Contacts of the helix formed by residues 232 - 245 (chain A) in PDB entry 3SA0
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 HIS 232 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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191A ARG* 3.4 20.8 - - - +
230A GLY 3.4 1.2 - - - -
231A LYS* 1.3 84.8 + - + +
233A TYR* 1.3 70.4 + - - +
234A LEU* 3.6 9.8 - - + +
235A ASP* 3.0 48.5 + - + +
236A GLN 3.2 8.3 + - - -
238A ASN* 5.7 0.4 + - - -
362A SO4 5.2 1.3 - - - +
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Residues in contact with TYR 233 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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184A LEU* 3.3 40.9 - - + -
185A THR 2.7 42.1 + - - -
186A GLU* 4.4 15.5 - - - +
187A TYR* 4.4 7.6 - - + -
191A ARG* 4.3 1.3 - - - +
194A ARG* 3.7 21.6 + - - +
198A ILE* 3.4 2.6 + - + -
199A MET* 3.4 41.2 - - + +
232A HIS* 1.3 79.1 - - + +
234A LEU* 1.3 65.5 + - + +
236A GLN* 3.3 16.5 - - - +
362A SO4 3.1 33.2 + - - +
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Residues in contact with LEU 234 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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183A PHE* 4.7 4.9 - - + -
184A LEU* 3.8 31.6 - - + -
199A MET* 4.8 3.6 - - + -
232A HIS* 3.3 9.5 - - + +
233A TYR* 1.3 80.2 - - + +
235A ASP* 1.3 65.3 + - - +
236A GLN 3.0 1.8 - - - -
237A LEU* 3.0 39.2 + - + +
238A ASN* 3.3 14.7 + - - +
263A TYR* 3.7 34.8 - - + +
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Residues in contact with ASP 235 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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230A GLY* 4.3 0.2 - - - -
231A LYS* 2.8 34.5 + - - +
232A HIS* 3.0 41.6 + - + +
234A LEU* 1.3 76.4 - - - +
236A GLN* 1.3 63.9 + - - +
238A ASN* 3.1 15.5 + - - +
239A HIS* 3.0 50.4 + - - -
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Residues in contact with GLN 236 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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191A ARG* 3.1 37.5 + - + +
192A TRP* 3.4 14.4 + - - -
194A ARG* 4.5 4.3 + - + +
199A MET* 4.0 19.5 - - + -
228A PHE* 2.8 37.7 + - - +
230A GLY* 3.0 29.3 + - - -
232A HIS 3.2 4.6 + - - -
233A TYR 3.3 14.8 - - - +
234A LEU 3.0 0.2 - - - -
235A ASP* 1.3 79.3 - - - +
237A LEU* 1.3 61.1 + - - +
239A HIS* 3.4 3.2 + - - +
240A ILE* 3.2 34.5 + - + +
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Residues in contact with LEU 237 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
196A PRO* 3.9 37.7 - - + +
199A MET* 3.9 15.3 - - + +
200A LEU* 3.9 28.7 - - + -
234A LEU* 3.0 23.3 + - + +
236A GLN* 1.3 80.3 - - - +
238A ASN* 1.3 59.8 + - - +
240A ILE* 3.2 5.0 + - + +
241A LEU* 2.9 51.5 + - + +
263A TYR* 3.8 28.0 - - + -
264A LEU* 4.4 5.6 - - + -
296A PHE* 4.9 0.9 - - + -
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Residues in contact with ASN 238 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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232A HIS* 5.7 0.3 + - - -
234A LEU* 3.5 17.2 + - - +
235A ASP* 3.1 18.0 + - - +
237A LEU* 1.3 82.7 - - - +
239A HIS* 1.3 57.9 + - + +
241A LEU* 3.8 5.8 - - - +
242A GLY* 2.9 26.5 + - - -
263A TYR* 3.1 32.5 + - - -
267A LEU* 4.6 12.7 - - - +
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Residues in contact with HIS 239 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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227A ILE 4.7 2.0 + - - -
228A PHE* 3.6 25.5 - - + -
229A PRO* 3.7 38.0 + - + +
230A GLY* 3.8 9.9 - - - -
231A LYS* 5.6 5.4 + - - +
235A ASP* 3.0 50.1 + - - +
236A GLN* 3.6 9.0 - - - +
237A LEU 3.3 0.2 - - - -
238A ASN* 1.3 76.8 - - + +
240A ILE* 1.3 63.9 + - - +
242A GLY* 3.3 9.6 + - - -
243A ILE* 3.5 10.9 + - - +
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Residues in contact with ILE 240 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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194A ARG 3.7 24.0 - - - +
196A PRO* 4.1 27.4 - - + -
199A MET* 4.1 7.6 - - + -
212A TRP* 3.7 34.8 - - + +
228A PHE* 3.7 25.4 - - + -
236A GLN* 3.2 20.9 + - - +
237A LEU* 3.2 7.2 + - + +
239A HIS* 1.3 77.2 - - - +
241A LEU* 1.3 64.1 + - + +
243A ILE* 3.2 3.3 + - - +
244A LEU* 2.9 39.8 + - + +
296A PHE* 5.2 0.2 - - + -
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Residues in contact with LEU 241 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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237A LEU* 2.9 34.3 + - + +
238A ASN* 4.1 5.4 - - - +
240A ILE* 1.3 79.9 - - + +
242A GLY* 1.3 57.9 + - - +
244A LEU* 5.3 1.6 - - + -
245A GLY* 2.8 49.0 + - - +
246A SER* 5.4 1.3 - - - +
247A PRO* 4.0 16.4 - - + -
264A LEU* 3.8 16.8 - - + -
267A LEU* 3.5 31.4 - - + -
270A LYS* 3.9 12.4 - - + +
296A PHE* 4.2 22.7 - - + -
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Residues in contact with GLY 242 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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238A ASN 2.9 18.7 + - - -
239A HIS* 3.7 3.6 - - - -
240A ILE 3.2 0.8 - - - -
241A LEU* 1.3 78.4 - - - +
243A ILE* 1.3 61.0 + - - +
245A GLY 4.5 0.2 - - - -
270A LYS* 5.1 14.7 - - - +
271A ASN 4.4 4.7 - - - +
273A VAL* 3.4 18.4 - - - +
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Residues in contact with ILE 243 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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227A ILE* 3.8 24.9 - - + +
228A PHE* 3.6 28.3 - - + -
239A HIS 3.5 4.4 + - - +
240A ILE 3.2 2.0 + - - -
241A LEU 3.1 0.4 - - - -
242A GLY* 1.3 81.8 - - - +
244A LEU* 1.3 64.3 + - + +
245A GLY 3.2 1.8 - - - -
272A LYS* 3.0 20.1 - - - +
273A VAL* 2.8 36.6 + - + +
275A TRP* 3.9 13.9 - - + -
278A LEU* 3.7 35.9 - - + -
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Residues in contact with LEU 244 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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212A TRP* 3.9 15.0 - - + -
228A PHE* 4.1 21.8 - - + -
240A ILE* 2.9 26.3 + - + +
241A LEU* 4.8 1.6 - - + -
243A ILE* 1.3 80.5 - - - +
245A GLY* 1.3 67.0 + - - +
246A SER 4.8 1.6 - - - +
272A LYS* 3.3 25.7 - - - +
275A TRP* 4.1 19.1 - - + -
294A LEU* 3.4 26.5 - - + +
295A THR* 4.8 0.2 - - - -
296A PHE* 3.8 30.3 - - + +
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Residues in contact with GLY 245 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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241A LEU* 2.8 35.4 + - - +
243A ILE 3.2 3.6 + - - -
244A LEU* 1.3 84.7 - - - +
246A SER* 1.3 67.5 + - - -
247A PRO* 3.5 1.9 - - - +
270A LYS* 3.2 16.2 - - - -
271A ASN 3.8 12.8 + - - -
272A LYS 3.9 0.2 - - - -
296A PHE* 5.9 0.3 - - - -
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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