HEADER TRANSPORT PROTEIN 19-NOV-21 7QBF TITLE TC:CD320 IN COMPLEX WITH NANOBODY TC-NB34 COMPND MOL_ID: 1; COMPND 2 MOLECULE: TRANSCOBALAMIN-2; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: TC-2,TRANSCOBALAMIN II,TC II,TCII; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: CD320 ANTIGEN; COMPND 8 CHAIN: C; COMPND 9 SYNONYM: 8D6 ANTIGEN,FDC-SIGNALING MOLECULE 8D6,FDC-SM-8D6, COMPND 10 TRANSCOBALAMIN RECEPTOR,TCBLR; COMPND 11 ENGINEERED: YES; COMPND 12 MOL_ID: 3; COMPND 13 MOLECULE: ANTI-TRANSCOBALAMIN-2 NANOBODY TC-NB34; COMPND 14 CHAIN: B; COMPND 15 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: TCN2, TC2; SOURCE 6 EXPRESSION_SYSTEM: SPODOPTERA FRUGIPERDA; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 7108; SOURCE 8 MOL_ID: 2; SOURCE 9 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 10 ORGANISM_COMMON: HUMAN; SOURCE 11 ORGANISM_TAXID: 9606; SOURCE 12 GENE: CD320, 8D6A, UNQ198/PRO224; SOURCE 13 EXPRESSION_SYSTEM: SPODOPTERA FRUGIPERDA; SOURCE 14 EXPRESSION_SYSTEM_TAXID: 7108; SOURCE 15 MOL_ID: 3; SOURCE 16 ORGANISM_SCIENTIFIC: VICUGNA PACOS; SOURCE 17 ORGANISM_TAXID: 30538; SOURCE 18 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 19 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS TRANSCOBALAMIN, TC2, CD320, TCBLR, B12, NANOBODY, TRANSPORT PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR J.S.BLOCH,K.P.LOCHER REVDAT 2 31-JAN-24 7QBF 1 REMARK REVDAT 1 16-MAR-22 7QBF 0 JRNL AUTH J.S.BLOCH,J.M.SEQUEIRA,A.S.RAMIREZ,E.V.QUADROS,K.P.LOCHER JRNL TITL GENERATION OF NANOBODIES TARGETING THE HUMAN, JRNL TITL 2 TRANSCOBALAMIN-MEDIATED VITAMIN B 12 UPTAKE ROUTE. JRNL REF FASEB J. V. 36 22222 2022 JRNL REFN ESSN 1530-6860 JRNL PMID 35218573 JRNL DOI 10.1096/FJ.202101376RR REMARK 2 REMARK 2 RESOLUTION. 1.85 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.19.2_4158 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 : GEOSTD + MONOMER LIBRARY + CDL V1.2 REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.85 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 49.27 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.210 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 150779 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.176 REMARK 3 R VALUE (WORKING SET) : 0.174 REMARK 3 FREE R VALUE : 0.205 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.990 REMARK 3 FREE R VALUE TEST SET COUNT : 7523 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 49.2700 - 5.7600 1.00 4792 247 0.2013 0.2011 REMARK 3 2 5.7600 - 4.5700 1.00 4796 249 0.1479 0.1710 REMARK 3 3 4.5700 - 3.9900 0.99 4734 253 0.1289 0.1531 REMARK 3 4 3.9900 - 3.6300 1.00 4802 250 0.1471 0.1788 REMARK 3 5 3.6300 - 3.3700 1.00 4788 247 0.1577 0.1911 REMARK 3 6 3.3700 - 3.1700 1.00 4777 247 0.1762 0.2191 REMARK 3 7 3.1700 - 3.0100 1.00 4802 246 0.1849 0.2349 REMARK 3 8 3.0100 - 2.8800 1.00 4767 249 0.1739 0.2231 REMARK 3 9 2.8800 - 2.7700 1.00 4797 252 0.1605 0.1705 REMARK 3 10 2.7700 - 2.6700 1.00 4809 249 0.1630 0.1973 REMARK 3 11 2.6700 - 2.5900 1.00 4798 250 0.1662 0.2032 REMARK 3 12 2.5900 - 2.5200 1.00 4786 260 0.1600 0.1924 REMARK 3 13 2.5200 - 2.4500 1.00 4786 251 0.1691 0.2229 REMARK 3 14 2.4500 - 2.3900 1.00 4754 244 0.1664 0.2054 REMARK 3 15 2.3900 - 2.3400 1.00 4804 253 0.1663 0.2107 REMARK 3 16 2.3400 - 2.2900 1.00 4764 254 0.1739 0.2052 REMARK 3 17 2.2900 - 2.2400 1.00 4779 253 0.1808 0.2190 REMARK 3 18 2.2400 - 2.2000 1.00 4780 246 0.1838 0.2302 REMARK 3 19 2.2000 - 2.1600 1.00 4826 256 0.1890 0.2190 REMARK 3 20 2.1600 - 2.1200 1.00 4757 246 0.2038 0.2500 REMARK 3 21 2.1200 - 2.0900 1.00 4762 256 0.2220 0.2657 REMARK 3 22 2.0900 - 2.0600 1.00 4780 253 0.2253 0.2512 REMARK 3 23 2.0600 - 2.0300 1.00 4841 252 0.2293 0.2837 REMARK 3 24 2.0300 - 2.0000 1.00 4736 253 0.2325 0.2619 REMARK 3 25 2.0000 - 1.9700 1.00 4813 256 0.2437 0.2551 REMARK 3 26 1.9700 - 1.9400 1.00 4766 255 0.2529 0.2772 REMARK 3 27 1.9400 - 1.9200 1.00 4801 256 0.2543 0.2746 REMARK 3 28 1.9200 - 1.9000 1.00 4781 251 0.2725 0.3081 REMARK 3 29 1.9000 - 1.8700 1.00 4774 254 0.2942 0.2901 REMARK 3 30 1.8700 - 1.8500 0.93 4504 235 0.3129 0.3312 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) : 0.201 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 20.657 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 31.94 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 40.38 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 : 0.012 5226 REMARK 3 ANGLE : 2.577 7099 REMARK 3 CHIRALITY : 0.213 759 REMARK 3 PLANARITY : 0.009 900 REMARK 3 DIHEDRAL : 21.111 1914 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 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 7QBF COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 19-NOV-21. REMARK 100 THE DEPOSITION ID IS D_1292117820. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 11-MAR-16 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 : SLS REMARK 200 BEAMLINE : X06SA 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 : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 16M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 158598 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.850 REMARK 200 RESOLUTION RANGE LOW (A) : 49.270 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.2 REMARK 200 DATA REDUNDANCY : 2.000 REMARK 200 R MERGE (I) : 0.02720 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 1.8900 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.85 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.92 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: 4ZRP REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 59.25 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.02 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 200 MM AMMONIUM IODIDE, 16% W/V PEG REMARK 280 3350 AND 1.4 X 105-FOLD DILUTED SEED STOCKS FROM CRYSTALS OF THE REMARK 280 SAME PROTEIN, GROWN IN SIMILAR CONDITIONS, VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 293.15K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+3/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+3/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 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 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 83.73000 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 52.41100 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 52.41100 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 125.59500 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 52.41100 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 52.41100 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 41.86500 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 52.41100 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 52.41100 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 125.59500 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 52.41100 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 52.41100 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 41.86500 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 83.73000 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 14480 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 26990 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: 53.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, C, 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 675 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 868 LIES ON A SPECIAL POSITION. 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 C 52 REMARK 465 ILE C 91 REMARK 465 GLU C 92 REMARK 465 PRO C 93 REMARK 465 CYS C 94 REMARK 465 THR C 95 REMARK 465 GLN C 96 REMARK 465 LYS C 97 REMARK 465 GLY C 98 REMARK 465 GLN C 99 REMARK 465 CYS C 100 REMARK 465 PRO C 101 REMARK 465 PRO C 102 REMARK 465 PRO C 103 REMARK 465 PRO C 104 REMARK 465 GLY C 105 REMARK 465 LEU C 106 REMARK 465 PRO C 107 REMARK 465 CYS C 108 REMARK 465 PRO C 109 REMARK 465 CYS C 110 REMARK 465 THR C 111 REMARK 465 GLY C 112 REMARK 465 VAL C 113 REMARK 465 SER C 114 REMARK 465 ASP C 115 REMARK 465 CYS C 116 REMARK 465 SER C 117 REMARK 465 GLY C 118 REMARK 465 GLY C 119 REMARK 465 THR C 120 REMARK 465 ASP C 121 REMARK 465 LYS C 122 REMARK 465 LYS C 123 REMARK 465 LEU C 124 REMARK 465 ARG C 125 REMARK 465 ASN C 126 REMARK 465 CYS C 127 REMARK 465 SER C 128 REMARK 465 ARG C 129 REMARK 465 LEU C 130 REMARK 465 GLU C 171 REMARK 465 ILE C 172 REMARK 465 LEU C 173 REMARK 465 PRO C 174 REMARK 465 GLU C 175 REMARK 465 GLY C 176 REMARK 465 ASP C 177 REMARK 465 ALA C 178 REMARK 465 THR C 179 REMARK 465 THR C 180 REMARK 465 MET C 181 REMARK 465 GLY C 182 REMARK 465 PRO C 183 REMARK 465 PRO C 184 REMARK 465 VAL C 185 REMARK 465 THR C 186 REMARK 465 LEU C 187 REMARK 465 GLU C 188 REMARK 465 SER C 189 REMARK 465 VAL C 190 REMARK 465 THR C 191 REMARK 465 SER C 192 REMARK 465 LEU C 193 REMARK 465 ARG C 194 REMARK 465 ASN C 195 REMARK 465 ALA C 196 REMARK 465 THR C 197 REMARK 465 THR C 198 REMARK 465 GLN B 1 REMARK 465 TRP B 2 REMARK 465 GLN B 3 REMARK 465 GLY B 106 REMARK 465 SER B 107 REMARK 465 HIS B 132 REMARK 465 HIS B 133 REMARK 465 HIS B 134 REMARK 465 GLU B 135 REMARK 465 PRO B 136 REMARK 465 GLU B 137 REMARK 465 ALA B 138 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 HH22 ARG B 67 OD2 ASP B 90 1.46 REMARK 500 HG SER C 142 O HOH C 301 1.51 REMARK 500 OG SER C 142 O HOH C 301 1.72 REMARK 500 O HOH A 883 O HOH B 360 2.08 REMARK 500 O2 EDO A 525 O HOH A 601 2.08 REMARK 500 O HOH A 713 O HOH A 849 2.09 REMARK 500 OD1 ASN A 192 O HOH A 602 2.11 REMARK 500 O HOH A 831 O HOH A 864 2.12 REMARK 500 O HOH A 763 O HOH A 787 2.13 REMARK 500 O HOH A 829 O HOH A 843 2.15 REMARK 500 O HOH A 694 O HOH A 732 2.19 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 CYS B 96 CB CYS B 96 SG -0.116 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 MET A 24 CG - SD - CE ANGL. DEV. = -18.9 DEGREES REMARK 500 ARG A 209 NE - CZ - NH2 ANGL. DEV. = -3.0 DEGREES REMARK 500 ASP A 290 CB - CG - OD1 ANGL. DEV. = 5.9 DEGREES REMARK 500 ASP A 290 CB - CG - OD2 ANGL. DEV. = -6.5 DEGREES REMARK 500 CYS C 54 CA - CB - SG ANGL. DEV. = 6.6 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 THR A 134 -92.30 -103.07 REMARK 500 GLU A 244 58.39 -95.03 REMARK 500 ILE A 305 76.92 62.72 REMARK 500 ARG A 374 29.75 49.61 REMARK 500 ARG C 76 -37.08 82.11 REMARK 500 VAL B 5 -72.00 -95.72 REMARK 500 SER B 63 -17.89 -48.29 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 GLN B 39 10.24 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 CA C 202 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 TRP C 72 O REMARK 620 2 ASP C 75 OD1 87.7 REMARK 620 3 ASP C 77 O 174.5 91.4 REMARK 620 4 ASP C 79 OD2 97.9 88.1 87.5 REMARK 620 5 ASP C 85 OD1 98.3 173.1 82.9 87.6 REMARK 620 6 GLU C 86 OE2 88.9 85.1 85.6 170.2 98.4 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA C 201 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 TRP C 150 O REMARK 620 2 ASP C 153 OD1 86.0 REMARK 620 3 HIS C 155 O 172.2 87.3 REMARK 620 4 ASP C 157 OD2 98.3 98.9 86.8 REMARK 620 5 ASP C 163 OD2 101.7 169.9 84.5 86.5 REMARK 620 6 GLU C 164 OE2 91.6 79.5 83.2 169.9 93.7 REMARK 620 N 1 2 3 4 5 DBREF 7QBF A 1 409 UNP P20062 TCO2_HUMAN 19 427 DBREF 7QBF C 52 198 UNP Q9NPF0 CD320_HUMAN 52 198 DBREF 7QBF B 1 138 PDB 7QBF 7QBF 1 138 SEQRES 1 A 409 GLU MET CYS GLU ILE PRO GLU MET ASP SER HIS LEU VAL SEQRES 2 A 409 GLU LYS LEU GLY GLN HIS LEU LEU PRO TRP MET ASP ARG SEQRES 3 A 409 LEU SER LEU GLU HIS LEU ASN PRO SER ILE TYR VAL GLY SEQRES 4 A 409 LEU ARG LEU SER SER LEU GLN ALA GLY THR LYS GLU ASP SEQRES 5 A 409 LEU TYR LEU HIS SER LEU LYS LEU GLY TYR GLN GLN CYS SEQRES 6 A 409 LEU LEU GLY SER ALA PHE SER GLU ASP ASP GLY ASP CYS SEQRES 7 A 409 GLN GLY LYS PRO SER MET GLY GLN LEU ALA LEU TYR LEU SEQRES 8 A 409 LEU ALA LEU ARG ALA ASN CYS GLU PHE VAL ARG GLY HIS SEQRES 9 A 409 LYS GLY ASP ARG LEU VAL SER GLN LEU LYS TRP PHE LEU SEQRES 10 A 409 GLU ASP GLU LYS ARG ALA ILE GLY HIS ASP HIS LYS GLY SEQRES 11 A 409 HIS PRO HIS THR SER TYR TYR GLN TYR GLY LEU GLY ILE SEQRES 12 A 409 LEU ALA LEU CYS LEU HIS GLN LYS ARG VAL HIS ASP SER SEQRES 13 A 409 VAL VAL ASP LYS LEU LEU TYR ALA VAL GLU PRO PHE HIS SEQRES 14 A 409 GLN GLY HIS HIS SER VAL ASP THR ALA ALA MET ALA GLY SEQRES 15 A 409 LEU ALA PHE THR CYS LEU LYS ARG SER ASN PHE ASN PRO SEQRES 16 A 409 GLY ARG ARG GLN ARG ILE THR MET ALA ILE ARG THR VAL SEQRES 17 A 409 ARG GLU GLU ILE LEU LYS ALA GLN THR PRO GLU GLY HIS SEQRES 18 A 409 PHE GLY ASN VAL TYR SER THR PRO LEU ALA LEU GLN PHE SEQRES 19 A 409 LEU MET THR SER PRO MET ARG GLY ALA GLU LEU GLY THR SEQRES 20 A 409 ALA CYS LEU LYS ALA ARG VAL ALA LEU LEU ALA SER LEU SEQRES 21 A 409 GLN ASP GLY ALA PHE GLN ASN ALA LEU MET ILE SER GLN SEQRES 22 A 409 LEU LEU PRO VAL LEU ASN HIS LYS THR TYR ILE ASP LEU SEQRES 23 A 409 ILE PHE PRO ASP CYS LEU ALA PRO ARG VAL MET LEU GLU SEQRES 24 A 409 PRO ALA ALA GLU THR ILE PRO GLN THR GLN GLU ILE ILE SEQRES 25 A 409 SER VAL THR LEU GLN VAL LEU SER LEU LEU PRO PRO TYR SEQRES 26 A 409 ARG GLN SER ILE SER VAL LEU ALA GLY SER THR VAL GLU SEQRES 27 A 409 ASP VAL LEU LYS LYS ALA HIS GLU LEU GLY GLY PHE THR SEQRES 28 A 409 TYR GLU THR GLN ALA SER LEU SER GLY PRO TYR LEU THR SEQRES 29 A 409 SER VAL MET GLY LYS ALA ALA GLY GLU ARG GLU PHE TRP SEQRES 30 A 409 GLN LEU LEU ARG ASP PRO ASN THR PRO LEU LEU GLN GLY SEQRES 31 A 409 ILE ALA ASP TYR ARG PRO LYS ASP GLY GLU THR ILE GLU SEQRES 32 A 409 LEU ARG LEU VAL SER TRP SEQRES 1 C 147 GLY SER CYS PRO PRO THR LYS PHE GLN CYS ARG THR SER SEQRES 2 C 147 GLY LEU CYS VAL PRO LEU THR TRP ARG CYS ASP ARG ASP SEQRES 3 C 147 LEU ASP CYS SER ASP GLY SER ASP GLU GLU GLU CYS ARG SEQRES 4 C 147 ILE GLU PRO CYS THR GLN LYS GLY GLN CYS PRO PRO PRO SEQRES 5 C 147 PRO GLY LEU PRO CYS PRO CYS THR GLY VAL SER ASP CYS SEQRES 6 C 147 SER GLY GLY THR ASP LYS LYS LEU ARG ASN CYS SER ARG SEQRES 7 C 147 LEU ALA CYS LEU ALA GLY GLU LEU ARG CYS THR LEU SER SEQRES 8 C 147 ASP ASP CYS ILE PRO LEU THR TRP ARG CYS ASP GLY HIS SEQRES 9 C 147 PRO ASP CYS PRO ASP SER SER ASP GLU LEU GLY CYS GLY SEQRES 10 C 147 THR ASN GLU ILE LEU PRO GLU GLY ASP ALA THR THR MET SEQRES 11 C 147 GLY PRO PRO VAL THR LEU GLU SER VAL THR SER LEU ARG SEQRES 12 C 147 ASN ALA THR THR SEQRES 1 B 137 GLN TRP GLN LEU VAL GLU SER GLY GLY GLY LEU VAL GLN SEQRES 2 B 137 PRO GLY GLY SER LEU ARG LEU SER CYS ALA ALA SER GLY SEQRES 3 B 137 SER THR PHE SER SER TYR ALA MET GLY TRP TYR ARG GLN SEQRES 4 B 137 ALA PRO GLY LYS GLU CYS GLU LEU VAL ALA ALA ILE SER SEQRES 5 B 137 ARG ALA GLY GLY SER THR ASN TYR ALA ASP SER VAL LYS SEQRES 6 B 137 GLY ARG PHE THR ILE SER ARG ASP ASN ALA LYS ASN THR SEQRES 7 B 137 VAL TYR LEU GLN MET ASN SER LEU LYS PRO GLU ASP THR SEQRES 8 B 137 ALA VAL TYR TYR CYS ASN ALA ALA ALA GLU GLY GLU THR SEQRES 9 B 137 GLY SER ASN TRP SER LEU CYS GLU GLU TYR ASP TYR TRP SEQRES 10 B 137 GLY LYS GLY THR ARG VAL THR VAL SER SER HIS HIS HIS SEQRES 11 B 137 HIS HIS HIS GLU PRO GLU ALA HET IOD A 501 1 HET IOD A 502 1 HET IOD A 503 1 HET IOD A 504 1 HET IOD A 505 1 HET IOD A 506 1 HET IOD A 507 1 HET IOD A 508 1 HET IOD A 509 1 HET IOD A 510 1 HET IOD A 511 1 HET IOD A 512 1 HET EDO A 513 10 HET EDO A 514 10 HET EDO A 515 10 HET EDO A 516 10 HET EDO A 517 10 HET EDO A 518 10 HET EDO A 519 10 HET EDO A 520 10 HET EDO A 521 10 HET EDO A 522 10 HET EDO A 523 10 HET EDO A 524 10 HET EDO A 525 10 HET EDO A 526 10 HET EDO A 527 10 HET EDO A 528 10 HET EDO A 529 10 HET EDO A 530 10 HET EDO A 531 10 HET EDO A 532 10 HET EDO A 533 10 HET EDO A 534 10 HET EDO A 535 10 HET CNC A 536 186 HET CA C 201 1 HET CA C 202 1 HET IOD C 203 1 HET IOD C 204 1 HET IOD C 205 1 HET IOD C 206 1 HET EDO C 207 10 HET EDO B 201 10 HET EDO B 202 10 HET EDO B 203 10 HETNAM IOD IODIDE ION HETNAM EDO 1,2-ETHANEDIOL HETNAM CNC CYANOCOBALAMIN HETNAM CA CALCIUM ION HETSYN EDO ETHYLENE GLYCOL FORMUL 4 IOD 16(I 1-) FORMUL 16 EDO 27(C2 H6 O2) FORMUL 39 CNC C63 H89 CO N14 O14 P 2+ FORMUL 40 CA 2(CA 2+) FORMUL 50 HOH *407(H2 O) HELIX 1 AA1 ASP A 9 LEU A 21 1 13 HELIX 2 AA2 PRO A 22 ARG A 26 5 5 HELIX 3 AA3 ASN A 33 LEU A 42 1 10 HELIX 4 AA4 GLY A 48 LEU A 67 1 20 HELIX 5 AA5 SER A 83 ASN A 97 1 15 HELIX 6 AA6 ARG A 102 GLY A 125 1 24 HELIX 7 AA7 SER A 135 HIS A 149 1 15 HELIX 8 AA8 HIS A 154 GLU A 166 1 13 HELIX 9 AA9 SER A 174 ASN A 192 1 19 HELIX 10 AB1 ASN A 194 GLY A 196 5 3 HELIX 11 AB2 ARG A 197 ALA A 215 1 19 HELIX 12 AB3 SER A 227 MET A 236 1 10 HELIX 13 AB4 GLU A 244 ASP A 262 1 19 HELIX 14 AB5 ASN A 267 LEU A 275 1 9 HELIX 15 AB6 PRO A 276 HIS A 280 5 5 HELIX 16 AB7 THR A 282 ILE A 287 5 6 HELIX 17 AB8 THR A 336 GLY A 348 1 13 HELIX 18 AB9 THR C 71 ARG C 73 5 3 HELIX 19 AC1 GLY C 83 GLU C 87 5 5 HELIX 20 AC2 THR C 149 ARG C 151 5 3 HELIX 21 AC3 SER C 161 LEU C 165 5 5 HELIX 22 AC4 THR B 28 TYR B 32 5 5 HELIX 23 AC5 ASP B 62 LYS B 65 5 4 HELIX 24 AC6 LYS B 87 THR B 91 5 5 HELIX 25 AC7 LEU B 111 TYR B 115 5 5 SHEET 1 AA1 2 LEU A 45 GLN A 46 0 SHEET 2 AA1 2 VAL A 296 MET A 297 1 O VAL A 296 N GLN A 46 SHEET 1 AA2 5 TYR A 325 LEU A 332 0 SHEET 2 AA2 5 ILE A 311 VAL A 318 -1 N VAL A 314 O ILE A 329 SHEET 3 AA2 5 THR A 401 SER A 408 1 O ILE A 402 N THR A 315 SHEET 4 AA2 5 GLU A 375 ARG A 381 -1 N GLN A 378 O ARG A 405 SHEET 5 AA2 5 THR A 385 PRO A 386 -1 O THR A 385 N ARG A 381 SHEET 1 AA3 3 TYR A 352 GLN A 355 0 SHEET 2 AA3 3 TYR A 362 VAL A 366 -1 O TYR A 362 N GLN A 355 SHEET 3 AA3 3 LYS A 369 ALA A 370 -1 O LYS A 369 N VAL A 366 SHEET 1 AA4 2 LYS C 58 GLN C 60 0 SHEET 2 AA4 2 CYS C 67 PRO C 69 -1 O VAL C 68 N PHE C 59 SHEET 1 AA5 2 GLU C 136 ARG C 138 0 SHEET 2 AA5 2 CYS C 145 PRO C 147 -1 O ILE C 146 N LEU C 137 SHEET 1 AA6 4 GLU B 6 SER B 7 0 SHEET 2 AA6 4 LEU B 18 ALA B 23 -1 O SER B 21 N SER B 7 SHEET 3 AA6 4 THR B 78 MET B 83 -1 O MET B 83 N LEU B 18 SHEET 4 AA6 4 PHE B 68 ASP B 73 -1 N SER B 71 O TYR B 80 SHEET 1 AA7 6 GLY B 10 VAL B 12 0 SHEET 2 AA7 6 THR B 122 VAL B 126 1 O THR B 125 N GLY B 10 SHEET 3 AA7 6 ALA B 92 ALA B 99 -1 N ALA B 92 O VAL B 124 SHEET 4 AA7 6 ALA B 33 GLN B 39 -1 N TYR B 37 O TYR B 95 SHEET 5 AA7 6 CYS B 45 ILE B 51 -1 O VAL B 48 N TRP B 36 SHEET 6 AA7 6 THR B 58 TYR B 60 -1 O ASN B 59 N ALA B 50 SSBOND 1 CYS A 3 CYS A 249 1555 1555 2.08 SSBOND 2 CYS A 65 CYS A 78 1555 1555 2.07 SSBOND 3 CYS A 98 CYS A 291 1555 1555 2.02 SSBOND 4 CYS A 147 CYS A 187 1555 1555 2.14 SSBOND 5 CYS C 54 CYS C 67 1555 1555 2.02 SSBOND 6 CYS C 61 CYS C 80 1555 1555 2.04 SSBOND 7 CYS C 74 CYS C 89 1555 1555 2.00 SSBOND 8 CYS C 132 CYS C 145 1555 1555 2.03 SSBOND 9 CYS C 139 CYS C 158 1555 1555 2.01 SSBOND 10 CYS C 152 CYS C 167 1555 1555 2.05 SSBOND 11 CYS B 22 CYS B 96 1555 1555 2.05 SSBOND 12 CYS B 45 CYS B 112 1555 1555 2.07 LINK O TRP C 72 CA CA C 202 1555 1555 2.25 LINK OD1 ASP C 75 CA CA C 202 1555 1555 2.34 LINK O ASP C 77 CA CA C 202 1555 1555 2.24 LINK OD2 ASP C 79 CA CA C 202 1555 1555 2.31 LINK OD1 ASP C 85 CA CA C 202 1555 1555 2.33 LINK OE2 GLU C 86 CA CA C 202 1555 1555 2.39 LINK O TRP C 150 CA CA C 201 1555 1555 2.31 LINK OD1 ASP C 153 CA CA C 201 1555 1555 2.36 LINK O HIS C 155 CA CA C 201 1555 1555 2.27 LINK OD2 ASP C 157 CA CA C 201 1555 1555 2.25 LINK OD2 ASP C 163 CA CA C 201 1555 1555 2.19 LINK OE2 GLU C 164 CA CA C 201 1555 1555 2.33 CISPEP 1 LYS A 81 PRO A 82 0 -8.09 CISPEP 2 LEU A 322 PRO A 323 0 0.85 CISPEP 3 ASP A 382 PRO A 383 0 -1.63 CRYST1 104.822 104.822 167.460 90.00 90.00 90.00 P 43 21 2 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 0.009540 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009540 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005972 0.00000