HEADER SUGAR BINDING PROTEIN 18-NOV-19 6LCF TITLE CRYSTAL STRUCTURE OF BETA-L-ARABINOBIOSE BINDING PROTEIN - NATIVE COMPND MOL_ID: 1; COMPND 2 MOLECULE: ABC TRANSPORTER SUBSTRATE BINDING COMPONENT; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: LIGAND BINDING DOMAIN; COMPND 5 SYNONYM: BACTERIAL EXTRACELLULAR SOLUTE-BINDING PROTEIN,SUGAR ABC COMPND 6 TRANSPORTER SUBSTRATE-BINDING PROTEIN,SUGARS ABC TRANSPORTER COMPND 7 SUBSTRATE-BINDING PROTEIN; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BIFIDOBACTERIUM LONGUM; SOURCE 3 ORGANISM_TAXID: 216816; SOURCE 4 GENE: APC1462_0182, APC1476_0195, APC1503_0213, APS65_00860, SOURCE 5 BBG7_0210, BL105A_0201, DPC6316_0214, DPC6317_0191, DW237_03380, SOURCE 6 DW792_04665, DWV59_05050, DWV93_04885, DWZ73_01175, EAI75_02995, SOURCE 7 HMPREF0177_01141; SOURCE 8 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 10 EXPRESSION_SYSTEM_VARIANT: CODONPLUS; SOURCE 11 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 12 EXPRESSION_SYSTEM_PLASMID: PET-16B KEYWDS SUBSTRATE-BINDING PROTEIN OF ABC TRANSPORTER, SUGAR BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR M.MIYAKE,T.ARAKAWA,S.FUSHINOBU REVDAT 4 27-MAR-24 6LCF 1 REMARK REVDAT 3 23-DEC-20 6LCF 1 JRNL HETSYN LINK REVDAT 2 29-JUL-20 6LCF 1 COMPND REMARK LINK SITE REVDAT 2 2 1 ATOM REVDAT 1 22-APR-20 6LCF 0 JRNL AUTH M.MIYAKE,T.TERADA,M.SHIMOKAWA,N.SUGIMOTO,T.ARAKAWA, JRNL AUTH 2 K.SHIMIZU,K.IGARASHI,K.FUJITA,S.FUSHINOBU JRNL TITL STRUCTURAL ANALYSIS OF BETA-L-ARABINOBIOSE-BINDING PROTEIN JRNL TITL 2 IN THE METABOLIC PATHWAY OF HYDROXYPROLINE-RICH JRNL TITL 3 GLYCOPROTEINS IN BIFIDOBACTERIUM LONGUM. JRNL REF FEBS J. V. 287 5114 2020 JRNL REFN ISSN 1742-464X JRNL PMID 32246585 JRNL DOI 10.1111/FEBS.15315 REMARK 2 REMARK 2 RESOLUTION. 1.92 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0253 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.92 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 46.97 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 53839 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.183 REMARK 3 R VALUE (WORKING SET) : 0.182 REMARK 3 FREE R VALUE : 0.214 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.800 REMARK 3 FREE R VALUE TEST SET COUNT : 2712 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.92 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.97 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3989 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.2420 REMARK 3 BIN FREE R VALUE SET COUNT : 194 REMARK 3 BIN FREE R VALUE : 0.2610 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6046 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 38 REMARK 3 SOLVENT ATOMS : 212 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 18.17 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00000 REMARK 3 B22 (A**2) : 0.00000 REMARK 3 B33 (A**2) : -0.01000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.166 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.143 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.116 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.057 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.943 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.922 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 6206 ; 0.032 ; 0.013 REMARK 3 BOND LENGTHS OTHERS (A): 5572 ; 0.003 ; 0.017 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 8432 ; 1.684 ; 1.644 REMARK 3 BOND ANGLES OTHERS (DEGREES): 13042 ; 1.465 ; 1.590 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 804 ; 6.805 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 280 ;37.674 ;26.429 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1000 ;15.941 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 8 ;22.254 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 832 ; 0.085 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 7054 ; 0.008 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1130 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS U VALUES : REFINED INDIVIDUALLY REMARK 4 REMARK 4 6LCF COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 25-NOV-19. REMARK 100 THE DEPOSITION ID IS D_1300014564. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 23-JUN-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 3.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PHOTON FACTORY REMARK 200 BEAMLINE : BL-5A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0000 REMARK 200 MONOCHROMATOR : BARTELS MONOCHROMATOR WITH DUAL REMARK 200 CHANNEL CUT CRYSTALS (DCCM) IN (+ REMARK 200 --+) GEOMETRY REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 56566 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.920 REMARK 200 RESOLUTION RANGE LOW (A) : 46.970 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 3.700 REMARK 200 R MERGE (I) : 0.11600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 6.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.92 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.97 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.54000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.900 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: PHENIX REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 38.51 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.00 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 18% PEG 1000, 0.1M NA-CITRATE (PH REMARK 280 3.5), 0.6MM BETA-L-ARABINOBIOSE, VAPOR DIFFUSION, SITTING DROP, REMARK 280 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 26.47850 REMARK 290 SMTRY3 2 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: MONOMERIC 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: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, 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 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 MET A 6 REMARK 465 GLY A 7 REMARK 465 HIS A 8 REMARK 465 HIS A 9 REMARK 465 HIS A 10 REMARK 465 HIS A 11 REMARK 465 HIS A 12 REMARK 465 HIS A 13 REMARK 465 HIS A 14 REMARK 465 HIS A 15 REMARK 465 HIS A 16 REMARK 465 HIS A 17 REMARK 465 SER A 18 REMARK 465 SER A 19 REMARK 465 GLY A 20 REMARK 465 HIS A 21 REMARK 465 ILE A 22 REMARK 465 GLU A 23 REMARK 465 GLY A 24 REMARK 465 ARG A 25 REMARK 465 HIS A 26 REMARK 465 MET A 27 REMARK 465 GLY A 28 REMARK 465 SER A 29 REMARK 465 GLY A 30 REMARK 465 ASN A 31 REMARK 465 GLY A 32 REMARK 465 GLY A 33 REMARK 465 THR A 34 REMARK 465 ALA A 35 REMARK 465 THR A 36 REMARK 465 ALA A 37 REMARK 465 GLU A 38 REMARK 465 MET B 6 REMARK 465 GLY B 7 REMARK 465 HIS B 8 REMARK 465 HIS B 9 REMARK 465 HIS B 10 REMARK 465 HIS B 11 REMARK 465 HIS B 12 REMARK 465 HIS B 13 REMARK 465 HIS B 14 REMARK 465 HIS B 15 REMARK 465 HIS B 16 REMARK 465 HIS B 17 REMARK 465 SER B 18 REMARK 465 SER B 19 REMARK 465 GLY B 20 REMARK 465 HIS B 21 REMARK 465 ILE B 22 REMARK 465 GLU B 23 REMARK 465 GLY B 24 REMARK 465 ARG B 25 REMARK 465 HIS B 26 REMARK 465 MET B 27 REMARK 465 GLY B 28 REMARK 465 SER B 29 REMARK 465 GLY B 30 REMARK 465 ASN B 31 REMARK 465 GLY B 32 REMARK 465 GLY B 33 REMARK 465 THR B 34 REMARK 465 ALA B 35 REMARK 465 THR B 36 REMARK 465 ALA B 37 REMARK 465 GLU B 38 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 O1 FUB D 1 O HOH B 601 1.99 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 ILE A 40 CB - CA - C ANGL. DEV. = 14.8 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 156 -66.52 -103.63 REMARK 500 HIS A 337 54.74 -148.01 REMARK 500 PHE A 358 -71.10 -104.73 REMARK 500 ASP A 379 128.04 -38.55 REMARK 500 ASP B 99 51.03 37.20 REMARK 500 PHE B 156 -64.80 -106.47 REMARK 500 HIS B 337 52.98 -140.03 REMARK 500 PHE B 358 -72.84 -106.60 REMARK 500 ASP B 379 125.62 -38.71 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 GLY A 39 ILE A 40 131.92 REMARK 500 REMARK 500 REMARK: NULL DBREF1 6LCF A 28 441 UNP A0A0A1GL90_BIFLN DBREF2 6LCF A A0A0A1GL90 28 441 DBREF1 6LCF B 28 441 UNP A0A0A1GL90_BIFLN DBREF2 6LCF B A0A0A1GL90 28 441 SEQADV 6LCF MET A 6 UNP A0A0A1GL9 EXPRESSION TAG SEQADV 6LCF GLY A 7 UNP A0A0A1GL9 EXPRESSION TAG SEQADV 6LCF HIS A 8 UNP A0A0A1GL9 EXPRESSION TAG SEQADV 6LCF HIS A 9 UNP A0A0A1GL9 EXPRESSION TAG SEQADV 6LCF HIS A 10 UNP A0A0A1GL9 EXPRESSION TAG SEQADV 6LCF HIS A 11 UNP A0A0A1GL9 EXPRESSION TAG SEQADV 6LCF HIS A 12 UNP A0A0A1GL9 EXPRESSION TAG SEQADV 6LCF HIS A 13 UNP A0A0A1GL9 EXPRESSION TAG SEQADV 6LCF HIS A 14 UNP A0A0A1GL9 EXPRESSION TAG SEQADV 6LCF HIS A 15 UNP A0A0A1GL9 EXPRESSION TAG SEQADV 6LCF HIS A 16 UNP A0A0A1GL9 EXPRESSION TAG SEQADV 6LCF HIS A 17 UNP A0A0A1GL9 EXPRESSION TAG SEQADV 6LCF SER A 18 UNP A0A0A1GL9 EXPRESSION TAG SEQADV 6LCF SER A 19 UNP A0A0A1GL9 EXPRESSION TAG SEQADV 6LCF GLY A 20 UNP A0A0A1GL9 EXPRESSION TAG SEQADV 6LCF HIS A 21 UNP A0A0A1GL9 EXPRESSION TAG SEQADV 6LCF ILE A 22 UNP A0A0A1GL9 EXPRESSION TAG SEQADV 6LCF GLU A 23 UNP A0A0A1GL9 EXPRESSION TAG SEQADV 6LCF GLY A 24 UNP A0A0A1GL9 EXPRESSION TAG SEQADV 6LCF ARG A 25 UNP A0A0A1GL9 EXPRESSION TAG SEQADV 6LCF HIS A 26 UNP A0A0A1GL9 EXPRESSION TAG SEQADV 6LCF MET A 27 UNP A0A0A1GL9 EXPRESSION TAG SEQADV 6LCF MET B 6 UNP A0A0A1GL9 EXPRESSION TAG SEQADV 6LCF GLY B 7 UNP A0A0A1GL9 EXPRESSION TAG SEQADV 6LCF HIS B 8 UNP A0A0A1GL9 EXPRESSION TAG SEQADV 6LCF HIS B 9 UNP A0A0A1GL9 EXPRESSION TAG SEQADV 6LCF HIS B 10 UNP A0A0A1GL9 EXPRESSION TAG SEQADV 6LCF HIS B 11 UNP A0A0A1GL9 EXPRESSION TAG SEQADV 6LCF HIS B 12 UNP A0A0A1GL9 EXPRESSION TAG SEQADV 6LCF HIS B 13 UNP A0A0A1GL9 EXPRESSION TAG SEQADV 6LCF HIS B 14 UNP A0A0A1GL9 EXPRESSION TAG SEQADV 6LCF HIS B 15 UNP A0A0A1GL9 EXPRESSION TAG SEQADV 6LCF HIS B 16 UNP A0A0A1GL9 EXPRESSION TAG SEQADV 6LCF HIS B 17 UNP A0A0A1GL9 EXPRESSION TAG SEQADV 6LCF SER B 18 UNP A0A0A1GL9 EXPRESSION TAG SEQADV 6LCF SER B 19 UNP A0A0A1GL9 EXPRESSION TAG SEQADV 6LCF GLY B 20 UNP A0A0A1GL9 EXPRESSION TAG SEQADV 6LCF HIS B 21 UNP A0A0A1GL9 EXPRESSION TAG SEQADV 6LCF ILE B 22 UNP A0A0A1GL9 EXPRESSION TAG SEQADV 6LCF GLU B 23 UNP A0A0A1GL9 EXPRESSION TAG SEQADV 6LCF GLY B 24 UNP A0A0A1GL9 EXPRESSION TAG SEQADV 6LCF ARG B 25 UNP A0A0A1GL9 EXPRESSION TAG SEQADV 6LCF HIS B 26 UNP A0A0A1GL9 EXPRESSION TAG SEQADV 6LCF MET B 27 UNP A0A0A1GL9 EXPRESSION TAG SEQRES 1 A 436 MET GLY HIS HIS HIS HIS HIS HIS HIS HIS HIS HIS SER SEQRES 2 A 436 SER GLY HIS ILE GLU GLY ARG HIS MET GLY SER GLY ASN SEQRES 3 A 436 GLY GLY THR ALA THR ALA GLU GLY ILE PRO ALA LYS GLY SEQRES 4 A 436 THR ASP ASP GLY THR GLU ILE THR LEU TRP THR ARG SER SEQRES 5 A 436 PRO LEU GLU ARG GLN ALA LYS ASN VAL VAL GLU ALA TYR SEQRES 6 A 436 ASN LYS SER HIS LYS ASN GLN VAL LYS LEU GLU ILE ILE SEQRES 7 A 436 PRO ASN ASP ASP MET GLU GLY LYS VAL GLY GLY ALA SER SEQRES 8 A 436 GLN THR ASP SER LEU PRO ASP ILE LEU ALA GLY ASP VAL SEQRES 9 A 436 VAL ARG ILE PRO TYR TRP ALA SER GLU GLY ILE PHE THR SEQRES 10 A 436 ASP ILE THR LYS GLN ILE ASP GLY LEU ASP ASN LYS ALA SEQRES 11 A 436 ASP LEU GLN GLN GLY HIS ILE GLU ALA GLY THR VAL ASP SEQRES 12 A 436 GLY ALA GLU TYR THR LEU PRO PHE ILE THR ASP VAL SER SEQRES 13 A 436 VAL MET VAL TRP ASN LYS ASN LEU TYR LYS GLU ALA GLY SEQRES 14 A 436 LEU ASP PRO GLU GLN GLY PRO LYS SER ILE ASP GLN PHE SEQRES 15 A 436 VAL GLU GLN ALA LYS LYS VAL ALA ALA LEU ASN LYS ASP SEQRES 16 A 436 GLY VAL ALA GLY SER TYR LEU ALA GLY GLN SER GLY GLY SEQRES 17 A 436 ALA LEU VAL PHE ASP LEU PHE PRO SER VAL TRP ALA ASP SEQRES 18 A 436 GLY GLU SER VAL MET ASN LYS ASP GLY SER GLU ALA THR SEQRES 19 A 436 LEU ASP ASN ASP SER MET LYS GLY VAL LEU ASP ALA TYR SEQRES 20 A 436 LYS GLU LEU ALA ASN THR THR ASN GLY LEU GLY ALA GLY SEQRES 21 A 436 SER LYS GLU GLU THR GLY ALA THR TRP THR ALA PRO PHE SEQRES 22 A 436 ALA ASN GLY LYS ILE GLY VAL MET PRO TYR PRO ASN THR SEQRES 23 A 436 SER THR THR ALA LEU PHE ASP ALA GLU LYS ASP GLY GLY SEQRES 24 A 436 PHE GLU VAL GLY VAL ALA PRO ILE PRO GLY THR LYS GLU SEQRES 25 A 436 GLY LYS THR SER THR PHE LEU GLY GLY ASP ALA MET GLY SEQRES 26 A 436 ILE SER LYS ASP SER LYS HIS VAL ALA GLN ALA TRP ASN SEQRES 27 A 436 PHE LEU TYR TRP LEU MET GLN SER ASP ALA GLN LYS GLU SEQRES 28 A 436 VAL PHE ALA ASP GLN GLY ASP THR ALA SER ASN ILE GLN SEQRES 29 A 436 THR LEU LYS THR ALA TYR LYS ASP ALA ASP PRO ARG ILE SEQRES 30 A 436 GLN THR ILE ASN SER VAL ILE ILE ASP GLY ASN GLY GLN SEQRES 31 A 436 THR PRO LYS SER PRO ALA PHE ASN GLU ALA PHE ASN ALA SEQRES 32 A 436 ALA GLY SER PRO TRP GLN LEU LEU VAL GLN ASN ALA VAL SEQRES 33 A 436 TRP GLY SER GLY ASP LEU LYS ALA ASP ASN LYS ALA VAL SEQRES 34 A 436 THR ASP VAL LEU SER ALA GLN SEQRES 1 B 436 MET GLY HIS HIS HIS HIS HIS HIS HIS HIS HIS HIS SER SEQRES 2 B 436 SER GLY HIS ILE GLU GLY ARG HIS MET GLY SER GLY ASN SEQRES 3 B 436 GLY GLY THR ALA THR ALA GLU GLY ILE PRO ALA LYS GLY SEQRES 4 B 436 THR ASP ASP GLY THR GLU ILE THR LEU TRP THR ARG SER SEQRES 5 B 436 PRO LEU GLU ARG GLN ALA LYS ASN VAL VAL GLU ALA TYR SEQRES 6 B 436 ASN LYS SER HIS LYS ASN GLN VAL LYS LEU GLU ILE ILE SEQRES 7 B 436 PRO ASN ASP ASP MET GLU GLY LYS VAL GLY GLY ALA SER SEQRES 8 B 436 GLN THR ASP SER LEU PRO ASP ILE LEU ALA GLY ASP VAL SEQRES 9 B 436 VAL ARG ILE PRO TYR TRP ALA SER GLU GLY ILE PHE THR SEQRES 10 B 436 ASP ILE THR LYS GLN ILE ASP GLY LEU ASP ASN LYS ALA SEQRES 11 B 436 ASP LEU GLN GLN GLY HIS ILE GLU ALA GLY THR VAL ASP SEQRES 12 B 436 GLY ALA GLU TYR THR LEU PRO PHE ILE THR ASP VAL SER SEQRES 13 B 436 VAL MET VAL TRP ASN LYS ASN LEU TYR LYS GLU ALA GLY SEQRES 14 B 436 LEU ASP PRO GLU GLN GLY PRO LYS SER ILE ASP GLN PHE SEQRES 15 B 436 VAL GLU GLN ALA LYS LYS VAL ALA ALA LEU ASN LYS ASP SEQRES 16 B 436 GLY VAL ALA GLY SER TYR LEU ALA GLY GLN SER GLY GLY SEQRES 17 B 436 ALA LEU VAL PHE ASP LEU PHE PRO SER VAL TRP ALA ASP SEQRES 18 B 436 GLY GLU SER VAL MET ASN LYS ASP GLY SER GLU ALA THR SEQRES 19 B 436 LEU ASP ASN ASP SER MET LYS GLY VAL LEU ASP ALA TYR SEQRES 20 B 436 LYS GLU LEU ALA ASN THR THR ASN GLY LEU GLY ALA GLY SEQRES 21 B 436 SER LYS GLU GLU THR GLY ALA THR TRP THR ALA PRO PHE SEQRES 22 B 436 ALA ASN GLY LYS ILE GLY VAL MET PRO TYR PRO ASN THR SEQRES 23 B 436 SER THR THR ALA LEU PHE ASP ALA GLU LYS ASP GLY GLY SEQRES 24 B 436 PHE GLU VAL GLY VAL ALA PRO ILE PRO GLY THR LYS GLU SEQRES 25 B 436 GLY LYS THR SER THR PHE LEU GLY GLY ASP ALA MET GLY SEQRES 26 B 436 ILE SER LYS ASP SER LYS HIS VAL ALA GLN ALA TRP ASN SEQRES 27 B 436 PHE LEU TYR TRP LEU MET GLN SER ASP ALA GLN LYS GLU SEQRES 28 B 436 VAL PHE ALA ASP GLN GLY ASP THR ALA SER ASN ILE GLN SEQRES 29 B 436 THR LEU LYS THR ALA TYR LYS ASP ALA ASP PRO ARG ILE SEQRES 30 B 436 GLN THR ILE ASN SER VAL ILE ILE ASP GLY ASN GLY GLN SEQRES 31 B 436 THR PRO LYS SER PRO ALA PHE ASN GLU ALA PHE ASN ALA SEQRES 32 B 436 ALA GLY SER PRO TRP GLN LEU LEU VAL GLN ASN ALA VAL SEQRES 33 B 436 TRP GLY SER GLY ASP LEU LYS ALA ASP ASN LYS ALA VAL SEQRES 34 B 436 THR ASP VAL LEU SER ALA GLN HET FUB C 1 10 HET FUB C 2 9 HET FUB D 1 10 HET FUB D 2 9 HETNAM FUB BETA-L-ARABINOFURANOSE HETSYN FUB BETA-L-ARABINOSE; L-ARABINOSE; ARABINOSE FORMUL 3 FUB 4(C5 H10 O5) FORMUL 5 HOH *212(H2 O) HELIX 1 AA1 LEU A 59 HIS A 74 1 16 HELIX 2 AA2 PRO A 84 ASP A 86 5 3 HELIX 3 AA3 ASP A 87 THR A 98 1 12 HELIX 4 AA4 ARG A 111 GLU A 118 1 8 HELIX 5 AA5 ILE A 124 GLY A 130 1 7 HELIX 6 AA6 ASN A 133 LEU A 137 5 5 HELIX 7 AA7 GLN A 138 GLY A 145 1 8 HELIX 8 AA8 LYS A 167 ALA A 173 1 7 HELIX 9 AA9 SER A 183 ALA A 196 1 14 HELIX 10 AB1 SER A 211 ASP A 226 1 16 HELIX 11 AB2 ASN A 242 ASN A 257 1 16 HELIX 12 AB3 THR A 275 ASN A 280 1 6 HELIX 13 AB4 SER A 292 ASP A 302 1 11 HELIX 14 AB5 HIS A 337 GLN A 350 1 14 HELIX 15 AB6 GLN A 350 PHE A 358 1 9 HELIX 16 AB7 ALA A 359 GLY A 362 5 4 HELIX 17 AB8 ASN A 367 ALA A 374 1 8 HELIX 18 AB9 ASP A 379 ASP A 391 1 13 HELIX 19 AC1 ALA A 401 PHE A 406 1 6 HELIX 20 AC2 SER A 411 GLY A 423 1 13 HELIX 21 AC3 ASP A 426 ALA A 440 1 15 HELIX 22 AC4 LEU B 59 SER B 73 1 15 HELIX 23 AC5 PRO B 84 ASP B 86 5 3 HELIX 24 AC6 ASP B 87 THR B 98 1 12 HELIX 25 AC7 ARG B 111 GLU B 118 1 8 HELIX 26 AC8 ILE B 124 GLY B 130 1 7 HELIX 27 AC9 ASN B 133 LEU B 137 5 5 HELIX 28 AD1 GLN B 138 GLY B 145 1 8 HELIX 29 AD2 LYS B 167 GLY B 174 1 8 HELIX 30 AD3 SER B 183 ALA B 196 1 14 HELIX 31 AD4 SER B 211 ASP B 226 1 16 HELIX 32 AD5 ASN B 242 ASN B 257 1 16 HELIX 33 AD6 GLY B 265 GLU B 269 5 5 HELIX 34 AD7 THR B 275 ASN B 280 1 6 HELIX 35 AD8 SER B 292 ASP B 302 1 11 HELIX 36 AD9 HIS B 337 GLN B 350 1 14 HELIX 37 AE1 GLN B 350 PHE B 358 1 9 HELIX 38 AE2 ALA B 359 GLY B 362 5 4 HELIX 39 AE3 ASN B 367 LYS B 372 1 6 HELIX 40 AE4 ASP B 379 ASP B 391 1 13 HELIX 41 AE5 ALA B 401 PHE B 406 1 6 HELIX 42 AE6 SER B 411 GLY B 423 1 13 HELIX 43 AE7 ASP B 426 ALA B 440 1 15 SHEET 1 AA1 6 GLN A 77 ILE A 83 0 SHEET 2 AA1 6 GLU A 50 ARG A 56 1 N ILE A 51 O LYS A 79 SHEET 3 AA1 6 ILE A 104 ASP A 108 1 O ILE A 104 N THR A 52 SHEET 4 AA1 6 LEU A 324 ILE A 331 -1 O ALA A 328 N GLY A 107 SHEET 5 AA1 6 LEU A 154 ASN A 166 -1 N LEU A 154 O MET A 329 SHEET 6 AA1 6 VAL A 285 PRO A 289 -1 O MET A 286 N VAL A 164 SHEET 1 AA2 6 GLN A 77 ILE A 83 0 SHEET 2 AA2 6 GLU A 50 ARG A 56 1 N ILE A 51 O LYS A 79 SHEET 3 AA2 6 ILE A 104 ASP A 108 1 O ILE A 104 N THR A 52 SHEET 4 AA2 6 LEU A 324 ILE A 331 -1 O ALA A 328 N GLY A 107 SHEET 5 AA2 6 LEU A 154 ASN A 166 -1 N LEU A 154 O MET A 329 SHEET 6 AA2 6 VAL A 307 ALA A 310 -1 O ALA A 310 N MET A 163 SHEET 1 AA3 2 THR A 146 VAL A 147 0 SHEET 2 AA3 2 ALA A 150 GLU A 151 -1 O ALA A 150 N VAL A 147 SHEET 1 AA4 2 ILE A 312 PRO A 313 0 SHEET 2 AA4 2 THR A 320 SER A 321 -1 O SER A 321 N ILE A 312 SHEET 1 AA5 6 GLN B 77 ILE B 83 0 SHEET 2 AA5 6 GLU B 50 ARG B 56 1 N ILE B 51 O GLN B 77 SHEET 3 AA5 6 ILE B 104 ASP B 108 1 O ILE B 104 N THR B 52 SHEET 4 AA5 6 LEU B 324 ILE B 331 -1 O ALA B 328 N GLY B 107 SHEET 5 AA5 6 LEU B 154 ASN B 166 -1 N LEU B 154 O MET B 329 SHEET 6 AA5 6 VAL B 285 PRO B 289 -1 O TYR B 288 N VAL B 162 SHEET 1 AA6 6 GLN B 77 ILE B 83 0 SHEET 2 AA6 6 GLU B 50 ARG B 56 1 N ILE B 51 O GLN B 77 SHEET 3 AA6 6 ILE B 104 ASP B 108 1 O ILE B 104 N THR B 52 SHEET 4 AA6 6 LEU B 324 ILE B 331 -1 O ALA B 328 N GLY B 107 SHEET 5 AA6 6 LEU B 154 ASN B 166 -1 N LEU B 154 O MET B 329 SHEET 6 AA6 6 VAL B 307 ALA B 310 -1 O ALA B 310 N MET B 163 SHEET 1 AA7 2 THR B 146 VAL B 147 0 SHEET 2 AA7 2 ALA B 150 GLU B 151 -1 O ALA B 150 N VAL B 147 SHEET 1 AA8 2 ILE B 312 PRO B 313 0 SHEET 2 AA8 2 THR B 320 SER B 321 -1 O SER B 321 N ILE B 312 LINK O2 FUB C 1 C1 FUB C 2 1555 1555 1.35 LINK O2 FUB D 1 C1 FUB D 2 1555 1555 1.57 CISPEP 1 ALA A 440 GLN A 441 0 -16.70 CISPEP 2 GLY B 39 ILE B 40 0 27.04 CISPEP 3 ALA B 440 GLN B 441 0 -3.66 CRYST1 69.353 52.957 102.766 90.00 99.70 90.00 P 1 21 1 4 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 0.014419 0.000000 0.002465 0.00000 SCALE2 0.000000 0.018883 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009872 0.00000