PALI—a database of Phylogeny and ALIgnment of homologous protein structures

PALI (release 1.2) contains three-dimensional (3-D) structure-dependent sequence alignments as well as structure-based phylogenetic trees of homologous protein domains in various families. The data set of homologous protein structures has been derived by consulting the SCOP database (release 1.50) and the data set comprises 604 families of homologous proteins involving 2739 protein domain structures with each family made up of at least two members. Each member in a family has been structurally aligned with every other member in the same family (pairwise alignment) and all the members in the family are also aligned using simultaneous super­position (multiple alignment). The structural alignments are performed largely automatically, with manual interventions especially in the cases of distantly related proteins, using the program STAMP (version 4.2). Every family is also associated with two dendrograms, calculated using PHYLIP (version 3.5), one based on a structural dissimilarity metric defined for every pairwise alignment and the other based on similarity of topologically equivalent residues. These dendrograms enable easy comparison of sequence and structure-based relationships among the members in a family. Structure-based alignments with the details of structural and sequence similarities, superposed coordinate sets and dendrograms can be accessed conveniently using a web interface. The database can be queried for protein pairs with sequence or structural similarities falling within a specified range. Thus PALI forms a useful resource to help in analysing the relationship between sequence and structure variation at a given level of sequence similarity. PALI also contains over 653 ‘orphans’ (single member families). Using the web interface involving PSI_BLAST and PHYLIP it is possible to associate the sequence of a new protein with one of the families in PALI and generate a phylogenetic tree combining the query sequence and proteins of known 3-D structure. The database with the web interfaced search and dendrogram generation tools can be accessed at http://pa uling.mbu.iisc.ernet.in/~pali.

Terra sonâmbula [videorecording] =: Sleepwalking land

Young Muidinga is desperate to find the family he lost while his country Mozambique was in civil war. He finds a diary that recounts the story of a woman on a ship who is searching for her son. Convinced that he is her son, Muidinga decides to find her with the help of wise guardian Tuahir.

Report.

1962 contains an account of the Sioux war, and 1962-1966 contain historical material relating to the Minnesota troups in the Civil War.

Les misérables.

Mode of access: Internet.

Annual report of the board of trustees and officers of the Indiana Soldiers' and Sailors' Children's Home for the fiscal year ending ... to the governor.

Title varies slightly.

Shimei shinpō.

Mode of access: Internet.

Tracts relating to the corn trade and corn laws : including the second report ordered to be printed by the two houses of Parliament /

Goldsmiths'-Kress no. 25512.

The orphan boy, or, A journey to Bath : to which is added, The orphan girl, founded on facts /

On separate t.p. [99]: The orphan girl; or, Sweets of benevolence: being a sequel to the Orphan boy.

Grace displayed, and Saul converted : the substance of a sermon preached in the Chapel of Newgate prison, on Sunday, Dec. 8, 1776, at the request of William Davies, who (with seven other convicts) was executed at Tyburn the Wednesday following for forgery /

Text on Acts IX, 11.

Trials of the heart /

Publisher's advertisements: v. 1, 4 p. at front.

Some notices of the character of Mrs. Sarah Parkman : (widow of the late Samuel Parkman) who died July 21st, 1835, in the LXXX. year of her age.

With: A sermon preached on the anniversary of the Boston Female Society for Destitute Orphans, September 25, 1835 / Jonathan M. Wainwright. Boston : Dutton and Wentworth, 1835.

Versuch zur Beantwortung der Frage: Wie sind Waysenhäuser anzulegen : oder die jetzigen so einzurichten, dass mit wenigern Kosten als bishero, in Zukunft eine grössere Anzahl Waysenkinder für ihre Person und zum Nutzen des Staats christlich, gesund und arbeitsam erzogen werden /

Mode of access: Internet.

Heidi /

Mode of access: Internet.

Pollyanna /

Advertisements on p. [1-6], [1]-10 at end.

Guy's self-will /

Publisher's advertisement on the back cover.