Table 2.
Alignment of Selected NHL Domains from Nine Eukaryotic Species
|
Amino Acid |
||
| Source | Position | Sequence |
| Consensus sequence | 1–27 | FDYPRGVAVDSDGO-IVVADSE--N |
| Species and proteina (GenBank accession number): | ||
| Homo sapiens: | ||
| TRIM32 (NP_036342.1) | 371–398 | FNLPVSLYVTSQGE-VLVADRG--N |
| 428–455 | NLTPLSVAMNCQGL-IGVTDSY--D | |
| 469–496 | LSKPWGITALPSGQ-FVVTDVE--G | |
| 520–550 | TCDAEGTVYFTQGLGLNL-ENRQNE | |
| 575–602 | FRCIAGMCVDARGD-LIVADSS--R | |
| 616–643 | LTCPVGIALTPKGQ-LLVLDCW--D | |
| PAM (NP_000910.1) | 683–711 | FTVPHSLALVPLLGQLCVADRE--N |
| TRIM2 (NP_056086.1) | 534–561 | FTNLQGVAASTNGK-ILIADSN--N |
| TRIM3 (NP_006449.1) | 533–560 | LQRPTGVAVDTNGD-IIVADYD--N |
| Caenorhabditis elegans: | ||
| NCL1 (AAC14263.1) | 586–613 | FTEPSGVAVNGQGD-IVVADTN--N |
| 633–662 | LLYPNRVAVNRTTGDFVVTERS--P | |
| 677–704 | LQHPRGVCVDSKGR-IIVVECK--V | |
| 720–747 | LEFPNGVCTNDKNE-ILISDNR--A | |
| LIN-41B (AAF15530.1) | 763–791 | TNYPIGVGINSLGE-VVVADNH-NN |
| 845–872 | LCRPWGICVDQRGR-VIVADRS--N | |
| 892–919 | FDRPAGITTNSLNN-IVVADKD--N | |
| 939–966 | FNYPWGVATNSHNA-IAVSDTR--N | |
| 987–1014 | LDSPRGLCYLPDGQ-LLITDFN--N | |
| 1035–1062 | FVRPQGVVIDPEGH-ILVCDSR--N | |
| 1120–1147 | LDRPTDLAVGPDGR-IYVVDFG--N | |
| YMB4 (CAA79562.1) | 712–739 | LNWPRGICALSGGL-VATCDSS--N |
| F26F4.6 (AAA91222.1) | 761–788 | LHCPSGFCLSDTDD-ILIADTN--N |
| F21F3.1 (AAB42278.1) | 279–307 | FVVPHSLSLIEDMNIVCVADRE--N |
| PAM (AAB37637.1) | 424–451 | FYLPHGIYVDKDGF-VYTTDVG--S |
| Mus musculus: | ||
| Pam (NP_038654.1) | 581–608 | FYLPHGLSIDTDGN-YWVTDVA--L |
| Trim3 (BAA83343.1) | 713–740 | LYGPQGLALTSDGH-VVVADAG--N |
| Rattus norvegicus: | ||
| Pam (NP_037132.1) | 581–608 | FYLPHGLSIDTDGN-YWVTDVA--L |
| Trim3 (AAC17997.1) | 486–513 | FTNLHPLSAASSGR-IVVADSN--N |
| Bos taurus PAM (AAA30683.1) | 779–806 | FDMPHDIAASEDGT-VYVGDAH--T |
| Equus caballus PAM (BAA06104.1) | 682–710 | FRVPHSLALVPHLGQLCVADRE--N |
| Xenopus laevis XELCAM (AAA49667.1) | 582–610 | FRIPHSLTMISDQGQLCVADRE--N |
| Drosophila melanogaster: | ||
| brat (AAF53771.1) | 780–807 | FTEPSGVAVNAQND-IIVADTN--N |
| dpld (AAF59245.1) | 537–564 | VSRPWGLCVDKMGH-VLVSDRR--N |
| cg12130 (AAF58870.1) | 387–415 | FQNPHDVAVTADGNEIYVAELN--P |
| Lymnaea stagnalis LPAM (AAD42258.1) | 1578–1605 | YFMPHGIEVDNQGN-LWLTDVA--L |
a
Each protein has up to six NHL domains (InterPro accession number IPR001258); however, only one domain from each protein is shown, except for the three after which the NHL domain was named (i.e., NCL1, HT2A [TRIM32], and LIN-41). There are six domains from TRIM32, and the mutation (i.e., D487N) is in the third NHL domain, at position 20, denoted by the underlined letter in each sequence. This aspartate is one of the most highly conserved amino acids among the NHL domains. There are currently 110 eukaryotic NHL domains in the InterPro database; of these, at position 20, 100 have an aspartate, 9 have a glutamate, and 1 has a lysine.