PDB Short entry for 5C6P HEADER TRANSPORT PROTEIN 23-JUN-15 5C6P TITLE PROTEIN C CAVEAT 5C6P CALCULATED REFINEMENT VALUES ARE HIGHER THAN REPORTED COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROTEIN C; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: PUTATIVE EFFLUX PUMP PROTEIN; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: PROTEIN D; COMPND 8 CHAIN: B; COMPND 9 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: NEISSERIA GONORRHOEAE (STRAIN ATCC 700825 / FA SOURCE 3 1090); SOURCE 4 ORGANISM_TAXID: 242231; SOURCE 5 STRAIN: ATCC 700825 / FA 1090; SOURCE 6 GENE: NGO0395; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 9 MOL_ID: 2; SOURCE 10 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 11 ORGANISM_TAXID: 562; SOURCE 12 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 13 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS PROTEIN, TRANSPORT PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR M.LU REVDAT 4 06-MAR-24 5C6P 1 REMARK REVDAT 3 25-DEC-19 5C6P 1 REMARK REVDAT 2 20-SEP-17 5C6P 1 REMARK REVDAT 1 23-SEP-15 5C6P 0 JRNL AUTH M.RADCHENKO,J.SYMERSKY,R.NIE,M.LU JRNL TITL STRUCTURAL BASIS FOR THE BLOCKADE OF MATE MULTIDRUG EFFLUX JRNL TITL 2 PUMPS. JRNL REF NAT COMMUN V. 6 7995 2015 JRNL REFN ESSN 2041-1723 JRNL PMID 26246409 JRNL DOI 10.1038/NCOMMS8995 REMARK 2 REMARK 2 RESOLUTION. 3.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 91.0 REMARK 3 NUMBER OF REFLECTIONS : 31380 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : FREE R-VALUE REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING + TEST SET) : NULL REMARK 3 R VALUE (WORKING SET) : 0.280 REMARK 3 FREE R VALUE : 0.290 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4215 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 33 REMARK 3 SOLVENT ATOMS : 0 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL 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 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): NULL REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): NULL REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 DISTANCE RESTRAINTS. RMS SIGMA REMARK 3 BOND LENGTH (A) : NULL ; NULL REMARK 3 ANGLE DISTANCE (A) : NULL ; NULL REMARK 3 INTRAPLANAR 1-4 DISTANCE (A) : NULL ; NULL REMARK 3 H-BOND OR METAL COORDINATION (A) : NULL ; NULL REMARK 3 REMARK 3 PLANE RESTRAINT (A) : NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINT (A**3) : NULL ; NULL REMARK 3 REMARK 3 NON-BONDED CONTACT RESTRAINTS. REMARK 3 SINGLE TORSION (A) : NULL ; NULL REMARK 3 MULTIPLE TORSION (A) : NULL ; NULL REMARK 3 H-BOND (X...Y) (A) : NULL ; NULL REMARK 3 H-BOND (X-H...Y) (A) : NULL ; NULL REMARK 3 REMARK 3 CONFORMATIONAL TORSION ANGLE RESTRAINTS. REMARK 3 SPECIFIED (DEGREES) : NULL ; NULL REMARK 3 PLANAR (DEGREES) : NULL ; NULL REMARK 3 STAGGERED (DEGREES) : NULL ; NULL REMARK 3 TRANSVERSE (DEGREES) : NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 5C6P COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 24-JUN-15. REMARK 100 THE DEPOSITION ID IS D_1000211126. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-JUL-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 22-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MAR CCD 165 MM REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 33124 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.000 REMARK 200 RESOLUTION RANGE LOW (A) : 100.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 91.0 REMARK 200 DATA REDUNDANCY : 6.000 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 20.0000 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 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: SHARP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 83.48 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 7.45 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG400, VAPOR DIFFUSION, TEMPERATURE REMARK 280 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 32 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+1/3 REMARK 290 6555 -X,-X+Y,-Z+2/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 150.65933 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 75.32967 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 75.32967 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 150.65933 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 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 GLU B -7 REMARK 465 ASN B -6 REMARK 465 LEU B -5 REMARK 465 TYR B -4 REMARK 465 PHE B -3 REMARK 465 GLN B -2 REMARK 465 GLY B -1 REMARK 465 SER B 0 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 VAL A 300 N GLY A 304 2.11 REMARK 500 CB ALA A 458 O LEU B 8 2.15 REMARK 500 O PRO A 148 N MET A 151 2.15 REMARK 500 O ARG A 307 OG SER A 311 2.17 REMARK 500 O SER A 384 N LEU A 387 2.18 REMARK 500 O TYR B 78 N GLY B 80 2.18 REMARK 500 CG1 VAL B 30 O PRO B 51 2.19 REMARK 500 O GLY A 198 N GLY A 201 2.19 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 N ALA A 196 OH TYR B 31 5545 2.13 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 TRP A 332 CB TRP A 332 CG -0.119 REMARK 500 ARG A 346 C ARG A 346 O 0.193 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 A 145 CA - CB - CG ANGL. DEV. = 26.1 DEGREES REMARK 500 GLY A 198 N - CA - C ANGL. DEV. = -15.8 DEGREES REMARK 500 ARG A 346 O - C - N ANGL. DEV. = -17.9 DEGREES REMARK 500 LEU B 8 CA - CB - CG ANGL. DEV. = 21.8 DEGREES REMARK 500 PRO B 51 C - N - CA ANGL. DEV. = -10.2 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 PHE A 10 -98.12 -62.57 REMARK 500 VAL A 12 -85.50 -63.90 REMARK 500 LEU A 14 50.71 -59.57 REMARK 500 GLU A 16 145.90 -173.06 REMARK 500 ILE A 17 -90.87 -145.84 REMARK 500 LEU A 20 -38.61 -21.68 REMARK 500 ALA A 22 97.79 -66.05 REMARK 500 PHE A 39 12.62 -67.70 REMARK 500 VAL A 40 -67.91 -98.16 REMARK 500 ASP A 41 -53.47 -24.47 REMARK 500 ALA A 48 51.29 -68.47 REMARK 500 ALA A 57 -16.96 -38.51 REMARK 500 SER A 61 -94.53 -68.21 REMARK 500 ALA A 62 27.43 -62.07 REMARK 500 PHE A 63 -60.66 -91.71 REMARK 500 THR A 69 -77.07 -49.01 REMARK 500 ILE A 73 -53.35 -24.19 REMARK 500 ALA A 75 -2.10 -50.89 REMARK 500 MET A 80 -63.44 -5.13 REMARK 500 ALA A 87 -136.31 -157.64 REMARK 500 LYS A 89 75.14 -69.16 REMARK 500 LEU A 105 -101.88 -81.62 REMARK 500 ILE A 106 -72.39 19.93 REMARK 500 MET A 112 -17.94 -39.88 REMARK 500 MET A 115 -78.57 -42.74 REMARK 500 TRP A 116 -48.62 -21.36 REMARK 500 ALA A 117 -97.62 -94.83 REMARK 500 ALA A 118 -55.83 -20.22 REMARK 500 ILE A 119 -69.34 -0.67 REMARK 500 PRO A 121 54.08 -44.79 REMARK 500 ARG A 123 106.93 -164.66 REMARK 500 ASN A 124 -90.41 -127.29 REMARK 500 TRP A 125 -63.86 -120.80 REMARK 500 THR A 127 -58.13 -146.08 REMARK 500 ASP A 130 33.86 -153.71 REMARK 500 THR A 135 12.21 -55.98 REMARK 500 LEU A 145 4.54 -44.90 REMARK 500 LEU A 163 -92.04 -10.55 REMARK 500 ASN A 164 -101.99 15.74 REMARK 500 ARG A 165 -68.25 -145.03 REMARK 500 PRO A 166 89.34 -53.78 REMARK 500 SER A 173 26.98 -76.30 REMARK 500 PRO A 182 -77.03 -50.02 REMARK 500 LEU A 183 -73.80 -34.39 REMARK 500 LYS A 191 88.08 -47.84 REMARK 500 PHE A 192 -125.85 -77.82 REMARK 500 ALA A 196 -93.54 -70.57 REMARK 500 CYS A 202 -66.31 -94.25 REMARK 500 LEU A 217 -83.91 -66.35 REMARK 500 TRP A 218 -52.79 -25.29 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: 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 A 14 LYS A 15 140.92 REMARK 500 LEU A 25 PRO A 26 145.00 REMARK 500 ALA A 54 ALA A 55 127.23 REMARK 500 LEU A 126 THR A 127 -138.31 REMARK 500 THR A 127 LEU A 128 -146.56 REMARK 500 GLY A 201 CYS A 202 147.78 REMARK 500 TYR A 220 ILE A 221 149.04 REMARK 500 SER A 263 ALA A 264 148.00 REMARK 500 TYR A 322 ILE A 323 144.65 REMARK 500 THR A 338 VAL A 339 143.42 REMARK 500 VAL A 359 LEU A 360 -149.11 REMARK 500 TYR A 390 LYS A 391 -147.59 REMARK 500 VAL B 4 PRO B 5 136.05 REMARK 500 ALA B 13 THR B 14 147.91 REMARK 500 GLY B 80 TRP B 81 -145.73 REMARK 500 TYR B 89 ARG B 90 -148.50 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 ARG A 346 22.71 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 4YH A 601 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5C6O RELATED DB: PDB REMARK 900 RELATED ID: 5C6N RELATED DB: PDB DBREF 5C6P A 5 459 UNP Q5F9J8 Q5F9J8_NEIG1 5 459 DBREF 5C6P B -7 91 UNP M1E1G6 M1E1G6_ECOLX 1 99 SEQADV 5C6P SER A 460 UNP Q5F9J8 EXPRESSION TAG SEQADV 5C6P SER A 461 UNP Q5F9J8 EXPRESSION TAG SEQADV 5C6P GLY A 462 UNP Q5F9J8 EXPRESSION TAG SEQADV 5C6P LEU A 463 UNP Q5F9J8 EXPRESSION TAG SEQRES 1 A 459 LEU ASP ARG PHE SER PHE SER VAL PHE LEU LYS GLU ILE SEQRES 2 A 459 ARG LEU LEU THR ALA LEU ALA LEU PRO MET LEU LEU ALA SEQRES 3 A 459 GLN VAL ALA GLN VAL GLY ILE GLY PHE VAL ASP THR VAL SEQRES 4 A 459 MET ALA GLY GLY ALA GLY LYS GLU ASP LEU ALA ALA VAL SEQRES 5 A 459 ALA LEU GLY SER SER ALA PHE ALA THR VAL TYR ILE THR SEQRES 6 A 459 PHE MET GLY ILE MET ALA ALA LEU ASN PRO MET ILE ALA SEQRES 7 A 459 GLN LEU TYR GLY ALA GLY LYS THR GLY GLU ALA GLY GLU SEQRES 8 A 459 THR GLY ARG GLN GLY ILE TRP PHE GLY LEU ILE LEU GLY SEQRES 9 A 459 ILE PHE GLY MET ILE LEU MET TRP ALA ALA ILE THR PRO SEQRES 10 A 459 PHE ARG ASN TRP LEU THR LEU SER ASP TYR VAL GLU GLY SEQRES 11 A 459 THR MET ALA GLN TYR MET LEU PHE THR SER LEU ALA MET SEQRES 12 A 459 PRO ALA ALA MET VAL HIS ARG ALA LEU HIS ALA TYR ALA SEQRES 13 A 459 SER SER LEU ASN ARG PRO ARG LEU ILE MET LEU VAL SER SEQRES 14 A 459 PHE ALA ALA PHE VAL LEU ASN VAL PRO LEU ASN TYR ILE SEQRES 15 A 459 PHE VAL TYR GLY LYS PHE GLY MET PRO ALA LEU GLY GLY SEQRES 16 A 459 ALA GLY CYS GLY VAL ALA THR MET ALA VAL PHE TRP PHE SEQRES 17 A 459 SER ALA LEU ALA LEU TRP ILE TYR ILE ALA LYS GLU LYS SEQRES 18 A 459 PHE PHE ARG PRO PHE GLY LEU THR ALA LYS PHE GLY LYS SEQRES 19 A 459 PRO ASP TRP ALA VAL PHE LYS GLN ILE TRP LYS ILE GLY SEQRES 20 A 459 ALA PRO ILE GLY LEU SER TYR PHE LEU GLU ALA SER ALA SEQRES 21 A 459 PHE SER PHE ILE VAL PHE LEU ILE ALA PRO PHE GLY GLU SEQRES 22 A 459 ASP TYR VAL ALA ALA GLN GLN VAL GLY ILE SER LEU SER SEQRES 23 A 459 GLY ILE LEU TYR MET ILE PRO GLN SER VAL GLY SER ALA SEQRES 24 A 459 GLY THR VAL ARG ILE GLY PHE SER LEU GLY ARG ARG GLU SEQRES 25 A 459 PHE SER ARG ALA ARG TYR ILE SER GLY VAL SER LEU VAL SEQRES 26 A 459 SER GLY TRP VAL LEU ALA VAL ILE THR VAL LEU SER LEU SEQRES 27 A 459 VAL LEU PHE ARG SER PRO LEU ALA SER MET TYR ASN ASP SEQRES 28 A 459 ASP PRO ALA VAL LEU SER ILE ALA SER THR VAL LEU LEU SEQRES 29 A 459 PHE ALA GLY LEU PHE GLN PRO ALA ASP PHE THR GLN CYS SEQRES 30 A 459 ILE ALA SER TYR ALA LEU ARG GLY TYR LYS VAL THR LYS SEQRES 31 A 459 VAL PRO MET PHE ILE HIS ALA ALA ALA PHE TRP GLY CYS SEQRES 32 A 459 GLY LEU LEU PRO GLY TYR LEU LEU ALA TYR ARG PHE ASP SEQRES 33 A 459 MET GLY ILE TYR GLY PHE TRP THR ALA LEU ILE ALA SER SEQRES 34 A 459 LEU THR ILE ALA ALA VAL ALA LEU VAL TRP CYS LEU GLU SEQRES 35 A 459 LYS TYR SER MET GLU LEU VAL LYS SER HIS LYS ALA VAL SEQRES 36 A 459 SER SER GLY LEU SEQRES 1 B 99 GLU ASN LEU TYR PHE GLN GLY SER VAL SER SER VAL PRO SEQRES 2 B 99 THR LYS LEU GLU VAL VAL ALA ALA THR PRO THR SER LEU SEQRES 3 B 99 LEU ILE SER TRP ASP ALA ARG GLY GLU TYR VAL VAL TYR SEQRES 4 B 99 TYR ARG ILE THR TYR GLY GLU THR GLY GLY ASN SER PRO SEQRES 5 B 99 VAL GLN GLU PHE THR VAL PRO GLY SER SER SER THR ALA SEQRES 6 B 99 THR ILE SER GLY LEU SER PRO GLY VAL ASP TYR THR ILE SEQRES 7 B 99 THR VAL TYR ALA ARG SER TYR TYR TRP GLY TRP TYR SER SEQRES 8 B 99 PRO ILE SER ILE ASN TYR ARG THR HET 4YH A 601 33 HETNAM 4YH (2S)-2-(3,4-DIMETHOXYPHENYL)-5-{[2-(3,4- HETNAM 2 4YH DIMETHOXYPHENYL)ETHYL](METHYL)AMINO}-2-(PROPAN-2-YL) HETNAM 3 4YH PENTANENITRILE FORMUL 3 4YH C27 H38 N2 O4 HELIX 1 AA1 PRO A 26 GLN A 31 5 6 HELIX 2 AA2 ILE A 37 GLY A 46 1 10 HELIX 3 AA3 ALA A 57 ALA A 62 1 6 HELIX 4 AA4 PHE A 63 ALA A 76 1 14 HELIX 5 AA5 ALA A 76 LEU A 84 1 9 HELIX 6 AA6 ALA A 93 ALA A 117 1 25 HELIX 7 AA7 TYR A 139 SER A 144 1 6 HELIX 8 AA8 LEU A 145 MET A 147 5 3 HELIX 9 AA9 PRO A 148 ARG A 154 1 7 HELIX 10 AB1 LEU A 156 SER A 161 1 6 HELIX 11 AB2 ARG A 167 ALA A 176 1 10 HELIX 12 AB3 LEU A 179 GLY A 190 1 12 HELIX 13 AB4 CYS A 202 TRP A 218 1 17 HELIX 14 AB5 ILE A 219 ILE A 221 5 3 HELIX 15 AB6 LYS A 245 LEU A 256 1 12 HELIX 16 AB7 GLU A 277 ALA A 282 1 6 HELIX 17 AB8 GLN A 283 LEU A 293 1 11 HELIX 18 AB9 TYR A 294 SER A 299 1 6 HELIX 19 AC1 VAL A 300 ARG A 314 1 15 HELIX 20 AC2 SER A 327 LEU A 344 1 18 HELIX 21 AC3 GLN A 374 THR A 379 1 6 HELIX 22 AC4 ILE A 399 ALA A 403 5 5 HELIX 23 AC5 LEU A 441 GLU A 446 1 6 HELIX 24 AC6 TYR A 448 LEU A 452 5 5 SHEET 1 AA1 3 ALA B 13 THR B 14 0 SHEET 2 AA1 3 SER B 17 SER B 21 -1 O SER B 17 N THR B 14 SHEET 3 AA1 3 THR B 56 THR B 58 -1 O ALA B 57 N ILE B 20 SHEET 1 AA2 2 ILE B 70 TYR B 73 0 SHEET 2 AA2 2 PRO B 84 ILE B 87 -1 O ILE B 87 N ILE B 70 CISPEP 1 GLY A 193 MET A 194 0 3.63 SITE 1 AC1 6 ALA A 57 SER A 61 GLN A 284 SER A 288 SITE 2 AC1 6 ASP A 356 PRO A 357 CRYST1 117.642 117.642 225.989 90.00 90.00 120.00 P 32 2 1 6 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 0.008500 0.004907 0.000000 0.00000 SCALE2 0.000000 0.009815 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004425 0.00000