Figure 1
Images of the most highly-cited PDB structures, taken from PDB-101, the educational portal of the RCSB PDB. In several cases, a highly-cited structure entry was the example used in the Molecule of the Month article.
Table 1
Top-cited PDB Structure Primary Citations as of March 1, 2018.
| Structure | PDB ID | Journal | Structure Primary Citation | Times Cited |
|---|---|---|---|---|
| Nucleosome | 1aoi | Nature | (Luger et al., 1997) | 4,927 |
| Potassium channel | 1bl8 | Science | (Doyle et al., 1998) | 4,695 |
| Bacteriorhodopsin | 1brd | Journal of Molecular Biology | (Henderson et al., 1990) | 4,298 |
| Rhodopsin | 1f88 | Science | (Palczewski et al., 2000) | 4,237 |
| Major histocompatibility class I | 1hla | Nature | (Bjorkman et al., 1987) | 3,081 |
| MDM2/imidazoline inhibitor | 1rv1 | Science | (Vassilev et al., 2004) | 2,649 |
| Thrombin | 2v3o/2v3h | Science | (Muller et al., 2007) | 2,596 |
| Serum albumin | 1uor | Nature | (He and Carter, 1992) | 2,552 |
| ATP Synthase F1 | 1bmf | Nature | (Abrahams et al., 1994) | 2,453 |
Figure 2
Top subject categories for publications citing the top-cited PDB structures. Common categories include Biochemistry & Molecular Biology (green), Cell Biology (orange), Biophysics (red), and Chemistry (yellow).
Table 2
Top-Cited PDB Structures in Materials Science.
| Structure | PDB ID | Journal | Structure Primary Citation | Times Cited |
|---|---|---|---|---|
| Serum albumin | 1uor* | Nature | (He and Carter, 1992) | 215 |
| Alpha-hemolysin | 7ahl | Science | (Song et al., 1996) | 140 |
| Designed DNA | 3gbi | Nature | (Zheng et al., 2009) | 138 |
| Biotin/streptavidin | 1stp | Science | (Weber et al., 1989) | 136 |
| Collagen | 3hqv/3hr2 | Proceedings of the National Academy of Sciences USA | (Orgel et al., 2006) | 116 |
| Photosystem II | 3wu2 | Nature | (Umena et al., 2011) | 100 |
| Potassium channel | 1bl8* | Science | (Doyle et al., 1998) | 95 |
| Serum albumin | 1ao6/1bm0 | Protein Engineering | (Sugio et al., 1999) | 93 |
[i] * Also appears in top cited overall list.
Table 3
Top-Cited PDB Structures in Physics.
| Structure | PDB ID | Journal | Structure Primary Citation | Times Cited |
|---|---|---|---|---|
| Photosystem I | 3pcq | Nature | (Chapman et al., 2011) | 319 |
| Potassium channel | 1bl8* | Science | (Doyle et al., 1998) | 311 |
| Nucleosome | 1aoi* | Nature | (Luger et al., 1997) | 186 |
| Photosystem II | 1s5l | Science | (Ferreira et al., 2004) | 186 |
| Photosystem II | 3wu2 | Nature | (Umena et al., 2011) | 177 |
| Alpha-spectrin sh3 domain | 1m8m | Nature | (Castellani et al., 2002) | 174 |
| Photosystem I | 1jb0 | Nature | (Jordan et al., 2001) | 148 |
| Designed TRP-cage miniprotein | 1l2y | Nature Structural Biology | (Neidigh et al., 2002) | 147 |
| Light-harvesting complex | 1lgh | Structure | (Koepke et al., 1996) | 131 |
| Alpha-hemolysin | 7ahl | Science | (Song et al., 1996) | 127 |
[i] * Also appears in top cited overall list.
Table 4
Top-Cited PDB Structures in Computer Science.
| Structure | PDB ID | Journal | Structure Primary Citation | Times Cited |
|---|---|---|---|---|
| Rhodopsin | 1f88* | Science | (Palczewski et al., 2000) | 185 |
| Beta2 adrenergic receptor | 2rh1 | Science | (Cherezov et al., 2007) | 134 |
| ZipA/inhibitor | 1y2g/1y2f | Journal of Medicinal Chemistry | (Rush et al., 2005) | 129 |
| Adenosine receptor | 3eml | Science | (Jaakola et al., 2008) | 94 |
| HIV protease/cyclic ureas | 1hvr | Science | (Lam et al., 1994) | 77 |
| Beta1 adrenergic receptor | 2vt4 | Nature | (Warne et al., 2008) | 69 |
| Beta2 adrenergic receptor | 2r4r/2r4s | Nature | (Rasmussen et al., 2007) | 67 |
| Dihydrofolate reductase | 3dfr/4dfr | Journal of Biological Chemistry | (Bolin et al., 1982) | 64 |
[i] * Also appears in top cited overall list.
Table 5
Top-Cited PDB Structures in Chemistry.
| Structure | PDB ID | Journal | Structure Primary Citation | Times Cited |
|---|---|---|---|---|
| Thrombin | 2v3o/2v3h* | Science | (Muller et al., 2007) | 2,425 |
| Serum albumin | 1uor* | Nature | (He and Carter, 1992) | 1,334 |
| Photosystem II | 1s5l | Science | (Ferreira et al., 2004) | 1,043 |
| Rhodopsin | 1f88* | Science | (Palczewski et al., 2000) | 1,003 |
| Photosystem II | 3wu2 | Nature | (Umena et al., 2011) | 936 |
| Fe-only hydrogenase | 1feh | Science | (Peters et al., 1998) | 925 |
| Potassium channel | 1bl8* | Science | (Doyle et al., 1998) | 803 |
| Hydrogenase | 1hfe | Structure | (Nicolet et al., 1999) | 743 |
| DNA quadruplex | 1k8p | Nature | (Parkinson et al., 2002) | 671 |
[i] * Also appears in top cited overall list.
Table 6
Top-Cited PDB Structures in Engineering.
| Structure | PDB ID | Journal | Structure Primary Citation | Times Cited |
|---|---|---|---|---|
| Serum albumin | 1uor* | Nature | (He and Carter, 1992) | 84 |
| Collagen | 3hqv/3hr2 | Proceedings of the National Academy of Sciences USA | (Orgel et al., 2006) | 68 |
| Potassium channel | 1bl8* | Science | (Doyle et al., 1998) | 51 |
| Fibronectin | 1fnf | Cell | (Leahy et al., 1996) | 51 |
| Photosystem II | 1s5l | Science | (Ferreira et al., 2004) | 44 |
| Lipase/inhibitor | 5tgl | Nature | (Brzozowski et al., 1991) | 43 |
| Laccase | 1gyc | Journal of Biological Chemistry | (Piontek et al., 2002) | 43 |
| Osteocalcin | 1q8h | Nature | (Hoang et al., 2003) | 42 |
| Collagen | 1cag | Science | (Bella et al., 1994) | 40 |
[i] * Also appears in top cited overall list.
Table 7
Top-Cited PDB Structures in Mathematics.
| Structure | PDB ID | Journal | Structure Primary Citation | Times Cited |
|---|---|---|---|---|
| Potassium channel | 1bl8* | Science | (Doyle et al., 1998) | 29 |
| Designed protein | 1qys | Science | (Kuhlman et al., 2003) | 24 |
| Rhodopsin | 1f88* | Science | (Palczewski et al., 2000) | 22 |
| Nucleosome | 1aoi* | Nature | (Luger et al., 1997) | 20 |
| Designed protein | 1fsv/1fsd | Science | (Dahiyat and Mayo, 1997) | 20 |
| Ribosomal subunit | 1ffk | Science | (Ban et al., 2000) | 13 |
| Bacteriorhodopsin | 1brd* | Journal of Molecular Biology | (Henderson et al., 1990) | 11 |
| Photosystem II | 2axt | Nature | (Loll et al., 2005) | 11 |
| B-DNA dodecamer | 1bna | Proceedings of the National Academy of Sciences USA | (Drew et al., 1981) | 10 |
[i] * Also appears in top cited overall list.