Contacts of the strand formed by residues 350 - 360 (chain G) in PDB entry 1EV2
Residue contacts within the protein are
derived with the CSU software (Sobolev V., Sorokine A.,
Prilusky J., Abola E.E. and Edelman M. (1999) Automated
analysis of interatomic contacts in proteins.
Bioinformatics, 15, 327-332). A
short description of the analytical approach
is given at the end of the page.
Note:
Non-standard 3 letter residue
codes indicate a heterogroup. To identify
and analyse, use LPC software
Legend:
Dist - nearest distance (Å) between atoms of two residues
Surf - contact surface area (Å2) between two residues
HB - hydrophilic-hydrophilic contact (hydrogen bond)
Arom - aromatic-aromatic contact
Phob - hydrophobic-hydrophobic contact
DC - hydrophobic-hydrophilic contact (destabilizing contact)
+/- - indicates presence/absence of a specific contacts
* - indicates residues forming contacts by their side chain
(including CA atoms)
Residues in contact with ILE 350 (chain G).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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60C ARG* 3.9 30.5 - - - +
255G ARG* 3.6 13.3 + - - +
343G LEU* 3.9 37.9 - - + -
344G ALA 3.5 2.9 - - - -
345G GLY* 4.4 3.4 - - - -
349G GLY* 1.3 78.5 - - - +
351G SER* 1.3 71.4 + - - +
352G PHE* 4.5 9.7 - - + -
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Residues in contact with SER 351 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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255G ARG* 3.2 29.8 + - - +
256G PRO* 2.6 31.8 + - - -
257G ILE* 5.2 0.2 - - - -
258G LEU* 4.6 13.8 - - - +
343G LEU* 3.5 2.3 - - - +
344G ALA* 2.8 35.8 + - - +
350G ILE* 1.3 72.3 + - - +
352G PHE* 1.3 66.7 + - - +
353G HIS* 6.2 0.2 - - - -
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Residues in contact with PHE 352 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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174F THR* 4.7 4.3 + - - -
258G LEU* 4.1 2.6 - - - +
293G HIS* 6.4 1.8 - + - -
341G THR* 3.6 20.6 - - + -
342G CYS 3.2 14.1 - - - +
343G LEU* 3.9 15.0 - - + -
350G ILE* 4.5 14.8 - - + -
351G SER* 1.3 80.0 - - - +
353G HIS* 1.3 74.3 + - - +
354G SER* 4.2 10.8 - - - -
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Residues in contact with HIS 353 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
172F ALA 5.9 0.6 + - - -
174F THR* 4.2 7.6 + - - -
219F GLU* 3.5 45.9 + - + +
220F SER* 3.7 10.1 + - - -
258G LEU* 3.5 38.0 + - + +
259G GLN 3.2 20.2 + - - -
262G LEU 3.0 28.9 + - - +
263G PRO* 3.8 8.4 - - + +
341G THR* 3.5 1.1 - - - -
342G CYS 3.0 30.3 + - - +
351G SER* 6.2 0.2 - - - -
352G PHE* 1.3 86.3 - - - +
354G SER* 1.3 64.7 + - - +
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Residues in contact with SER 354 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
208F LYS* 2.6 33.5 + - - +
219F GLU* 4.1 3.2 + - - +
263G PRO* 4.4 1.1 - - - -
293G HIS* 4.4 1.6 + - - -
339G GLU* 3.3 27.2 + - - -
340G TYR 3.2 6.3 - - - -
341G THR* 2.5 27.3 + - - +
352G PHE* 4.2 11.1 - - - -
353G HIS* 1.3 75.4 - - - +
355G ALA* 1.3 58.8 + - - +
356G TRP* 5.9 0.4 - - - -
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Residues in contact with ALA 355 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
208F LYS* 4.4 0.9 - - - +
263G PRO* 3.6 27.6 - - + +
264G ALA 3.5 26.7 - - - +
265G ASN* 3.6 5.8 - - - +
276G PHE* 4.1 9.0 - - + -
339G GLU* 3.4 4.7 - - - +
340G TYR* 2.8 32.1 + - - +
354G SER* 1.3 76.7 - - - +
356G TRP* 1.3 67.5 + - - +
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Residues in contact with TRP 356 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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210F ARG* 4.9 19.5 - - + -
217F ILE* 6.1 5.2 - - + -
265G ASN* 2.7 23.7 + - - +
266G ALA 3.0 26.9 + - - +
276G PHE* 4.4 3.2 - - - -
338G GLY* 3.3 24.0 - - - -
339G GLU* 3.3 51.7 - - + +
354G SER 5.9 0.4 - - - -
355G ALA* 1.3 76.3 - - - +
357G LEU* 1.3 63.4 + - - +
358G THR* 4.0 5.5 + - - +
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Residues in contact with LEU 357 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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266G ALA* 3.3 23.3 - - + +
267G SER 4.6 0.9 - - - +
268G THR* 4.6 9.0 - - + -
274G VAL* 4.2 31.4 - - + -
276G PHE* 3.8 15.2 - - + -
329G ILE* 5.0 1.1 - - + -
332G VAL* 4.9 3.6 - - + -
336G ASP* 3.5 32.1 - - + +
337G ALA* 3.5 6.2 - - - +
338G GLY 2.9 26.5 + - - +
340G TYR* 3.8 22.0 - - + +
356G TRP* 1.3 76.6 - - - +
358G THR* 1.3 66.0 + - - +
359G VAL* 4.1 11.0 - - + -
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Residues in contact with THR 358 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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266G ALA 2.8 12.1 + - - -
267G SER* 3.2 17.1 + - - +
268G THR 2.9 26.2 + - - -
337G ALA* 5.1 0.7 - - - -
356G TRP* 5.2 5.9 + - - +
357G LEU* 1.3 75.4 - - - +
359G VAL* 1.3 65.8 + - - +
360G LEU* 3.6 27.8 - - + -
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Residues in contact with VAL 359 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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268G THR* 3.3 5.2 - - + +
270G VAL* 3.9 35.0 - - + +
332G VAL* 4.3 13.5 - - + -
333G THR 3.7 26.5 - - - +
334G PHE* 3.9 23.0 - - + -
337G ALA* 4.0 25.4 - - + +
357G LEU* 4.0 16.0 + - + -
358G THR* 1.3 79.0 - - - +
360G LEU* 1.3 65.8 + - - +
361G PRO* 4.7 0.3 - - - +
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Residues in contact with LEU 360 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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267G SER* 3.9 14.4 - - - +
268G THR* 2.8 20.2 + - - +
269G VAL* 4.6 8.5 - - + -
270G VAL* 3.1 23.9 + - - +
334G PHE* 4.1 3.1 - - - -
358G THR* 3.6 26.2 - - + -
359G VAL* 1.3 74.7 - - - +
361G PRO* 1.4 85.3 - - + +
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A short description of the
analytical approach
The contact analysis used in this page
is based upon the approach
developed in:
Sobolev V., Wade R.C., Vriend G.
and Edelman M. PROTEINS (1996)
25, 120-129.
Contact legitimacy depends on the hydrophobic-hydrophilic
properties of the contacting atoms. In order to
define it, for each inter-atomic contact,
eight atom classes have been introduced:
I Hydrophilic - N and O that can donate and accept hydrogen bonds
(e.g., oxygen of hydroxyl group of Ser. or Thr)
II Acceptor - N or O that can only accept a hydrogen bond
III Donor - N that can only donate a hydrogen bond
IV Hydrophobic - Cl, Br, I and all C atoms that are not in
aromatic rings and do not have a covalent bond to
a N or O atom
V Aromatic - C in aromatic rings irrespective of any other
bonds formed by the atom
VI Neutral - C atoms that have a covalent bond to at least one
atom of class I or two or more atoms from class II
or III; atoms; S, F, P, and metal atoms in all cases
VII Neutral-donor - C atoms that have a covalent bond with only one
atom of class III
VIII Neutral-acceptor - C atoms that have a covalent bond with only
one atom of class II
For each pair of contacts the state of legitimacy
is shown below:
Legend:
+, legitimate
-, illegitimate
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Atomic class I II III IV V VI VII VIII
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I (Hydrophilic) + + + - + + + +
II (Acceptor) + - + - + + + -
III (Donor) + + - - + + - +
IV (Hydrophobic) - - - + + + + +
V (Aromatic) + + + + + + + +
VI (Neutral) + + + + + + + +
VII (Neutral-donor) + + - + + + - +
VIII (Neutral-acceptor) + - + + + + + -
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Warning!
Atom classes for heterogroups are automatically
assigned based on the atomic coordinates. However, in
three cases (see below) the automatic assignment
is currently ambiguous. In these
cases, the user is advised to manually analyse
the full list of contacts using
LPC software.
1. Carbon atoms belonging to a 4-, 5- or 6-member ring are
considered "aromatic" (Class V) if the ring is approximately
planar, and "hydrophobic" (Class IV) or "neutral" (Classes
VI, VII, VIII) if the ring is non-planar.
2. The oxygen atom of a carbonyl or hydroxy group is considered
"hydroxy" (Class I) if the CO bond is longer than 1.29 Å, and
"carbonyl" (Class II) if shorter.
3. All nitrogen atoms are considered "hydrophilic" (Class I).
Please E-mail any
questions and/or suggestions concerning this page to
Vladimir.Sobolev@weizmann.ac.il