... Fri, 25 May 2012 20:53:18 +0400 . Daniil Alexeyevsky . Hidded the misbehaved not-to-be-released-publically SequenceSecondaryStructureMarkup class into allpy.structure to postpone the problem of introducing the proper secondary structure markup to after the release while not breaking the added functionality of blocks3d; please note, this is a very dirty hack . ... Wed, 20 Jul 2011 20:44:59 +0400 . ... Added allpy.markups.MarkupIOMixin to simplify new saveable markups creation. ...

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• allpy: log
• allpy: 41f7241c2aeb

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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• ETS sequence conservation
• ETS_all_contacts alignment

... 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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• Site Cluster

... 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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• Bioinformatics portal, Moscow State University

... 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 ::
• Kechris A.S., Louveau A. - Descriptive Set Theory and the Structure of Sets of
• Morris S. - Pontryagin Duality and the Structure of Locally Compact Abelian

... Alternative core new atoms (%) . ... An alignment of a set of structures is a set of positions , to each position some atoms from different structures correspond. ... Geometrical core of a set of structures is a subset of alignment positions those atoms are disposed similarly in all structures. ... For any two positions included into geometrical core, the distances between CA atoms of those positions in all structures may differ not more than the value of the parameter "Distance spreading". ...

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• S : rm_systems
• Example of alignment

Routing on lattice-cellular structures" . Ryabov G.G. An extension of the class of lattice graphs is considered. In order to become close to the Euclidean metric, inclusion of additional ribs with weights equal to the corresponding lengths of vectors in the Euclidean space is performed in a neighborhood on the lattice. ... An algorithm for constructing a set of the shortest paths on such a lattice is proposed. ... PostScript (in Russian) (6.04MB) . PDF (in Russian) (710KB) . ...

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... Minimal size of Clud clusters (residues) . ... An alignment of a set of structures is a set of positions , to each position some atoms from different structures correspond. ... Hydrophobic cluster of a single protein structure is a separated pool of nonpolar atoms. Usually there is the biggest cluster in the protein called hydrophobic core. ... ConClus program is able to detect of conservative hydrophobic clusters for a family of related protein domains or just for a set of aligned proteins. ...

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• Nhunt: program for nucleic acid sequence similarity search
• Align tool for DNA-protein complexes

Research of residue contacts within the polypeptide chains depending on the density of information in the sequence S. D. Koshman Moscow Institute of Physics and Technology, koshman86@mail.ru A.A.Zinchenko Shemyakin-Ovchinnikov Institute RAS, alezina@mail.ru A.N. Nekrasov Shemyakin-Ovchinnikov Institute RAS, alexei_nekrasov@mail.ru INTRODUCTION. ... The developed program allows exploring the contacts between amino acid residues depending on their information types. ...

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• http://mccmb.belozersky.msu.ru/2013/abstracts/abstracts/237.pdf
• http://mccmb.belozersky.msu.ru/2015/proceedings/abstracts/197.pdf
• http://mccmb.belozersky.msu.ru/2015/proceedings/abstracts/4.pdf

... 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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• Alternative syntax for control structures
• mysql_close
• pg_close

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
• Work notes
• Image: Flower of lotus. Unfortunately, I was unable to come close.

... Sun , 19 Dec 2010 19:49:53 GMT Daniil Alexeyevsky me.dendik@тАж [41:bcad0f5464bf] * snake.py ( modified ) snake.Rule.load: give reasonable error rather than crash on empty lines Sun , 19 Dec 2010 19:46:39 GMT Daniil Alexeyevsky me.dendik@тАж [40:94945f11c78d] * snake.py ( modified ) snake.Snake.fill: tail takes precedence over body head Sun , 19 Dec 2010 19:45:31 ...

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• http://kodomo.cmm.msu.ru/trac/snake/log/?format=changelog&rev=a7e53eb3f54d3f159ac075aa536b333301dcf3ab&limit=100&mode=stop_on_copy
• Ucheba
• Conservative Amino Acid Residues

... Sun , 19 Dec 2010 19:49:53 GMT Daniil Alexeyevsky me.dendik@тАж [41:bcad0f5464bf] * snake.py ( modified ) snake.Rule.load: give reasonable error rather than crash on empty lines Sun , 19 Dec 2010 19:46:39 GMT Daniil Alexeyevsky me.dendik@тАж [40:94945f11c78d] * snake.py ( modified ) snake.Snake.fill: tail takes precedence over body head Sun , 19 Dec 2010 19:45:31 ...

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• http://kodomo.cmm.msu.su/trac/snake/log/?format=changelog&rev=44%3Aa7e53eb3f54d&limit=100&mode=stop_on_copy
• http://kodomo.cmm.msu.su/trac/snake/log/?format=changelog&rev=85221e4417b775028540cb8aa35060321510c4c0&limit=100&mode=stop_on_copy
• http://kodomo.cmm.msu.su/trac/snake/log/?format=changelog&rev=46%3A85221e4417b7&limit=100&mode=stop_on_copy

The existence of oceanic islands and seamounts is supposed to be the one of the main evidence of the plate tectonic theory. But there is no such acient geological object which could be so similar to rock complex of oceanic island. These structures must include the alkaline magmatism manifestation, sedimentary rocks close to recent riff limestone on the oceanic islands and sequence of terrigenic rocks. ... 100.00 . ... H 2 O calculated by the 100% norm of cations. d.l.. ...

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.

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• PubMed medline query

DCSE . DCSE (Dedicated Comparative Sequence Editor) is a multiple alignment editor. ... It offers lots of features such as color display of characters and structure, automatic alignment relative to sequences already aligned with others, sequence grouping, sequence or pattern searching, marker system and checking of incorporated RNA structure. tkDCSE is a version of DCSE for X-Windows. ... Home Site: . ... None . ... SAL Home | Other Scientific Fields | Chemistry, Biology Related . ...

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• SAL- Other Scientific Fields - Chemistry, Biology Related - RnaViz
• APOD: January 4, 1998 - Fractal Interstellar Dust Up Close
• SAL- Scientific Data Processing Visualization - Software Packages - GMV

The QBuffer class is an I/O device that operates on a QByteArray More... #include < qbuffer.h > . Inherits QIODevice . ... QBuffer  ()  . ... QByteArray  buffer  () const . ... virtual bool  open  ( int )  . ... virtual int  at  () const . virtual bool  at  ( int )  . ... virtual int  putch  ( int )  . virtual int  ungetch  ( int )  . ... QBuffer is an I/O device for reading and writing a memory buffer. ... Returns TRUE if successful, otherwise FALSE. ... Reimplemented from QIODevice. ...

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• Unknown Constructed Types
• Qt Toolkit - QFile Class
• Qt Toolkit - QCloseEvent Class

... The first-order intermolecular perturbation theory developed in the frame of diatomics-in-molecule approach is used to calculate the potential energy surfaces of the Ar.. Cl2 complex in the states which correlate with the X0g+ and B0u+ states of Cl2 fragment. ... Laboratory of Molecular Structure and Quantum Mechanics ...

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• PC Crystal Chemistry Analysis of Organic Crystal Structures
• M. Ya. Melnikov, V.A. Smirnov Handbook of Photochemistry of Organic Radicals
• The Molecular Structure of 2-Chloroacrolein Studied by Gas Electron

Astronomy Picture of the Day . ... Tonight and over the next few days, when Mars is at its closest approach to Earth in nearly 60,000 years, you might get your best view ever of our planetary neighbor. Please, though, don't expect to see this much structure , or expect to see Mars rotate so much in so brief a period. ... In reality, one full Martian rotation -- a Martian day -- is only about 40 minutes longer than an Earth day. ... Publications with keywords: Mars . ... Victoria Crater on Mars . ...

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• Астронет > Earth Webcam Catches Mars Rotation
• Journal "Peremennye Zvezdy"
• The Double Nucleus of M31

... Previous message: [RU-NGI] Fwd: [Network-support] Closing the IPv6 Survey on October 31. The following NGIs please provide your input) . Next message: [RU-NGI] Fwd: [Network-support] Closing the IPv6 Survey on October 31. ... About the current IPv6 deployment level and know-how on IPv6 by NGIs ИЯИ нет 1. ... Есть желание > > ========== Письмо с запросом от EGI (FYI) ================== > > -------- Original Message -------- > Subject: [Network-support] Closing the IPv6 Survey on October 31. ...

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• Structure of LanHEP input file
• MRS structure functions
• LanHEP