUMBER OF REFLECTIONS : 7605 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.231 REMARK 3 R VALUE (WORKING SET) : 0.227 REMARK 3 FREE R VALUE : 0.297 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.980 REMARK 3 FREE R VALUE TEST SET COUNT : 379 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 46.4766 - 3.7477 0.98 2471 131 0.1923 0.2581 REMARK 3 2 3.7477 - 2.9748 0.99 2424 126 0.2333 0.3029 REMARK 3 3 2.9748 - 2.5988 0.97 2331 122 0.3221 0.4013 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL 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) : 0.460 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 37.870 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 42.44 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 59.54 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 : 0.007 1851 REMARK 3 ANGLE : 0.954 2495 REMARK 3 CHIRALITY : 0.050 271 REMARK 3 PLANARITY : 0.006 323 REMARK 3 DIHEDRAL : 20.514 1097 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 2 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID -7 THROUGH 110 ) REMARK 3 ORIGIN FOR THE GROUP (A): 37.5343 27.5276 -47.3037 REMARK 3 T TENSOR REMARK 3 T11: 0.6275 T22: 0.3864 REMARK 3 T33: 1.0454 T12: -0.0124 REMARK 3 T13: -0.4393 T23: 0.0670 REMARK 3 L TENSOR REMARK 3 L11: 2.2933 L22: 2.0471 REMARK 3 L33: 0.6329 L12: 0.2887 REMARK 3 L13: 0.1242 L23: -0.5611 REMARK 3 S TENSOR REMARK 3 S11: -0.2111 S12: 0.2601 S13: 0.4168 REMARK 3 S21: -1.6502 S22: 0.3645 S23: 2.0032 REMARK 3 S31: -0.1096 S32: -0.1223 S33: 0.0932 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 3 THROUGH 126 ) REMARK 3 ORIGIN FOR THE GROUP (A): 53.1992 35.0406 -33.5261 REMARK 3 T TENSOR REMARK 3 T11: 0.2002 T22: 0.3063 REMARK 3 T33: 0.3561 T12: 0.0421 REMARK 3 T13: 0.0184 T23: 0.0175 REMARK 3 L TENSOR REMARK 3 L11: 2.2102 L22: 4.4544 REMARK 3 L33: 0.7326 L12: 0.8917 REMARK 3 L13: 0.3241 L23: -0.1461 REMARK 3 S TENSOR REMARK 3 S11: 0.0172 S12: -0.2352 S13: 0.0194 REMARK 3 S21: -0.3797 S22: 0.0717 S23: 0.8199 REMARK 3 S31: 0.1025 S32: 0.0541 S33: -0.0606 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 5MJE COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 01-DEC-16. REMARK 100 THE DEPOSITION ID IS D_1200002563. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 20-JUN-15 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SOLEIL REMARK 200 BEAMLINE : PROXIMA 1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9790 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : PSI PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 7617 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.599 REMARK 200 RESOLUTION RANGE LOW (A) : 46.500 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.0 REMARK 200 DATA REDUNDANCY : 2.520 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 5.3900 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL 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 (%): 41.40 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.10 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2M AMMONIUM SULFATE; 0,1 M SODIUM REMARK 280 ACETATE PH 4.6; 30% PEG MONOMETHYL ETHER 2000, VAPOR DIFFUSION, REMARK 280 SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 18.28500 REMARK 290 SMTRY3 2 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2570 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 11590 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -16.0 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 -18 REMARK 465 SER A -17 REMARK 465 SER A -16 REMARK 465 HIS A -15 REMARK 465 HIS A -14 REMARK 465 HIS A -13 REMARK 465 HIS A -12 REMARK 465 HIS A -11 REMARK 465 HIS A -10 REMARK 465 SER A -9 REMARK 465 SER A -8 REMARK 465 SER A 54 REMARK 465 LYS A 55 REMARK 465 GLY A 56 REMARK 465 LYS A 57 REMARK 465 GLY A 58 REMARK 465 LYS A 59 REMARK 465 ARG A 60 REMARK 465 ALA B 2 REMARK 465 HIS B 127 REMARK 465 HIS B 128 REMARK 465 HIS B 129 REMARK 465 HIS B 130 REMARK 465 HIS B 131 REMARK 465 HIS B 132 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 ARG A -3 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 51 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 72 CG CD OE1 OE2 REMARK 470 LYS A 73 CG CD CE NZ REMARK 470 LYS A 84 CG CD CE NZ REMARK 470 ASN A 85 CG OD1 ND2 REMARK 470 GLU A 86 CG CD OE1 OE2 REMARK 470 MET A 87 CG SD CE REMARK 470 SER A 88 OG REMARK 470 ASN A 93 CG OD1 ND2 REMARK 470 LYS A 96 CG CD CE NZ REMARK 470 MET A 99 CG SD CE REMARK 470 GLU A 108 CG CD OE1 OE2 REMARK 470 GLN A 109 CG CD OE1 NE2 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 C GLY B 12 CA LEU B 13 1.80 REMARK 500 OG SER B 9 O HOH B 201 1.86 REMARK 500 NH1 ARG B 30 O HOH B 202 1.99 REMARK 500 CZ ARG A 64 O4 SO4 A 202 2.05 REMARK 500 OD1 ASP B 29 O HOH B 203 2.07 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 GLY B 12 C LEU B 13 N -0.540 REMARK 500 LEU B 13 C VAL B 14 N 0.186 REMARK 500 SER B 23 C CYS B 24 N -0.239 REMARK 500 MET B 36 C GLY B 37 N -0.156 REMARK 500 PHE B 69 C SER B 70 N -0.283 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 LEU B 13 C - N - CA ANGL. DEV. = -19.5 DEGREES REMARK 500 LEU B 13 CA - C - N ANGL. DEV. = 17.1 DEGREES REMARK 500 LEU B 13 O - C - N ANGL. DEV. = -20.1 DEGREES REMARK 500 VAL B 14 C - N - CA ANGL. DEV. = 15.7 DEGREES REMARK 500 SER B 23 CA - C - N ANGL. DEV. = 15.8 DEGREES REMARK 500 SER B 23 O - C - N ANGL. DEV. = -16.0 DEGREES REMARK 500 MET B 36 CA - C - N ANGL. DEV. = 12.6 DEGREES REMARK 500 MET B 36 O - C - N ANGL. DEV. = -14.5 DEGREES REMARK 500 PHE B 69 O - C - N ANGL. DEV. = -13.7 DEGREES REMARK 500 SER B 70 C - N - CA ANGL. DEV. = 26.3 DEGREES REMARK 500 SER B 70 O - C - N ANGL. DEV. = -14.7 DEGREES REMARK 500 SER B 105 CA - C - N ANGL. DEV. = 21.4 DEGREES REMARK 500 SER B 105 O - C - N ANGL. DEV. = -21.6 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 LYS A 36 6.08 86.88 REMARK 500 GLU A 86 -167.53 -76.40 REMARK 500 CYS B 24 120.33 -179.24 REMARK 500 ASP B 29 -169.39 -104.22 REMARK 500 MET B 36 147.16 -173.82 REMARK 500 GLU B 77 -6.11 62.66 REMARK 500 ASP B 78 -5.68 70.21 REMARK 500 ALA B 80 -124.12 62.77 REMARK 500 LEU B 109 18.26 50.46 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 LEU B 13 VAL B 14 -148.06 REMARK 500 ASP B 78 SER B 79 146.82 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 GLY B 12 -16.67 REMARK 500 LEU B 13 11.73 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 PEG A 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 202 DBREF1 5MJE A 1 110 UNP A0A085RXT0_VIBCL DBREF2 5MJE A A0A085RXT0 1 110 DBREF 5MJE B 2 132 PDB 5MJE 5MJE 2 132 SEQADV 5MJE GLY A -18 UNP A0A085RXT EXPRESSION TAG SEQADV 5MJE SER A -17 UNP A0A085RXT EXPRESSION TAG SEQADV 5MJE SER A -16 UNP A0A085RXT EXPRESSION TAG SEQADV 5MJE HIS A -15 UNP A0A085RXT EXPRESSION TAG SEQADV 5MJE HIS A -14 UNP A0A085RXT EXPRESSION TAG SEQADV 5MJE HIS A -13 UNP A0A085RXT EXPRESSION TAG SEQADV 5MJE HIS A -12 UNP A0A085RXT EXPRESSION TAG SEQADV 5MJE HIS A -11 UNP A0A085RXT EXPRESSION TAG SEQADV 5MJE HIS A -10 UNP A0A085RXT EXPRESSION TAG SEQADV 5MJE SER A -9 UNP A0A085RXT EXPRESSION TAG SEQADV 5MJE SER A -8 UNP A0A085RXT EXPRESSION TAG SEQADV 5MJE GLY A -7 UNP A0A085RXT EXPRESSION TAG SEQADV 5MJE LEU A -6 UNP A0A085RXT EXPRESSION TAG SEQADV 5MJE VAL A -5 UNP A0A085RXT EXPRESSION TAG SEQADV 5MJE PRO A -4 UNP A0A085RXT EXPRESSION TAG SEQADV 5MJE ARG A -3 UNP A0A085RXT EXPRESSION TAG SEQADV 5MJE GLY A -2 UNP A0A085RXT EXPRESSION TAG SEQADV 5MJE SER A -1 UNP A0A085RXT EXPRESSION TAG SEQADV 5MJE HIS A 0 UNP A0A085RXT EXPRESSION TAG SEQRES 1 A 129 GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY LEU SEQRES 2 A 129 VAL PRO ARG GLY SER HIS MET LYS SER VAL PHE VAL GLU SEQRES 3 A 129 SER THR ILE PHE GLU LYS TYR ARG ASP GLU TYR LEU SER SEQRES 4 A 129 ASP GLU GLU TYR ARG LEU PHE GLN ALA GLU LEU MET LEU SEQRES 5 A 129 ASN PRO LYS LEU GLY ASP VAL ILE GLN GLY THR GLY GLY SEQRES 6 A 129 LEU ARG LYS ILE ARG VAL ALA SER LYS GLY LYS GLY LYS SEQRES 7 A 129 ARG GLY GLY SER ARG ILE ILE TYR TYR PHE LEU ASP GLU SEQRES 8 A 129 LYS ARG ARG PHE TYR LEU LEU THR ILE TYR GLY LYS ASN SEQRES 9 A 129 GLU MET SER ASP LEU ASN ALA ASN GLN ARG LYS GLN LEU SEQRES 10 A 129 MET ALA PHE MET GLU ALA TRP ARG ASN GLU GLN SER SEQRES 1 B 131 ALA GLN VAL GLN LEU GLN GLU SER GLY GLY GLY LEU VAL SEQRES 2 B 131 GLN PRO GLY GLY SER LEU ARG LEU SER CYS VAL VAL SER SEQRES 3 B 131 GLY ASP ARG ARG THR ILE TYR THR MET GLY TRP PHE ARG SEQRES 4 B 131 GLN ALA PRO GLY ASN GLN GLY GLU LEU VAL ALA THR MET SEQRES 5 B 131 THR SER SER GLY VAL THR THR TYR VAL ASP SER VAL LYS SEQRES 6 B 131 GLY ARG PHE SER ILE SER ARG ASP SER ALA GLU ASP SER SEQRES 7 B 131 ALA LYS ASN THR VAL SER LEU GLN MET ASN SER LEU LYS SEQRES 8 B 131 PRO GLU ASP THR ALA PHE TYR THR CYS TYR GLU GLU SER SEQRES 9 B 131 ARG ARG PRO LEU GLY SER ARG ASN THR TYR TRP GLY GLN SEQRES 10 B 131 GLY THR GLN VAL THR VAL SER SER HIS HIS HIS HIS HIS SEQRES 11 B 131 HIS HET PEG A 201 7 HET SO4 A 202 5 HETNAM PEG DI(HYDROXYETHYL)ETHER HETNAM SO4 SULFATE ION FORMUL 3 PEG C4 H10 O3 FORMUL 4 SO4 O4 S 2- FORMUL 5 HOH *17(H2 O) HELIX 1 AA1 SER A 8 ARG A 15 1 8 HELIX 2 AA2 SER A 20 ASN A 34 1 15 HELIX 3 AA3 ASN A 91 ASN A 107 1 17 HELIX 4 AA4 ASP B 63 LYS B 66 5 4 HELIX 5 AA5 SER B 75 SER B 79 5 5 HELIX 6 AA6 LYS B 92 THR B 96 5 5 SHEET 1 AA1 9 ASP A 39 VAL A 40 0 SHEET 2 AA1 9 ARG A 48 ILE A 50 -1 O LYS A 49 N ASP A 39 SHEET 3 AA1 9 ARG A 64 PHE A 69 -1 O TYR A 67 N ARG A 48 SHEET 4 AA1 9 ARG A 75 TYR A 82 -1 O TYR A 77 N TYR A 68 SHEET 5 AA1 9 SER A 3 GLU A 7 1 N VAL A 4 O PHE A 76 SHEET 6 AA1 9 ARG B 112 TRP B 116 -1 O TRP B 116 N SER A 3 SHEET 7 AA1 9 ALA B 97 ARG B 106 -1 N SER B 105 O ASN B 113 SHEET 8 AA1 9 THR B 120 VAL B 124 -1 O THR B 120 N TYR B 99 SHEET 9 AA1 9 GLY B 12 VAL B 14 1 N VAL B 14 O THR B 123 SHEET 1 AA210 ASP A 39 VAL A 40 0 SHEET 2 AA210 ARG A 48 ILE A 50 -1 O LYS A 49 N ASP A 39 SHEET 3 AA210 ARG A 64 PHE A 69 -1 O TYR A 67 N ARG A 48 SHEET 4 AA210 ARG A 75 TYR A 82 -1 O TYR A 77 N TYR A 68 SHEET 5 AA210 SER A 3 GLU A 7 1 N VAL A 4 O PHE A 76 SHEET 6 AA210 ARG B 112 TRP B 116 -1 O TRP B 116 N SER A 3 SHEET 7 AA210 ALA B 97 ARG B 106 -1 N SER B 105 O ASN B 113 SHEET 8 AA210 THR B 32 GLN B 41 -1 N THR B 35 O GLU B 104 SHEET 9 AA210 GLU B 48 THR B 54 -1 O GLU B 48 N ARG B 40 SHEET 10 AA210 THR B 59 TYR B 61 -1 O THR B 60 N THR B 52 SHEET 1 AA3 4 GLN B 5 SER B 9 0 SHEET 2 AA3 4 LEU B 20 SER B 27 -1 O VAL B 25 N GLN B 7 SHEET 3 AA3 4 ASN B 82 MET B 88 -1 O VAL B 84 N CYS B 24 SHEET 4 AA3 4 PHE B 69 ASP B 74 -1 N SER B 72 O SER B 85 SSBOND 1 CYS B 24 CYS B 101 1555 1555 2.04 LINK NE ARG A 64 O4 SO4 A 202 1555 1555 1.30 SITE 1 AC1 4 LEU A -6 SER A 20 ASP A 21 GLU A 22 SITE 1 AC2 2 LYS A 49 ARG A 64 CRYST1 57.290 36.570 60.800 90.00 104.05 90.00 P 1 21 1 2 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 0.017455 0.000000 0.004368 0.00000 SCALE2 0.000000 0.027345 0.000000 0.00000 SCALE3 0.000000 0.000000 0.016955 0.00000