Sequence identities, index

The amino acid compositions in Table I can be used to determine an index of sequence identities. This index (37) is an unbiased estimator of the number of loci at which an amino acid in Sequence A is different from... 

A similar comparison of cellulases from different organisms (38) concluded, using a different index of sequence identity, that there was a high probability of homology between most of the enzymes studied. 

Figure 5.2 Neighbor-joining tree of sequence similarity in the 7TM domains of human monoamine-related GPCRs. The receptors are coded according to the SwissProt nomenclature scheme orphan receptors are coded with the prefix GPR followed by an index number. Distance corresponds to percent sequence identity, scale is indicated by a 5% bar. The tree is rooted by outgrouping the node of the H, and muscarinic receptors. The numbers on the branches are the result of bootstrap analysis (1 OCX) replicates). For further details see [60].

Figure 2.2. Pairwise percentage sequence identity for 33 cupredoxins plotted against (A) hydrophobic MIF similarity index and (B) electrostatic potential similarity index. The linear regression correlation coefficients...

TM Index number Reference residue in hDAT Conservation in all 108 sequences with >20% identity (%) Conservation in all 246 sequences (%)... 

Forensic laboratories in the United States have agreed on 13 core STR loci that are most accurate for identification of an individual. Based on these 13 loci, a Combined DNA Index System (CODIS) has been established to serve as a registry of convicted offenders. If the profile of sequences from a known individual and the profile from DNA obtained at a crime scene match, the probability is approximately 82 billion to 1 that the DNA is from the same individual. In paternity cases, where the DNA of father and offspring are related but not fully identical, the identity of the father can be established with a probability of 100,000 to 1. 

Types of antisera were added in different sequences following otherwise identical experiments, e.g. in Table VI, Exp. No. 1, anti-fibrinogen preceded anti-globulin serum, and in Exp. No. 2 the sequence was reversed. On the basis of previous calibrations with step-coated surfaces (110), the entries expressed in degrees can be multiplied by about 30 to obtain thickness in angstroms for a refractive index of about 1.60. 

Let Tf denote the index set of all data elements with embedded coded verification bits. Due to the independent identically distributed key sequence k, tlie respective probabilities for detection from all data elements with index n e 2/ are given by... 

The key to useful topological state values is an appropriate form for the r, values. Hall and Kier have shown that simple forms, such as the graph distance d,j, are not useful because they fail to indicate proper topological equivalence. To ensure representation of topological equivalence, two features of the paths must be encoded (1) atomic identity and (2) the sequence of atoms in each path. It has been shown that both these characteristics can be encoded as follows. Atomic identity can be encoded using the molecular connectivity valence delta value, 8. The discussions concerning chi indexes and related quantities have shown the validity of the valence delta value as a characterization of atoms. 

In devising measures of similarity and difference between two proteins, it is sometimes clearer to note how to proceed in comparing sequences, than to do so in comparing structures. If the amino acid sequences of two proteins can be aligned, then we can either count the number of identical residues, or use a similarity index between amino acids. Such an index would take the form of a 20 x 20 matrix, M, such that each entry corresponds to a pair of amino acids and My gives a measure of the similarity between any pair... 

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