Protein Info for DVU1328 in Desulfovibrio vulgaris Hildenborough JW710

Name: rpsD
Annotation: ribosomal protein S4 (TIGR)

These analyses and tools can help you predict a protein's function, but be skeptical. For enzymes, over 10% of annotations from KEGG or SEED are probably incorrect. For other types of proteins, the error rates may be much higher. MetaCyc and Swiss-Prot have low error rates, but the best hits in these databases are often quite distant, so this protein's function may not be the same. TIGRFam has low error rates. Finally, many experimentally-characterized proteins are not in any of these databases. To find relevant papers, use PaperBLAST.

Protein Families and Features

1 50 100 150 208 TIGR01017: ribosomal protein uS4" amino acids 3 to 208 (206 residues), 248.5 bits, see alignment E=2.4e-78 PF00163: Ribosomal_S4" amino acids 3 to 97 (95 residues), 125.3 bits, see alignment E=1.4e-40 PF01479: S4" amino acids 98 to 145 (48 residues), 66.3 bits, see alignment 1.6e-22

Best Hits

Swiss-Prot: 100% identical to RS4_DESVH: 30S ribosomal protein S4 (rpsD) from Desulfovibrio vulgaris (strain Hildenborough / ATCC 29579 / DSM 644 / NCIMB 8303)

KEGG orthology group: K02986, small subunit ribosomal protein S4 (inferred from 100% identity to dvu:DVU1328)

MetaCyc: 52% identical to 30S ribosomal subunit protein S4 (Escherichia coli K-12 substr. MG1655)

Predicted SEED Role

"SSU ribosomal protein S4p (S9e)" in subsystem Ribosome SSU bacterial

Sequence Analysis Tools

PaperBLAST (search for papers about homologs of this protein)

Search CDD (the Conserved Domains Database, which includes COG and superfam)

Search structures

Predict protein localization: PSORTb (Gram-negative bacteria)

Predict transmembrane helices and signal peptides: Phobius

Check the current SEED with FIGfam search

Find homologs in fast.genomics or the ENIGMA genome browser

See Q72CF5 at UniProt or InterPro

Protein Sequence (208 amino acids)

>DVU1328 ribosomal protein S4 (TIGR) (Desulfovibrio vulgaris Hildenborough JW710)
MAKYTDAKCRQCRREGTKLFLKGDRCFTDKCAFDRRPYAPGQHGRARKKVSDYAVQLREK
QKVRRMYGILEQQFHAYFTKADMAKGVTGANLLSLLERRLDNVIYRLGFANSRNQARQLV
RHGIFTLNGRKVNIPSLQVRIGDTIEVPEKSRKIPVLAEAQEVIARRGCPAWLEADGANF
RGVVKALPQREDIQFPINEHLIVELYSK