0.012335 0.007122 0.000000 0.000000 0.014243 0.000000 0.000000 0.000000 0.011388 0.00000 0.00000 0.00000 James, T.L. Stroud, R.M. Du, Z. Fenn, S. Tjhen, R. Lee, J.K. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 18 90.00 90.00 120.00 81.069 81.069 87.815 C3 H7 N O2 89.093 y ALANINE L-peptide linking C6 H15 N4 O2 1 175.209 y ARGININE L-peptide linking C4 H8 N2 O3 132.118 y ASPARAGINE L-peptide linking C4 H7 N O4 133.103 y ASPARTIC ACID L-peptide linking C3 H7 N O2 S 121.158 y CYSTEINE L-peptide linking C4 H5 N3 O 111.102 6-AMINOPYRIMIDIN-2(1H)-ONE CYTOSINE non-polymer C10 H14 N5 O6 P 331.222 y 2'-DEOXYADENOSINE-5'-MONOPHOSPHATE DNA linking C9 H14 N3 O7 P 307.197 y 2'-DEOXYCYTIDINE-5'-MONOPHOSPHATE DNA linking C10 H15 N2 O8 P 322.208 y THYMIDINE-5'-MONOPHOSPHATE DNA linking C5 H10 N2 O3 146.144 y GLUTAMINE L-peptide linking C5 H9 N O4 147.129 y GLUTAMIC ACID L-peptide linking C2 H5 N O2 75.067 y GLYCINE peptide linking C6 H10 N3 O2 1 156.162 y HISTIDINE L-peptide linking H2 O 18.015 WATER non-polymer C6 H13 N O2 131.173 y ISOLEUCINE L-peptide linking C6 H13 N O2 131.173 y LEUCINE L-peptide linking C6 H15 N2 O2 1 147.195 y LYSINE L-peptide linking C5 H11 N O2 S 149.211 y METHIONINE L-peptide linking C5 H11 N O2 Se 196.106 n SELENOMETHIONINE L-peptide linking C5 H9 N O2 115.130 y PROLINE L-peptide linking C3 H7 N O3 105.093 y SERINE L-peptide linking C4 H9 N O3 119.119 y THREONINE L-peptide linking C9 H11 N O3 181.189 y TYROSINE L-peptide linking C5 H11 N O2 117.146 y VALINE L-peptide linking UK Nucleic Acids Res. NARHAD 0389 0305-1048 35 2651 2660 10.1093/nar/gkm139 17426136 Crystal structure of the third KH domain of human poly(C)-binding protein-2 in complex with a C-rich strand of human telomeric DNA at 1.6 A resolution. 2007 100 1 KOHZU: Double Crystal Si(111) CCD 2006-06-28 ADSC QUANTUM 210 double crystal SI(111) SINGLE WAVELENGTH M x-ray 1 1.11588 1.0 0.97945 1.0 8.3.1 ALS 1.11588, 0.97945 SYNCHROTRON ALS BEAMLINE 8.3.1 2066.401 C-rich strand of human telomeric DNA third KH domain of human Poly(C)-binding Protein 2 1 syn polymer 8135.047 Poly(rC)-binding protein 2 1 man polymer 111.102 6-AMINOPYRIMIDIN-2(1H)-ONE 1 syn non-polymer 18.015 water 81 nat water Alpha-CP2, hnRNP-E2 no no (DA)(DA)(DC)(DC)(DC)(DT)(DA) AACCCTA B polydeoxyribonucleotide no yes KAQTTSHELTIPNDLIGCIIGRQGAKINEIRQ(MSE)SGAQIKIANPVEGSTDRQVTITGSAASISLAQYLINVRLSSET KAQTTSHELTIPNDLIGCIIGRQGAKINEIRQMSGAQIKIANPVEGSTDRQVTITGSAASISLAQYLINVRLSSET A polypeptide(L) n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n human Homo Escherichia Escherichia coli sample PCBP2 9606 Homo sapiens 469008 Escherichia coli BL21(DE3) bl21(DE3) plasmid pet24a 1 2.78 55.71 VAPOR DIFFUSION, HANGING DROP 8.18 2M ammonium sulfate, 80 mM lithium sulfate, 100 mM CAPS, pH 8.18, 5% glycerol, VAPOR DIFFUSION, HANGING DROP, temperature 295K 295 ammonium sulfate 1 lithium sulfate 1 CAPS 1 glycerol 1 water 1 ammonium sulfate 2 lithium sulfate 2 CAPS 2 glycerol 2 6.834 B 499 B 500 -9.530 B_DA499:DC500_B 1 -3.200 -7.679 -0.539 0.812 pdbx_unobs_or_zero_occ_atoms software software struct_conn repository Initial release Version format compliance Version format compliance Advisory Refinement description Data collection Derived calculations Refinement description 1 0 2007-06-12 1 1 2007-10-16 1 2 2011-07-13 1 3 2017-10-18 1 4 2019-07-24 _software.classification _software.contact_author _software.contact_author_email _software.language _software.location _software.name _software.type _struct_conn.pdbx_leaving_atom_flag RCSB Y RCSB 2007-03-07 REL REL CYT 6-AMINOPYRIMIDIN-2(1H)-ONE HOH water this sequence in present in human telomeric DNA sample CYT 501 3 CYT CYT 501 A HOH 12 4 HOH HOH 12 B HOH 13 4 HOH HOH 13 B HOH 15 4 HOH HOH 15 B HOH 22 4 HOH HOH 22 B HOH 25 4 HOH HOH 25 B HOH 31 4 HOH HOH 31 B HOH 33 4 HOH HOH 33 B HOH 35 4 HOH HOH 35 B HOH 40 4 HOH HOH 40 B HOH 47 4 HOH HOH 47 B HOH 59 4 HOH HOH 59 B HOH 60 4 HOH HOH 60 B HOH 67 4 HOH HOH 67 B HOH 68 4 HOH HOH 68 B HOH 70 4 HOH HOH 70 B HOH 72 4 HOH HOH 72 B HOH 73 4 HOH HOH 73 B HOH 78 4 HOH HOH 78 B HOH 82 4 HOH HOH 82 B HOH 1 4 HOH HOH 1 A HOH 2 4 HOH HOH 2 A HOH 3 4 HOH HOH 3 A HOH 4 4 HOH HOH 4 A HOH 5 4 HOH HOH 5 A HOH 6 4 HOH HOH 6 A HOH 7 4 HOH HOH 7 A HOH 8 4 HOH HOH 8 A HOH 9 4 HOH HOH 9 A HOH 10 4 HOH HOH 10 A HOH 11 4 HOH HOH 11 A HOH 14 4 HOH HOH 14 A HOH 16 4 HOH HOH 16 A HOH 17 4 HOH HOH 17 A HOH 18 4 HOH HOH 18 A HOH 19 4 HOH HOH 19 A HOH 20 4 HOH HOH 20 A HOH 21 4 HOH HOH 21 A HOH 23 4 HOH HOH 23 A HOH 24 4 HOH HOH 24 A HOH 26 4 HOH HOH 26 A HOH 27 4 HOH HOH 27 A HOH 28 4 HOH HOH 28 A HOH 29 4 HOH HOH 29 A HOH 30 4 HOH HOH 30 A HOH 32 4 HOH HOH 32 A HOH 34 4 HOH HOH 34 A HOH 36 4 HOH HOH 36 A HOH 37 4 HOH HOH 37 A HOH 38 4 HOH HOH 38 A HOH 39 4 HOH HOH 39 A HOH 42 4 HOH HOH 42 A HOH 43 4 HOH HOH 43 A HOH 44 4 HOH HOH 44 A HOH 45 4 HOH HOH 45 A HOH 46 4 HOH HOH 46 A HOH 48 4 HOH HOH 48 A HOH 49 4 HOH HOH 49 A HOH 50 4 HOH HOH 50 A HOH 51 4 HOH HOH 51 A HOH 52 4 HOH HOH 52 A HOH 53 4 HOH HOH 53 A HOH 54 4 HOH HOH 54 A HOH 55 4 HOH HOH 55 A HOH 56 4 HOH HOH 56 A HOH 57 4 HOH HOH 57 A HOH 58 4 HOH HOH 58 A HOH 61 4 HOH HOH 61 A HOH 62 4 HOH HOH 62 A HOH 63 4 HOH HOH 63 A HOH 64 4 HOH HOH 64 A HOH 65 4 HOH HOH 65 A HOH 66 4 HOH HOH 66 A HOH 69 4 HOH HOH 69 A HOH 71 4 HOH HOH 71 A HOH 74 4 HOH HOH 74 A HOH 75 4 HOH HOH 75 A HOH 76 4 HOH HOH 76 A HOH 77 4 HOH HOH 77 A HOH 79 4 HOH HOH 79 A HOH 80 4 HOH HOH 80 A HOH 81 4 HOH HOH 81 A 0.160 0.166 22307 A 498 n 1 DA 498 B A 499 n 2 DA 499 B C 500 n 3 DC 500 B C 501 n 4 DC 501 B C 502 n 5 DC 502 B T 503 n 6 DT 503 B A 504 n 7 DA 504 B n 1 284 A n 2 285 A GLN 286 n 3 GLN 286 A THR 287 n 4 THR 287 A THR 288 n 5 THR 288 A SER 289 n 6 SER 289 A HIS 290 n 7 HIS 290 A GLU 291 n 8 GLU 291 A LEU 292 n 9 LEU 292 A THR 293 n 10 THR 293 A ILE 294 n 11 ILE 294 A PRO 295 n 12 PRO 295 A ASN 296 n 13 ASN 296 A ASP 297 n 14 ASP 297 A LEU 298 n 15 LEU 298 A ILE 299 n 16 ILE 299 A GLY 300 n 17 GLY 300 A CYS 301 n 18 CYS 301 A ILE 302 n 19 ILE 302 A ILE 303 n 20 ILE 303 A GLY 304 n 21 GLY 304 A ARG 305 n 22 ARG 305 A GLN 306 n 23 GLN 306 A GLY 307 n 24 GLY 307 A ALA 308 n 25 ALA 308 A LYS 309 n 26 LYS 309 A ILE 310 n 27 ILE 310 A ASN 311 n 28 ASN 311 A GLU 312 n 29 GLU 312 A ILE 313 n 30 ILE 313 A ARG 314 n 31 ARG 314 A GLN 315 n 32 GLN 315 A MSE 316 n 33 MSE 316 A SER 317 n 34 SER 317 A GLY 318 n 35 GLY 318 A ALA 319 n 36 ALA 319 A GLN 320 n 37 GLN 320 A ILE 321 n 38 ILE 321 A LYS 322 n 39 LYS 322 A ILE 323 n 40 ILE 323 A ALA 324 n 41 ALA 324 A ASN 325 n 42 ASN 325 A PRO 326 n 43 PRO 326 A VAL 327 n 44 VAL 327 A GLU 328 n 45 GLU 328 A GLY 329 n 46 GLY 329 A SER 330 n 47 SER 330 A THR 331 n 48 THR 331 A ASP 332 n 49 ASP 332 A ARG 333 n 50 ARG 333 A GLN 334 n 51 GLN 334 A VAL 335 n 52 VAL 335 A THR 336 n 53 THR 336 A ILE 337 n 54 ILE 337 A THR 338 n 55 THR 338 A GLY 339 n 56 GLY 339 A SER 340 n 57 SER 340 A ALA 341 n 58 ALA 341 A ALA 342 n 59 ALA 342 A SER 343 n 60 SER 343 A ILE 344 n 61 ILE 344 A SER 345 n 62 SER 345 A LEU 346 n 63 LEU 346 A ALA 347 n 64 ALA 347 A GLN 348 n 65 GLN 348 A TYR 349 n 66 TYR 349 A LEU 350 n 67 LEU 350 A ILE 351 n 68 ILE 351 A ASN 352 n 69 ASN 352 A VAL 353 n 70 VAL 353 A ARG 354 n 71 ARG 354 A LEU 355 n 72 LEU 355 A SER 356 n 73 SER 356 A SER 357 n 74 SER 357 A GLU 358 n 75 GLU 358 A n 76 359 A 3.4952 -0.9139 -0.3362 1.4278 -0.0924 0.4185 -0.0374 -0.0244 -0.1967 -0.0105 -0.0121 0.0432 -0.0364 0.0143 0.0494 -0.0686 -0.0035 -0.0017 -0.0871 -0.0120 0.0320 refined 28.6070 16.7040 42.7230 X-RAY DIFFRACTION 5.5050 -3.2472 2.2764 10.4674 -3.6751 8.5610 0.3055 0.3895 -0.5774 -0.1224 -0.1881 0.4838 0.0134 0.0910 -0.1174 -0.1941 -0.0104 -0.0121 -0.1594 -0.0700 0.0763 refined 19.9330 14.9330 37.7130 X-RAY DIFFRACTION A 287 B 4 A 357 B 74 X-RAY DIFFRACTION 1 B 498 A 1 B 504 A 7 X-RAY DIFFRACTION 2 author_defined_assembly 2 dimeric A MSE 316 SELENOMETHIONINE B MSE 33 MET 1.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 1_555 x,y,z identity operation 0.0000000000 0.0000000000 0.0000000000 A N LEU 292 B N LEU 9 A O VAL 335 B O VAL 52 A O THR 338 B O THR 55 A N GLN 320 B N GLN 37 1 A HOH 9 E HOH 1 A LYS 284 B LYS 1 1 Y 1 A ALA 285 B ALA 2 1 Y 1 A THR 359 B THR 76 1 Y 1 2.18 0.30 108.30 110.48 B B B O4' C1' N1 DT DT DT 503 503 503 N 1 -2.73 0.40 104.50 101.77 B B B O4' C4' C3' DA DA DA 504 504 504 N 1 4.20 0.30 108.30 112.50 B B B O4' C1' N9 DA DA DA 504 504 504 N 28.797 0.49 0.24 0.00 0.49 0.00 -0.73 0.952 0.939 HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS 0.24225 0.20482 0.20660 1.60 54.80 723 13842 5.0 98.04 3.052 0.056 RANDOM 1 THROUGHOUT SAD 0.104 0.095 0.80 0.80 1.20 MAXIMUM LIKELIHOOD MASK 1.60 54.80 81 795 8 137 569 0.010 0.022 730 1.349 2.212 1019 4.443 5.000 80 35.648 25.652 23 10.647 15.000 106 23.314 15.000 4 0.090 0.200 124 0.005 0.020 496 0.205 0.200 346 0.301 0.200 508 0.124 0.200 51 0.125 0.200 32 0.178 0.200 8 1.559 1.500 387 2.225 2.000 613 2.710 3.000 417 3.661 4.500 403 0.302 0.285 1.642 49 874 20 84.68 1.6 54.80 2P2R 15752 15516 2.0 2.0 .033 .036 1 22.8 6.8 98.5 0.406 1.6 1.642 7.3 .382 3.6 84.66 refinement Murshudov, G.N. ccp4@dl.ac.uk Fortran_77 http://www.ccp4.ac.uk/main.html REFMAC program data scaling Zbyszek Otwinowski zbyszek@mix.swmed.edu http://www.lnls.br/infra/linhasluz/denzo-hkl.htm SCALEPACK package phasing Axel T. Brunger axel.brunger@yale.edu Fortran_77 http://cns.csb.yale.edu/v1.1/ CNS package refinement Axel T. Brunger axel.brunger@yale.edu Fortran_77 http://cns.csb.yale.edu/v1.1/ CNS package data reduction Zbyszek Otwinowski zbyszek@mix.swmed.edu http://www.lnls.br/infra/linhasluz/denzo-hkl.htm DENZO package data extraction PDB sw-help@rcsb.rutgers.edu April. 3, 2006 C++ http://pdb.rutgers.edu/software/ PDB_EXTRACT package 2.000 data reduction HKL-2000 data scaling HKL-2000 Poly(rC)-binding protein 2/DNA Complex Crystal structure of the third KH domain of human Poly(C)-Binding Protein-2 in complex with C-rich strand of human telomeric DNA 1 N N 2 N N 3 N N 4 N N 4 N N The biological assembly is a monomer A ASN 296 B ASN 13 HELX_P A GLY 304 B GLY 21 1 1 9 A GLY 307 B GLY 24 HELX_P A GLY 318 B GLY 35 1 2 12 A SER 340 B SER 57 HELX_P A SER 356 B SER 73 1 3 17 covale 1.325 both A GLN 315 B C GLN 32 1_555 A MSE 316 B N MSE 33 1_555 covale 1.335 both A MSE 316 B C MSE 33 1_555 A SER 317 B N SER 34 1_555 hydrog DA-DC MISPAIR B DA 499 A N3 DA 2 1_555 B DC 500 A N4 DC 3 1_555 RNA AND DNA BINDING PROTEIN/DNA PROTEIN-DNA COMPLEX, RNA AND DNA BINDING PROTEIN-DNA COMPLEX PCBP2_HUMAN UNP 2 285 Q15366 AQTTSHELTIPNDLIGCIIGRQGAKINEIRQMSGAQIKIANPVEGSTDRQVTITGSAASISLAQYLINVRLSSET 2P2R PDB 1 2P2R AACCCTA 285 359 2P2R 285 359 Q15366 A 1 2 76 498 504 2P2R 498 504 2P2R B 2 1 7 1 EXPRESSION TAG LYS 284 2P2R A Q15366 UNP 1 1 MET MODIFIED RESIDUE MSE 316 2P2R A Q15366 UNP 316 33 3 anti-parallel anti-parallel A THR 288 B THR 5 A PRO 295 B PRO 12 A ASP 332 B ASP 49 A GLY 339 B GLY 56 A GLN 320 B GLN 37 A ILE 323 B ILE 40 BINDING SITE FOR RESIDUE CYT A 501 Software 4 A HOH 76 E HOH 4 1_555 A MSE 316 B MSE 33 4 3_665 A SER 317 B SER 34 4 3_665 A ALA 342 B ALA 59 4 3_665 155 H 3 2