HEADER TRANSPORT PROTEIN 17-OCT-05 2BBC TITLE STRUCTURE OF COBALAMIN-COMPLEXED BOVINE TRANSCOBALAMIN IN TRIGONAL TITLE 2 CRYSTAL FORM COMPND MOL_ID: 1; COMPND 2 MOLECULE: TRANSCOBALAMIN II; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: TCII, TC II; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BOS TAURUS; SOURCE 3 ORGANISM_COMMON: CATTLE; SOURCE 4 ORGANISM_TAXID: 9913; SOURCE 5 GENE: TCN2, TC2; SOURCE 6 EXPRESSION_SYSTEM: PICHIA PASTORIS; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 4922; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: SMD 1168; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_VECTOR: PPICZ(ALPHA)-LB KEYWDS ALPHA_6 - ALPHA_6 BARREL, TRANSPORT PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR J.WUERGES,G.GARAU,S.GEREMIA,S.N.FEDOSOV,T.E.PETERSEN,L.RANDACCIO REVDAT 7 23-AUG-23 2BBC 1 REMARK LINK REVDAT 6 20-NOV-19 2BBC 1 LINK REVDAT 5 11-OCT-17 2BBC 1 REMARK REVDAT 4 24-OCT-12 2BBC 1 FORMUL REVDAT 3 13-JUL-11 2BBC 1 VERSN REVDAT 2 24-FEB-09 2BBC 1 VERSN REVDAT 1 04-APR-06 2BBC 0 JRNL AUTH J.WUERGES,G.GARAU,S.GEREMIA,S.N.FEDOSOV,T.E.PETERSEN, JRNL AUTH 2 L.RANDACCIO JRNL TITL STRUCTURAL BASIS FOR MAMMALIAN VITAMIN B12 TRANSPORT BY JRNL TITL 2 TRANSCOBALAMIN. JRNL REF PROC.NATL.ACAD.SCI.USA V. 103 4386 2006 JRNL REFN ISSN 0027-8424 JRNL PMID 16537422 JRNL DOI 10.1073/PNAS.0509099103 REMARK 2 REMARK 2 RESOLUTION. 2.40 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 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 3 NUMBER OF REFLECTIONS : 27934 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) : 0.205 REMARK 3 R VALUE (WORKING SET) : 0.204 REMARK 3 FREE R VALUE : 0.240 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1192 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) : 2.40 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.46 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2011 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.82 REMARK 3 BIN R VALUE (WORKING SET) : 0.3120 REMARK 3 BIN FREE R VALUE SET COUNT : 76 REMARK 3 BIN FREE R VALUE : 0.4810 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3254 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 94 REMARK 3 SOLVENT ATOMS : 185 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : 55.70 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 54.85 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.64000 REMARK 3 B22 (A**2) : 0.64000 REMARK 3 B33 (A**2) : -0.96000 REMARK 3 B12 (A**2) : 0.32000 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): 0.251 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.208 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.160 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 12.981 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.949 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.929 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3425 ; 0.013 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4669 ; 1.543 ; 2.021 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 413 ; 6.987 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 147 ;38.804 ;23.810 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 600 ;19.003 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 26 ;21.175 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 518 ; 0.098 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2576 ; 0.005 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1830 ; 0.225 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2351 ; 0.312 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 259 ; 0.155 ; 0.200 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): 49 ; 0.290 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 16 ; 0.173 ; 0.200 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): 2068 ; 0.950 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3327 ; 1.768 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1357 ; 2.239 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1342 ; 3.590 ; 4.500 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 : 4 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 0 A 0 REMARK 3 ORIGIN FOR THE GROUP (A): 13.1378 37.8573 16.5895 REMARK 3 T TENSOR REMARK 3 T11: 0.0565 T22: -0.0639 REMARK 3 T33: 0.0080 T12: 0.0537 REMARK 3 T13: 0.0262 T23: -0.0393 REMARK 3 L TENSOR REMARK 3 L11: 2.8277 L22: 2.9900 REMARK 3 L33: 0.3774 L12: -2.6210 REMARK 3 L13: 0.8457 L23: -1.0481 REMARK 3 S TENSOR REMARK 3 S11: -0.0935 S12: 0.2459 S13: -0.2514 REMARK 3 S21: -0.0141 S22: -0.1015 S23: 0.1543 REMARK 3 S31: 0.1126 S32: -0.0330 S33: 0.1950 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 1 A 302 REMARK 3 ORIGIN FOR THE GROUP (A): 3.8219 46.7956 19.1564 REMARK 3 T TENSOR REMARK 3 T11: -0.0638 T22: -0.0398 REMARK 3 T33: -0.0492 T12: 0.0579 REMARK 3 T13: 0.0572 T23: -0.0285 REMARK 3 L TENSOR REMARK 3 L11: 0.4581 L22: 1.4019 REMARK 3 L33: 2.2260 L12: -0.0992 REMARK 3 L13: -0.0394 L23: 0.4401 REMARK 3 S TENSOR REMARK 3 S11: -0.0652 S12: 0.0613 S13: -0.0622 REMARK 3 S21: 0.1444 S22: -0.0739 S23: 0.1812 REMARK 3 S31: 0.0269 S32: -0.3042 S33: 0.1391 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 303 A 314 REMARK 3 ORIGIN FOR THE GROUP (A): 32.0789 45.7410 39.6497 REMARK 3 T TENSOR REMARK 3 T11: -0.0277 T22: -0.0456 REMARK 3 T33: -0.0027 T12: 0.0822 REMARK 3 T13: -0.0108 T23: 0.0013 REMARK 3 L TENSOR REMARK 3 L11: 48.9529 L22: 114.5577 REMARK 3 L33: 8.7558 L12: -72.9041 REMARK 3 L13: 7.0524 L23: -3.6975 REMARK 3 S TENSOR REMARK 3 S11: -1.5622 S12: -1.0252 S13: 2.5996 REMARK 3 S21: 1.5999 S22: 1.5258 S23: -3.1517 REMARK 3 S31: 0.2658 S32: -0.8435 S33: 0.0364 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 315 A 414 REMARK 3 ORIGIN FOR THE GROUP (A): 26.1130 31.0934 17.4564 REMARK 3 T TENSOR REMARK 3 T11: 0.0481 T22: -0.0991 REMARK 3 T33: -0.0535 T12: 0.0916 REMARK 3 T13: -0.0005 T23: -0.0115 REMARK 3 L TENSOR REMARK 3 L11: 1.5370 L22: 1.0937 REMARK 3 L33: 1.5418 L12: -0.5962 REMARK 3 L13: -0.3819 L23: 0.0961 REMARK 3 S TENSOR REMARK 3 S11: -0.0958 S12: 0.0459 S13: -0.0159 REMARK 3 S21: 0.0544 S22: 0.0424 S23: 0.0478 REMARK 3 S31: 0.1699 S32: 0.0450 S33: 0.0535 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK 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: ATOM RECORD CONTAINS SUM OF TLS AND REMARK 3 RESIDUAL B FACTORS REMARK 4 REMARK 4 2BBC COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 20-OCT-05. REMARK 100 THE DEPOSITION ID IS D_1000034904. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-APR-04 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ELETTRA REMARK 200 BEAMLINE : 5.2R REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL (SI111, SI220) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 29142 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.400 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.0 REMARK 200 DATA REDUNDANCY : 3.700 REMARK 200 R MERGE (I) : 0.05400 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 24.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.40 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.49 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.7 REMARK 200 DATA REDUNDANCY IN SHELL : 3.50 REMARK 200 R MERGE FOR SHELL (I) : 0.60700 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.100 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: STRUCTURE OF BOVINE TRANSCOBALAMIN IN MONOCLINIC REMARK 200 CRYSTAL FORM (PDB 2BB6). REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 69.03 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.97 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 28% PEG 8000, 0.2M MAGNESIUM ACETATE, REMARK 280 20% 2-METHYL-2,4-PENTADIOL, 0.1M TRIS 8.5, VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 293K, PH 8.5 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 31 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+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+2/3 REMARK 290 6555 -X,-X+Y,-Z+1/3 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 42.87700 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 85.75400 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 85.75400 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 42.87700 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: A 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 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 ARG A 122 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES REMARK 500 ARG A 122 NE - CZ - NH2 ANGL. DEV. = -4.7 DEGREES REMARK 500 ARG A 400 NE - CZ - NH2 ANGL. DEV. = -3.4 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 ALA A 47 44.01 -100.27 REMARK 500 ARG A 68 142.35 -34.90 REMARK 500 PRO A 69 156.01 -48.28 REMARK 500 LYS A 73 89.26 -64.43 REMARK 500 ASP A 75 -47.43 -157.88 REMARK 500 ASP A 77 -59.81 -147.22 REMARK 500 SER A 78 115.48 -12.84 REMARK 500 GLU A 79 53.61 70.34 REMARK 500 ALA A 80 113.27 -32.59 REMARK 500 HIS A 126 -87.14 17.70 REMARK 500 HIS A 128 -8.51 74.89 REMARK 500 THR A 134 -91.60 -96.54 REMARK 500 HIS A 154 136.79 -39.64 REMARK 500 LYS A 168 171.72 61.40 REMARK 500 PRO A 169 101.34 -32.33 REMARK 500 SER A 177 -82.99 -36.81 REMARK 500 SER A 241 -124.36 47.35 REMARK 500 LEU A 242 2.52 58.47 REMARK 500 ARG A 243 58.33 -145.69 REMARK 500 GLU A 306 -17.90 -161.63 REMARK 500 THR A 307 87.62 -4.68 REMARK 500 PRO A 308 107.20 -54.43 REMARK 500 ALA A 311 8.03 56.50 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 ALA A 49 LYS A 50 140.68 REMARK 500 REMARK 500 REMARK: NULL 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 B12 A 0 CO REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 175 NE2 REMARK 620 2 B12 A 0 N21 99.3 REMARK 620 3 B12 A 0 N22 94.7 89.0 REMARK 620 4 B12 A 0 N23 77.5 172.5 97.9 REMARK 620 5 B12 A 0 N24 80.4 83.9 170.6 88.9 REMARK 620 N 1 2 3 4 REMARK 650 REMARK 650 HELIX REMARK 650 DETERMINATION METHOD: AUTHOR PROVIDED REMARK 700 REMARK 700 SHEET REMARK 700 DETERMINATION METHOD: AUTHOR PROVIDED. REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 415 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 416 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 417 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE B12 A 0 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2BB5 RELATED DB: PDB REMARK 900 STRUCTURE OF COBALAMIN-COMPLEXED HUMAN TRANSCOBALAMIN REMARK 900 RELATED ID: 2BB6 RELATED DB: PDB REMARK 900 STRUCTURE OF COBALAMIN-COMPLEXED BOVINE TRANSCOBALAMIN IN REMARK 900 MONOCLINIC CRYSTAL FORM DBREF 2BBC A 1 414 UNP Q9XSC9 TCO2_BOVIN 19 432 SEQRES 1 A 414 ASN ILE CYS GLU ILE THR GLU VAL ASP SER THR LEU VAL SEQRES 2 A 414 GLU ARG LEU GLY GLN ARG LEU LEU PRO TRP MET ASP ARG SEQRES 3 A 414 LEU SER GLN GLU GLN LEU ASN PRO SER ILE TYR VAL GLY SEQRES 4 A 414 LEU ARG LEU SER SER LEU GLN ALA GLY ALA LYS GLU ALA SEQRES 5 A 414 HIS TYR LEU HIS SER LEU LYS LEU SER TYR GLN GLN SER SEQRES 6 A 414 LEU LEU ARG PRO ALA SER ASN LYS ASP ASP ASN ASP SER SEQRES 7 A 414 GLU ALA LYS PRO SER MET GLY GLN LEU ALA LEU TYR LEU SEQRES 8 A 414 LEU ALA LEU ARG ALA ASN CYS GLU PHE ILE GLY GLY ARG SEQRES 9 A 414 LYS GLY ASP ARG LEU VAL SER GLN LEU LYS ARG PHE LEU SEQRES 10 A 414 GLU ASP GLU LYS ARG ALA ILE GLY HIS ASN HIS GLN GLY SEQRES 11 A 414 HIS PRO ARG THR SER TYR TYR GLN TYR SER LEU GLY ILE SEQRES 12 A 414 LEU ALA LEU CYS VAL HIS GLN LYS ARG VAL HIS ASP SER SEQRES 13 A 414 VAL VAL GLY LYS LEU LEU TYR ALA VAL GLU HIS LYS PRO SEQRES 14 A 414 HIS LEU LEU GLN ASP HIS VAL SER VAL ASP THR MET ALA SEQRES 15 A 414 MET ALA GLY MET ALA PHE SER CYS LEU GLU LEU SER ASN SEQRES 16 A 414 LEU ASN PRO LYS GLN ARG ASN ARG ILE ASN LEU ALA LEU SEQRES 17 A 414 LYS ARG VAL GLN GLU LYS ILE LEU LYS ALA GLN THR PRO SEQRES 18 A 414 GLU GLY TYR PHE GLY ASN VAL TYR SER THR PRO LEU ALA SEQRES 19 A 414 LEU GLN LEU LEU MET GLY SER LEU ARG PRO SER VAL GLU SEQRES 20 A 414 LEU GLY THR ALA CYS LEU LYS ALA LYS ALA ALA LEU GLN SEQRES 21 A 414 ALA SER LEU GLN HIS LYS THR PHE GLN ASN PRO LEU MET SEQRES 22 A 414 ILE SER GLN LEU LEU PRO VAL LEU ASN GLN LYS SER TYR SEQRES 23 A 414 VAL ASP LEU ILE SER PRO ASP CYS GLN ALA PRO ARG ALA SEQRES 24 A 414 LEU LEU GLU PRO ALA LEU GLU THR PRO PRO GLN ALA LYS SEQRES 25 A 414 VAL PRO LYS PHE ILE ASP VAL LEU LEU LYS VAL SER GLY SEQRES 26 A 414 ILE SER PRO SER TYR ARG HIS SER VAL SER VAL PRO ALA SEQRES 27 A 414 GLY SER SER LEU GLU ASP ILE LEU LYS ASN ALA GLN GLU SEQRES 28 A 414 HIS GLY ARG PHE ARG PHE ARG THR GLN ALA SER LEU SER SEQRES 29 A 414 GLY PRO PHE LEU THR SER VAL LEU GLY ARG LYS ALA GLY SEQRES 30 A 414 GLU ARG GLU PHE TRP GLN VAL LEU ARG ASP PRO ASP THR SEQRES 31 A 414 PRO LEU GLN GLN GLY ILE ALA ASP TYR ARG PRO LYS ASP SEQRES 32 A 414 GLY GLU THR ILE GLU LEU ARG LEU VAL GLY TRP HET CL A 415 1 HET CL A 416 1 HET CL A 417 1 HET B12 A 0 91 HETNAM CL CHLORIDE ION HETNAM B12 COBALAMIN FORMUL 2 CL 3(CL 1-) FORMUL 5 B12 C62 H89 CO N13 O14 P 2+ FORMUL 6 HOH *185(H2 O) HELIX 1 1 ASP A 9 ARG A 26 1 18 HELIX 2 2 ASN A 33 SER A 43 1 11 HELIX 3 3 ALA A 49 LEU A 67 1 19 HELIX 4 4 SER A 83 ASN A 97 1 15 HELIX 5 5 GLY A 102 GLY A 125 1 24 HELIX 6 6 SER A 135 VAL A 148 1 14 HELIX 7 7 VAL A 153 GLU A 166 1 14 HELIX 8 8 VAL A 176 ASN A 195 1 20 HELIX 9 9 GLN A 200 ALA A 218 1 19 HELIX 10 10 SER A 230 MET A 239 1 10 HELIX 11 11 SER A 245 GLN A 264 1 20 HELIX 12 12 ASN A 270 ASN A 282 1 13 HELIX 13 13 SER A 285 SER A 291 5 7 HELIX 14 14 SER A 341 HIS A 352 1 12 SHEET 1 A 5 TYR A 330 ALA A 338 0 SHEET 2 A 5 LYS A 315 VAL A 323 -1 N VAL A 319 O VAL A 334 SHEET 3 A 5 GLU A 405 GLY A 413 1 O ILE A 407 N LYS A 322 SHEET 4 A 5 GLU A 380 ARG A 386 -1 N GLN A 383 O ARG A 410 SHEET 5 A 5 THR A 390 LEU A 392 -1 O THR A 390 N ARG A 386 SHEET 1 B 3 ARG A 356 SER A 362 0 SHEET 2 B 3 GLY A 365 VAL A 371 -1 O PHE A 367 N GLN A 360 SHEET 3 B 3 ARG A 374 ALA A 376 -1 O ARG A 374 N VAL A 371 SSBOND 1 CYS A 3 CYS A 252 1555 1555 2.04 SSBOND 2 CYS A 98 CYS A 294 1555 1555 2.04 SSBOND 3 CYS A 147 CYS A 190 1555 1555 2.05 LINK CO B12 A 0 NE2 HIS A 175 1555 1555 2.11 CISPEP 1 SER A 327 PRO A 328 0 4.19 CISPEP 2 ASP A 387 PRO A 388 0 4.27 SITE 1 AC1 6 B12 A 0 TYR A 229 THR A 267 GLN A 269 SITE 2 AC1 6 ASN A 270 GLN A 394 SITE 1 AC2 6 ARG A 356 PHE A 357 ARG A 358 SER A 370 SITE 2 AC2 6 LEU A 372 GLY A 373 SITE 1 AC3 3 ARG A 108 GLN A 112 ARG A 115 SITE 1 AC4 37 GLY A 85 GLN A 86 THR A 134 TYR A 137 SITE 2 AC4 37 GLN A 138 HIS A 175 ASP A 179 ASN A 227 SITE 3 AC4 37 TYR A 229 SER A 230 ASN A 270 MET A 273 SITE 4 AC4 37 GLN A 276 SER A 362 LEU A 363 SER A 364 SITE 5 AC4 37 GLY A 365 PRO A 366 PHE A 367 LEU A 368 SITE 6 AC4 37 PHE A 381 TRP A 382 GLN A 383 VAL A 384 SITE 7 AC4 37 LEU A 392 GLN A 393 GLY A 395 TRP A 414 SITE 8 AC4 37 CL A 415 HOH A 424 HOH A 430 HOH A 444 SITE 9 AC4 37 HOH A 449 HOH A 452 HOH A 457 HOH A 514 SITE 10 AC4 37 HOH A 558 CRYST1 99.570 99.570 128.631 90.00 90.00 120.00 P 31 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 0.010043 0.005798 0.000000 0.00000 SCALE2 0.000000 0.011597 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007774 0.00000