Contacts of the strand formed by residues 232 - 240 (chain A) in PDB entry 3ANX
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 232 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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9A GLU* 5.8 3.1 - - - +
11A VAL* 4.4 12.6 - - + -
197A MET* 4.0 33.2 - - + -
199A LEU* 4.1 21.3 - - + -
226A HIS* 3.8 7.1 + - - -
227A ILE* 3.3 27.8 + - - +
230A PHE* 3.0 23.8 - - + +
231A PHE* 1.3 83.2 - - - +
233A ASN* 1.3 62.4 + - - +
234A PHE* 3.5 23.6 + - + -
226B HIS* 3.9 9.2 - - - +
231B PHE* 4.1 18.2 - - + -
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Residues in contact with ASN 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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197A MET* 3.4 2.8 - - - +
198A ILE* 2.8 52.2 + - - +
199A LEU* 5.6 0.2 - - - +
224A LYS* 3.8 31.2 - - - +
225A ASN 3.6 24.4 + - - -
226A HIS* 3.8 5.6 + - - +
232A LEU* 1.3 73.5 - - - +
234A PHE* 1.3 62.1 + - - +
226B HIS* 3.4 39.6 + - + +
228B PRO* 6.1 0.8 - - - +
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Residues in contact with PHE 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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63A TYR* 4.8 7.9 - + - -
161A ASP* 5.2 4.5 - - - -
194A GLN* 2.7 34.3 - - - -
196A GLY* 3.9 12.3 - - - -
197A MET* 4.0 15.3 - - + -
198A ILE* 4.4 2.5 - - - -
224A LYS* 3.7 3.1 - - - +
225A ASN 3.0 35.7 + - - +
227A ILE* 3.9 12.3 - - + -
230A PHE* 3.4 39.0 - + - -
232A LEU* 3.5 27.0 + - + -
233A ASN* 1.3 76.3 - - - +
235A GLY* 1.4 62.9 + - - +
236A PHE* 3.4 14.7 - + + -
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Residues in contact with GLY 235 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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194A GLN* 3.6 2.4 - - - +
195A ALA 2.6 29.1 + - - -
196A GLY 2.8 20.5 + - - -
198A ILE* 3.7 20.7 - - - +
206A HIS* 4.2 9.6 - - - -
223A TYR 4.0 2.5 - - - -
233A ASN 4.0 1.0 + - - -
234A PHE* 1.4 68.8 - - - +
236A PHE* 1.3 66.3 + - - -
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Residues in contact with PHE 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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63A TYR* 4.0 27.8 - + - -
66A THR* 3.8 26.0 - - + -
67A LEU* 4.2 20.6 - - + -
193A MET 3.1 17.9 - - - +
194A GLN* 3.6 22.7 - - + -
195A ALA 3.9 1.1 - - - +
206A HIS* 4.0 2.5 - - - -
222A SER* 3.7 5.7 + - - -
223A TYR* 2.8 63.5 + + + +
224A LYS* 4.5 1.8 - - - -
225A ASN* 4.5 6.5 - - + -
227A ILE* 4.3 5.6 - - + -
234A PHE* 3.4 32.1 - + + -
235A GLY* 1.3 75.9 - - - -
237A LEU* 1.3 66.1 - - - +
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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
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191A MET* 4.7 1.8 - - + -
192A GLY* 3.5 4.3 - - - -
193A MET* 2.9 58.8 + - + +
195A ALA* 4.9 1.6 - - + -
206A HIS* 4.7 5.4 - - + -
209A VAL* 4.5 6.1 - - + -
210A HIS* 3.6 29.4 - - + +
213A VAL* 4.2 18.6 - - + -
220A VAL* 3.4 24.2 - - + -
221A ARG 3.4 13.5 - - - +
222A SER* 3.9 8.1 - - - -
223A TYR* 3.8 7.3 - - - -
236A PHE* 1.3 77.3 - - - +
238A LEU* 1.3 71.4 + - - +
239A ALA* 4.4 3.1 - - + +
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Residues in contact with LEU 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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70A PRO* 4.0 8.3 - - + +
71A ALA* 3.6 37.2 - - + +
74A THR* 4.0 11.4 - - + +
190A VAL* 5.3 1.3 - - + -
191A MET 3.5 7.0 - - - +
192A GLY* 4.2 2.7 - - - -
219A TYR 3.5 2.1 - - - +
220A VAL* 3.4 1.9 - - - -
221A ARG* 2.8 42.0 + - + +
223A TYR* 4.0 10.8 - - + +
237A LEU* 1.3 81.9 - - - +
239A ALA* 1.3 59.8 + - - +
245A PRO* 3.9 38.6 - - + +
248A PHE* 5.7 0.9 - - + -
276A PHE* 3.7 31.2 - - + -
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Residues in contact with ALA 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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190A VAL* 3.4 4.3 - - - +
191A MET* 2.8 52.8 + - + +
213A VAL* 4.0 10.5 - - + -
217A PHE* 3.5 35.7 - - + -
219A TYR 3.3 4.9 - - - +
220A VAL* 4.4 1.3 - - + -
237A LEU* 4.2 1.0 - - + +
238A LEU* 1.3 75.2 - - - +
240A SER* 1.3 64.6 + - - +
245A PRO* 4.8 2.0 - - - -
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Residues in contact with SER 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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189A GLY 3.2 20.8 + - - -
190A VAL* 4.2 10.5 - - - -
217A PHE* 3.7 13.1 - - - -
219A TYR* 2.8 42.2 + - - +
239A ALA* 1.3 77.2 - - - +
241A ASP* 1.3 56.6 + - - +
242A ALA* 3.0 23.2 + - - +
243A PHE* 3.5 23.5 + - - -
245A PRO* 4.7 2.9 - - - -
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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