Contacts of the strand formed by residues 286 - 298 (chain H) in PDB entry 2W3S
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 LEU 286 (chain H).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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278H ILE* 3.9 23.3 - - + -
279H GLY 3.8 3.6 - - - +
280H ALA* 4.0 2.2 - - + +
284H GLY 3.7 1.0 + - - +
285H LYS* 1.3 76.5 - - - +
287H LEU* 1.3 62.0 + - - +
288H GLY 4.9 0.9 - - - +
319H TYR* 3.9 25.4 - - + -
320H PHE 4.2 12.3 - - - +
321H VAL* 4.3 16.2 - - + -
322H PRO* 3.3 21.9 - - + +
353H MET* 5.1 1.6 - - - -
357H ILE* 3.9 17.5 - - + -
360H LEU* 3.7 29.4 - - + -
371H LEU* 5.9 0.4 - - + -
375H ASN* 2.9 33.9 + - - +
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Residues in contact with LEU 287 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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154H ALA* 3.7 21.4 - - + +
157H GLY 4.0 7.2 - - - +
158H ALA* 3.6 23.6 - - + -
159H ALA 4.6 0.2 - - - +
279H GLY 2.6 15.0 + - - +
280H ALA 3.3 25.4 - - - +
281H ASP* 3.5 28.7 - - + +
285H LYS* 3.8 1.6 - - + +
286H LEU* 1.3 76.7 - - - +
288H GLY* 1.3 55.2 + - - +
322H PRO* 3.6 13.2 - - + +
323H ALA* 3.4 23.2 + - - +
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Residues in contact with GLY 288 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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151H VAL* 4.0 9.4 - - - -
154H ALA* 4.3 4.9 - - - +
155H LEU* 3.7 8.1 - - - +
278H ILE* 3.6 5.2 - - - +
279H GLY* 3.0 27.2 + - - +
286H LEU* 3.8 1.3 - - - +
287H LEU* 1.3 82.1 - - - +
289H ALA* 1.3 60.3 + - - +
321H VAL* 4.0 5.3 - - - +
323H ALA* 3.0 14.4 - - - -
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Residues in contact with ALA 289 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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151H VAL* 3.1 15.2 - - - +
277H ARG 3.5 5.4 - - - +
278H ILE* 4.4 11.0 - - + +
288H GLY* 1.3 74.6 - - - +
290H ASP* 1.3 61.1 + - - +
291H PHE* 3.6 27.1 - - + -
321H VAL* 3.9 15.5 - - + -
323H ALA 3.0 6.1 + - - -
324H LEU* 3.3 6.6 - - + +
325H ARG 3.2 14.7 + - - +
353H MET* 4.0 9.9 - - + -
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Residues in contact with ASP 290 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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151H VAL* 4.4 6.5 - - + -
152H GLU* 6.2 0.2 - - - -
155H LEU* 4.1 15.3 - - + -
275H ARG 3.7 0.7 - - - +
276H TYR* 3.2 6.3 - - - +
277H ARG* 2.8 61.4 + - + +
289H ALA* 1.3 74.1 - - - +
291H PHE* 1.3 63.0 + - - +
292H VAL* 4.4 1.5 + - - +
325H ARG* 2.9 62.4 + - - +
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Residues in contact with PHE 291 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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274H ILE* 4.0 17.9 - - + -
275H ARG 3.3 3.1 - - - -
276H TYR* 4.0 17.9 - - + -
278H ILE* 5.2 0.4 - - + -
289H ALA* 3.6 27.1 - - + -
290H ASP* 1.3 79.0 + - - +
292H VAL* 1.3 63.7 + - - +
293H HIS* 4.0 13.0 - - + +
315H ALA* 3.5 30.3 - - + -
324H LEU* 4.7 4.3 - - + -
325H ARG* 2.8 15.8 + - - +
326H ILE* 3.2 20.6 - - + -
327H GLU* 2.9 24.9 + - - +
349H GLY 5.3 1.1 - - - -
352H GLY* 3.6 26.5 - - - -
353H MET* 3.7 29.2 - - + -
356H ALA* 4.3 4.0 - - + -
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Residues in contact with VAL 292 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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273H ARG 3.7 1.0 - - - +
274H ILE* 3.4 6.6 - - - -
275H ARG* 3.0 66.2 + - + +
290H ASP* 4.4 1.8 + - - +
291H PHE* 1.3 77.0 - - - +
293H HIS* 1.3 63.9 + - - +
294H LEU* 3.8 27.8 - - + +
325H ARG* 5.4 3.8 - - - +
327H GLU* 3.4 33.7 - - + +
329H HIS* 4.0 7.4 - - + +
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Residues in contact with HIS 293 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
272H PHE* 3.7 24.0 - + + -
273H ARG 3.8 1.6 - - - -
274H ILE* 3.6 31.2 - - + +
291H PHE* 4.0 17.9 - - + +
292H VAL* 1.3 76.3 - - - +
294H LEU* 1.3 64.8 - - - +
295H ALA 4.0 0.4 - - - -
311H ALA* 4.0 32.0 - - + +
312H MET* 4.4 5.7 + - - +
315H ALA* 4.4 5.1 - - + +
326H ILE* 3.7 24.2 - - + +
327H GLU 2.8 12.9 + - - +
328H SER* 4.2 10.7 + - - +
329H HIS 2.8 30.4 + - - +
349H GLY* 4.2 12.0 + - - -
352H GLY* 5.6 0.2 - - - -
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Residues in contact with LEU 294 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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129H LEU* 3.7 19.2 - - + +
133H LEU* 3.9 27.8 - - + -
272H PHE* 2.9 7.5 - - - -
273H ARG* 2.8 79.4 + - + +
275H ARG* 4.4 14.8 - - - +
292H VAL* 3.8 11.9 - - + -
293H HIS* 1.3 79.3 - - - +
295H ALA* 1.3 61.5 + - - +
329H HIS* 3.6 31.4 - - + +
331H LEU* 4.4 4.3 - - + -
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Residues in contact with ALA 295 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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129H LEU* 4.1 3.5 - - - +
270H HIS* 4.9 5.4 - - + -
271H ASP 3.4 4.3 - - - +
272H PHE* 3.7 35.2 - - + -
293H HIS* 5.3 0.4 - - + -
294H LEU* 1.3 75.8 - - - +
296H ARG* 1.3 60.5 + - - +
297H CYS* 3.5 3.0 + - - -
308H CYS* 4.0 16.4 - - - -
329H HIS 3.1 13.4 + - - +
331H LEU* 2.9 32.9 + - - +
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Residues in contact with ARG 296 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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127H LEU 2.8 30.3 + - - -
128H THR* 4.2 8.2 - - - +
129H LEU* 4.1 22.3 - - + +
270H HIS* 3.3 10.4 - - - -
271H ASP* 2.9 43.0 + - - +
295H ALA* 1.3 69.8 - - - +
297H CYS* 1.3 54.6 + - - +
298H GLY 4.0 1.8 - - - +
331H LEU* 3.9 5.4 - - - -
333H THR* 3.2 30.6 + - + +
335H THR* 3.1 35.1 + - - +
336H GLN 5.7 0.4 - - - -
338H ASN* 2.6 33.3 + - - +
682H TRP* 4.2 26.6 - - - -
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Residues in contact with CYS 297 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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139H PHE* 3.7 16.2 - - + -
270H HIS* 3.6 14.6 - - - -
295H ALA 3.6 15.7 - - - -
296H ARG* 1.3 71.9 - - - +
298H GLY* 1.3 61.9 + - - +
300H SER 3.6 5.5 - - - +
304H SER* 2.9 34.9 + - - +
308H CYS* 4.9 2.9 - - - -
330H ARG* 3.8 22.4 - - - -
331H LEU 3.1 16.4 + - - +
336H GLN 3.9 0.4 - - - -
337H SER* 3.5 3.1 - - - -
338H ASN* 2.8 25.8 + - - +
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Residues in contact with GLY 298 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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139H PHE* 3.5 6.4 - - - -
296H ARG* 3.5 2.4 - - - +
297H CYS* 1.3 83.7 - - - +
299H TRP* 1.3 65.0 + - - -
300H SER 3.3 1.3 + - - -
332H ARG* 3.5 7.4 - - - +
333H THR* 2.8 38.9 + - - +
335H THR* 3.4 3.8 - - - -
336H GLN 3.0 17.2 + - - -
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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