1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 Di Maro, S. Trotta, A.M. Brancaccio, D. Di Leva, F.S. La Pietra, V. Ierano, C. Napolitano, M. Portella, L. D'Alterio, C. Siciliano, R.A. Sementa, D. Tomassi, S. Carotenuto, A. Novellino, E. Scala, S. Marinelli, L. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic C3 H7 N O2 89.093 y ALANINE L-peptide linking C6 H15 N4 O2 1 175.209 y ARGININE L-peptide linking C3 H7 N O2 S 121.158 y CYSTEINE L-peptide linking C9 H11 N O2 165.189 y PHENYLALANINE L-peptide linking N 1 N N N 2 S C N 3 N C N 4 N O N 5 N C N 6 N O N 7 N H N 8 N H N 9 N H N 10 N H N 11 N H N 12 N H N 13 N H N 14 N N N 15 S C N 16 N C N 17 N O N 18 N C N 19 N C N 20 N C N 21 N N N 22 N C N 23 N N N 24 N N N 25 N O N 26 N H N 27 N H N 28 N H N 29 N H N 30 N H N 31 N H N 32 N H N 33 N H N 34 N H N 35 N H N 36 N H N 37 N H N 38 N H N 39 N H N 40 N H N 41 N N N 42 R C N 43 N C N 44 N O N 45 N C N 46 N S N 47 N O N 48 N H N 49 N H N 50 N H N 51 N H N 52 N H N 53 N H N 54 N H N 55 N N N 56 S C N 57 N C N 58 N O N 59 N C Y 60 N C Y 61 N C Y 62 N C Y 63 N C Y 64 N C Y 65 N C N 66 N O N 67 N H N 68 N H N 69 N H N 70 N H N 71 N H N 72 N H N 73 N H N 74 N H N 75 N H N 76 N H N 77 N H N 1 N sing N 2 N sing N 3 N sing N 4 N sing N 5 N sing N 6 N sing N 7 N doub N 8 N sing N 9 N sing N 10 N sing N 11 N sing N 12 N sing N 13 N sing N 14 N sing N 15 N sing N 16 N sing N 17 N sing N 18 N sing N 19 N doub N 20 N sing N 21 N sing N 22 N sing N 23 N sing N 24 N sing N 25 N sing N 26 N sing N 27 N sing N 28 N sing N 29 N sing N 30 N sing N 31 N sing N 32 N sing N 33 N doub N 34 N sing N 35 N sing N 36 N sing N 37 N sing N 38 N sing N 39 N sing N 40 N sing N 41 N sing N 42 N sing N 43 N sing N 44 N sing N 45 N doub N 46 N sing N 47 N sing N 48 N sing N 49 N sing N 50 N sing N 51 N sing N 52 N sing N 53 N sing N 54 N sing N 55 N sing N 56 N sing N 57 N sing N 58 N doub N 59 N sing N 60 N sing N 61 N sing N 62 N sing Y 63 N doub Y 64 N sing Y 65 N sing N 66 N sing Y 67 N doub N 68 N sing Y 69 N doub N 70 N sing Y 71 N sing N 72 N sing N 73 N sing N 74 N sing US J.Med.Chem. JMCMAR 0151 0022-2623 59 8369 8380 10.1021/acs.jmedchem.6b00695 27571038 Exploring the N-Terminal Region of C-X-C Motif Chemokine 12 (CXCL12): Identification of Plasma-Stable Cyclic Peptides As Novel, Potent C-X-C Chemokine Receptor Type 4 (CXCR4) Antagonists. 2016 10.2210/pdb5lff/pdb pdb_00005lff 10.13018/BMR34016 904.114 ARG-ALA-CYS-ARG-PHE-PHE-CYS 1 syn polymer no no RACRFFC RACRFFC A polypeptide(L) n n n n n n n chem_comp_atom chem_comp_bond database_2 pdbx_entry_details pdbx_modification_feature pdbx_nmr_software repository Initial release Database references Data collection Database references Structure summary 1 0 2016-09-07 1 1 2016-10-05 1 2 2024-10-09 _database_2.pdbx_DOI _database_2.pdbx_database_accession _pdbx_nmr_software.name N PDBE Y PDBE 2016-07-01 REL REL REL 9606 Human Homo sapiens sample 1 7 Y A CYS 3 Disulfide bridge SG A CYS 3 A CYS 7 SG A CYS 7 1_555 1_555 None structures with the lowest energy 100 10 anisotropic 1 1D 1H anisotropic 1 2D 1H-1H NOESY anisotropic 1 2D 1H-1H TOCSY anisotropic 1 2D DQF-COSY 2 mM natural abundance 200 mM deuterated 10 % deuterad 0 mM 1H_sample 5.5 pH 1 atm 298 K simulated annealing 1 2 mM Peptide 2, 200 mM deuterated SDS, 10 % deuterad H2O, 90% H2O/10% D2O 1H_sample 90% H2O/10% D2O micelle Bartels et al. chemical shift assignment XEASY Guntert, Braun and Wuthrich structure calculation DYANA Accelrys Software Inc. refinement Discover 700 Varian INOVA ARG 1 n 1 ARG 1 A ALA 2 n 2 ALA 2 A CYS 3 n 3 CYS 3 A ARG 4 n 4 ARG 4 A PHE 5 n 5 PHE 5 A PHE 6 n 6 PHE 6 A CYS 7 n 7 CYS 7 A author_and_software_defined_assembly PISA 1 monomeric 0 0 1130 1.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 1_555 identity operation 0.0000000000 0.0000000000 0.0000000000 1 3.68 0.50 120.30 123.98 A A A NE CZ NH2 ARG ARG ARG 1 1 1 N 1 3.55 0.50 120.30 123.85 A A A NE CZ NH2 ARG ARG ARG 4 4 4 N 2 3.71 0.50 120.30 124.01 A A A NE CZ NH2 ARG ARG ARG 4 4 4 N 3 -3.12 0.50 120.30 117.18 A A A NE CZ NH1 ARG ARG ARG 1 1 1 N 3 4.61 0.50 120.30 124.91 A A A NE CZ NH2 ARG ARG ARG 1 1 1 N 3 8.40 1.20 111.50 119.90 A A A CB CA C CYS CYS CYS 3 3 3 N 3 3.77 0.50 120.30 124.07 A A A NE CZ NH2 ARG ARG ARG 4 4 4 N 4 3.66 0.50 120.30 123.96 A A A NE CZ NH2 ARG ARG ARG 1 1 1 N 4 7.23 1.20 111.50 118.73 A A A CB CA C CYS CYS CYS 3 3 3 N 4 3.28 0.50 120.30 123.58 A A A NE CZ NH2 ARG ARG ARG 4 4 4 N 5 -3.11 0.50 120.30 117.19 A A A NE CZ NH1 ARG ARG ARG 4 4 4 N 5 3.69 0.50 120.30 123.99 A A A NE CZ NH2 ARG ARG ARG 4 4 4 N 6 -3.03 0.50 120.30 117.27 A A A NE CZ NH1 ARG ARG ARG 1 1 1 N 6 4.97 0.50 120.30 125.27 A A A NE CZ NH2 ARG ARG ARG 1 1 1 N 6 -4.14 0.50 120.30 116.16 A A A NE CZ NH1 ARG ARG ARG 4 4 4 N 6 4.22 0.50 120.30 124.52 A A A NE CZ NH2 ARG ARG ARG 4 4 4 N 7 3.93 0.50 120.30 124.23 A A A NE CZ NH2 ARG ARG ARG 1 1 1 N 8 4.94 0.50 120.30 125.24 A A A NE CZ NH2 ARG ARG ARG 1 1 1 N 8 3.20 0.50 120.30 123.50 A A A NE CZ NH2 ARG ARG ARG 4 4 4 N 9 -3.33 0.50 120.30 116.97 A A A NE CZ NH1 ARG ARG ARG 4 4 4 N 9 3.50 0.50 120.30 123.80 A A A NE CZ NH2 ARG ARG ARG 4 4 4 N 10 4.57 0.50 120.30 124.87 A A A NE CZ NH2 ARG ARG ARG 4 4 4 N 1 A A C O CYS CYS 7 7 0.126 0.019 1.229 1.355 N 1 A A C OXT CYS CYS 7 7 0.151 0.019 1.229 1.380 N 2 A A C O CYS CYS 7 7 0.126 0.019 1.229 1.355 N 3 A A C O CYS CYS 7 7 0.126 0.019 1.229 1.355 N 4 A A C O CYS CYS 7 7 0.126 0.019 1.229 1.355 N 5 A A C O CYS CYS 7 7 0.126 0.019 1.229 1.355 N 6 A A C O CYS CYS 7 7 0.126 0.019 1.229 1.355 N 7 A A C O CYS CYS 7 7 0.126 0.019 1.229 1.355 N 8 A A C O CYS CYS 7 7 0.126 0.019 1.229 1.355 N 9 A A C O CYS CYS 7 7 0.126 0.019 1.229 1.355 N 10 A A C O CYS CYS 7 7 0.126 0.019 1.229 1.355 N 1 A CYS 3 63.76 169.03 1 A PHE 5 -160.85 -61.54 2 A CYS 3 57.91 168.34 2 A PHE 5 -143.98 -64.35 3 A CYS 3 60.77 -142.60 3 A ARG 4 -135.04 -60.79 3 A PHE 5 -129.94 -62.00 4 A CYS 3 70.29 -137.77 4 A ARG 4 -140.89 -61.94 4 A PHE 5 -127.64 -54.48 5 A CYS 3 68.67 -175.81 5 A ARG 4 -101.21 -61.27 5 A PHE 5 -138.54 -69.19 6 A CYS 3 70.71 174.01 6 A PHE 5 -145.66 -60.64 7 A CYS 3 64.92 149.93 7 A PHE 5 -153.32 -64.29 8 A CYS 3 65.02 174.08 8 A PHE 5 -154.39 -67.61 9 A CYS 3 69.18 173.57 9 A PHE 5 -150.97 -61.30 10 A CYS 3 71.93 163.68 10 A PHE 5 -151.32 -71.41 N NMR structure of peptide 2 targeting CXCR4 1 N N disulf 1.998 A CYS 3 A SG CYS 3 1_555 A CYS 7 A SG CYS 7 1_555 CYTOKINE CXCR4, CXCL12, CXCR4 antagonists, cancer, molecular invasion, drug design, chemokine, Cytokine 5LFF PDB 1 1 5LFF 1 7 5LFF 1 7 5LFF A 1 1 7