... 3 by_name = {} . 4 """A dictionary of default markup name -> markup class.""" . ... 6 def update ( * args ): . ... 12 for markup_class in args : . 13 class_name = markup_class . ... 15 globals ()[ class_name ] = markup_class . ... 20 if hasattr ( markup_class , 'name' ) and hasattr ( markup_class , 'kind' ): . ... 23 by_name [ fullname ] = markup_class . ... add_markup ( name , markup_class = cls ) . ... 39 def to_record ( self ): . ... 48 for number , monomer in enumerate ( self . ...

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• allpy: 116f5bfc39b8 allpy/markups.py
• allpy: 53800c7e3458 allpy/markups.py
• allpy: 6861b1e2c519 allpy/markups.py

... Algorithm & . Format requirements . ... SDPsite is a tool for identification of protein active and other functional sites, based on spatial clustering of SDPs (specificity-determining positions, described here ) with CPs (conserved positions). ... Mapping predictied positions onto structure and construction of the best cluster . ... The input data of the algorithm are a multiple protein alignment divided into specificity groups . ... is called statistical significance of the set of k* positions . ...

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• SDPsite - PF07978
• SDPsite - PF01399
• SDPsite - PF01026

... List of solitary restriction endonucleases in complete prokaryotic genomes . List of groups of orthologous R-M systems. List of all analyzed genomes. Contains those orthologous groups that include at least one separated R-M system . R-M orthologous group ID . REs alignments . MTases alignment . Group 1 . ...

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S .. ... a database of structures of DNA-protein and RNA-protein complexes. ... a program for finding hydrophobic clusters in 3D structures of macromolecules . ... search of conserved hydrophobic clusters in aligned 3D structures of protein families . ... a program for analysis of multiple alignments . ... a program for automatic detection of aligned blocks in a multiple protein alignment. ... a program for detection of aligned blocks in a multiple alignment of sequences of PDB chains. ...

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• HTH3_numeration_assumed
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• ETS_all_contacts alignment

S .. ... SNP regions in the dataset are 21bp fragments of the genome containing SNP in the middle position . ... Word frequencies in SNP regions of the human genome (zip file, 66 MB) . ... Word frequencies in SNP regions of the human genome (xls file, 1.2 MB) . The file contains the frequency of each word of length 1, 2, 3, 4 or 5 in flanks of SNP regions for several criteria of SNP selection. These frequencies are compared to the frequencies of the same words in the complete human genome . ...

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• ConClus
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... Lathrop R.H., Rogers Jr R.G., Smith T.F. - A Bayes-optimal sequence-structure theory that unifies protein sequence-structure recognition and alignment . ... Название: A Bayes-optimal sequence-structure theory that unifies protein sequence-structure recognition and alignment . Авторы: Lathrop R.H., Rogers Jr R.G., Smith T.F. Аннотация: . A rigorous Bayesian analysis is presented that unifies protein sequence-structure alignment and recognition. ...

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• Heggins D., Taylor W. - Bioinformatics: Sequence, Structure and Databanks ::
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• Levine J.P. - Algebraic Structure of Knot Modules :: Электронная библиотека

... Sinergetic has recommended itself in the most various areas: to physics, chemistry, biology, and even in public sciences. ... The purpose of research was the study of laws of heat transfer process in active environment, which is nonequilibrium and itself can give the contribution to change of temperature. ...

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... Structure and properties of chimeric small heat shock proteins containing yellow fluorescent protein attached to their C-terminal ends. ... Recombinant chimeras of small heat shock proteins (sHsp) HspB1, HspB5, and HspB6 containing enhanced yellow fluorescent protein (EYFP) attached to their C-terminal ends were constructed and purified. Some properties of these chimeras were compared with the corresponding properties of the same chimeras containing EYFP attached to the N-terminal end of sHsp. ...

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... The LanHEP input file is the sequence of statements, each starts with a special identifier (such as parameter, lterm etc) and ends with the full-stop ' . ... This section is aimed to clarify the syntax of LanHEP input files, i.e. the structure of the statements. ... Let us consider the LanHEP input files for the Standard Model with both the t'Hooft-Feynman and unitary gauges. ... LanHEP allows the user to define several keys , and use these keys to branch among several variants of the model. ...

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... Derived datatypes . Up: Point-to-Point Communication Next: Datatype constructors Previous: Null processes . ... Instead, MPI provides mechanisms to specify more general, mixed, and noncontiguous communication buffers. ... More general communication buffers are specified by replacing the basic datatypes that have been used so far with derived datatypes that are constructed from basic datatypes using the constructors described in this section. ... A sequence of basic datatypes . ... Центры . ...

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• Partitioning of Cartesian structures | PARALLEL.RU -
• MINLOC and MAXLOC | PARALLEL.RU - Информационно-аналитический центр по

Sequence alignment of non-superposable beta-sheets Evgeniy Aksianov Belozersky Institute, Lomonosov Moscow State University, Leninskie Gori 1, Moscow, Russia, evaksianov@gmail.com Andrey V. Alexeevski Belozersky Institute, Lomonosov Moscow State University, Scientific Research Institute for System Studies (NIISI RAN), Moscow, Russia aba@belozersky.msu.ru Protein 3D structures usually are more conserved than their sequences. ... Beta-strands are contained in sheet map rows. ...

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• http://mccmb.belozersky.msu.ru/2013/abstracts/abstracts/244.pdf
• http://mccmb.belozersky.msu.ru/2013/abstracts/abstracts/17.pdf
• http://mccmb.belozersky.msu.ru/2013/abstracts/abstracts/101.pdf

This home page belongs to small group of scientists working at . Sternberg Astronomical Institute which is a part of Moscow State University . ... Электронная библиотека научно-технической и художественной литературы (доступна только из ГАИШ) . ... Local staff . Dr. Edward Kononovich (konon -at- sai.msu.ru), Associate Professor . ... Dr. Sergey Ayukov (asv -at- sai.msu.ru), Research Fellow, Webmaster of the group . ... Joint seminar of Solar Studies Structure Group and Solar Photometry Group . ...

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• Not so well documented Device Helpers in OS/2

... Hexameric AAA+ ATPases induce conformational changes in a variety of macromolecules. AAA+ structures contain the nucleotide-binding P-loop with the Walker A sequence motif: GxxGxGK(T/S). A subfamily of AAA+ sequences contains Asn in the Walker A motif instead of Thr or Ser. ... To determine functional effects of introduction of Asn into the Walker A sequence, we replaced the Walker-A Thr with Asn in ClpB, a bacterial AAA+ chaperone which reactivates aggregated proteins. ...

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• http://kodomo.cmm.msu.ru/~igogo/Term3/uni.txt
• статьи о карбоксилэстеразе bioH
• Global and Local Alignment of A.A Sequences

... LDAP is the Lightweight Directory Access Protocol, and is a protocol used to access "Directory Servers". ... Search surname entry $sr= ldap _ search ($ds, o=My Company, c=US , sn=S* ); echo Search result is .$sr. p ; echo Number of entires returned is . ldap _count_ entries ($ds,$sr). p ; echo Getting entries ... p ; $info = ldap _ get _ entries ($ds, $sr); ... ldap_get_attributes -- Get attributes from a search result entry . ... ldap_get_entries -- Get all result entries...

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• Declaration of the Zend Module Block
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... Global Ocean Suspected on Saturns Enceladus . ... 20.09.2015 . ... Credit Copyright: Cassini Imaging Team , SSI , JPL , ESA , NASA Explanation: Do some surface features on Enceladus roll like a conveyor belt? ... Inspection of these images show clear tectonic displacements where large portions of the surface all appear to move all in one direction. ... The small magnitude of Enceladus' wobble as it orbits Saturn might indicate damping by a globally extending underground ocean layer . ... 2015 2016 ....

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• Journal "Peremennye Zvezdy"
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Home . Database of structures of nucleic acid - protein complexes . ... List of complexes . Pfam families . SCOP families . Interaction classes . ... NPIDB . ... Information on SCOP and Pfam domains detected in protein chains is presented. ... Each family has its own web page with the list of entries that include domains of the family. ... List of SCOP domains occurred in DNA-protein and RNA-protein complexes is organized in tree-like form, according to the SCOP classification. ...

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• NPIDB: 5DPK structure

... If there's no significant multiple alignment , including the sequence, that you interest, then the secondary structure is built, using only the energy model (just the potential energy of the system is minimized), but very often such method will give unreliable results. ... It should be mentioned that by default, at alignment case, the RNA secondary structure will be predicted for the first sequence of the alignment. ... It is done through optimizing, not the real, but model energy of the structure. ...

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A.V. Churakov, L.G. Kuz'mina, D.A. Lemenovskii . J.Organomet.Chem., v. 485, p. C81-C83 (1995) . ABSTRACT . The possibilities of functionalization Cp-ligands in p-complexes Ti, Zr and Hf are examined. Laboratory of Coordination Organometallic Compounds

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. The UNIX file system is organised as a hierarchy of directories starting from a single directory called root which is represented by a / (slash). Imagine it as being similar to the root system of a plant or as an inverted tree structure. Immediately below the root directory are several system directories that contain information required by the operating system. The file holding the UNIX kernel is also here. UNIX system directories . Home directory . Pathnames .

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• Directories
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RNA Tertiary Structure Modelling . ... Two steps to fold coarse-grained model of RNA tertiary structure . ... fill in RNA secondary structure form with CT format (also with pseudoknots); . ... push "Finish Step #1" button to obtain secondary and intermediate* structures. * intermediate structure is the structure with minimum of "free energy" contains formed helixes and stacking, but without tertiary interactions . RNA secondary structure form . ... some useful RNA secondary structure databases: . ...

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