Contacts of the helix formed by residues 276 - 291 (chain C) in PDB entry 1FTA
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 ARG 276 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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97C GLU* 3.0 37.7 + - - +
118C ASP* 4.2 2.4 + - - -
121C ASP* 5.0 1.0 + - - -
274C LYS 3.9 1.6 - - - -
275C LEU* 1.3 72.7 - - - +
277C LEU* 1.3 61.7 + - - +
278C LEU 4.5 1.3 - - - +
279C TYR* 3.5 36.6 - - + +
280C GLU* 2.7 49.2 + - + +
281C CYS* 2.9 24.8 + - - -
311C HIS* 4.2 14.4 - - + +
312C GLN 3.2 13.5 - - - +
313C ARG* 3.4 34.3 - - - +
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Residues in contact with LEU 277 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
275C LEU 3.7 1.8 + - - -
276C ARG* 1.3 71.8 - - - +
278C LEU* 1.3 64.9 + - + +
281C CYS* 3.4 7.1 + - - -
282C ASN* 2.9 55.1 + - - +
302C VAL* 4.2 11.4 - - + -
305C VAL* 3.5 28.7 - - + +
307C PRO* 3.9 22.7 - - + -
312C GLN* 2.8 51.9 + - + +
314C ALA* 4.1 19.9 - - + +
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Residues in contact with LEU 278 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95C VAL* 4.9 1.3 - - + -
116C CYS* 3.9 22.7 - - + +
137C GLY* 5.7 0.7 - - - -
139C TYR* 3.8 25.6 + - + +
152C ALA 3.9 19.7 - - - +
153C LEU* 4.4 4.5 - - + -
276C ARG* 3.5 2.2 - - - +
277C LEU* 1.3 83.2 - - + +
279C TYR* 1.3 64.4 + - + +
282C ASN* 4.1 8.9 - - - +
283C PRO* 3.7 13.9 - - - +
307C PRO* 3.7 30.3 - - + -
309C ASP 4.3 3.1 - - - +
310C ILE* 3.4 53.8 + - + +
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Residues in contact with TYR 279 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95C VAL* 4.3 14.1 - - + -
97C GLU* 3.5 34.4 + - + +
116C CYS* 4.0 2.7 - - + -
117C PHE* 3.6 35.4 - - - +
118C ASP* 3.9 13.5 + - + +
135C ILE* 3.5 22.9 - - - +
276C ARG* 3.5 36.5 + - + +
278C LEU* 1.3 82.1 - - + +
280C GLU* 1.3 69.8 + - + +
283C PRO* 3.9 10.8 - - - -
310C ILE 3.9 11.7 - - - -
311C HIS* 2.7 39.7 + + - +
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Residues in contact with GLU 280 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
118C ASP* 3.4 4.9 - - + +
121C ASP* 2.8 27.0 - - - +
135C ILE* 4.5 5.1 - - + +
248C MET* 3.8 20.5 - - + +
275C LEU* 3.6 21.7 - - + +
276C ARG* 2.7 59.8 + - - +
278C LEU 3.7 0.4 - - - -
279C TYR* 1.3 97.0 - - + +
281C CYS* 1.3 67.0 + - - +
282C ASN 3.6 0.4 - - - -
283C PRO* 3.5 6.7 - - - +
284C MET* 3.2 24.9 - - - +
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Residues in contact with CYS 281 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
248C MET* 4.2 2.9 - - - -
275C LEU* 3.9 29.8 - - - -
276C ARG 2.9 21.1 + - - -
277C LEU* 3.8 10.8 - - + +
280C GLU* 1.3 71.8 - - - +
282C ASN* 1.3 66.8 + - - +
284C MET* 3.2 3.1 + - - +
285C ALA* 2.8 24.4 + - - +
302C VAL* 3.8 19.1 - - + -
314C ALA* 4.1 14.6 - - - -
315C PRO 4.8 0.2 - - - -
316C ILE* 3.8 27.8 - - + +
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Residues in contact with ASN 282 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139C TYR* 3.6 11.9 + - - +
154C GLN 4.7 0.2 - - - +
155C PRO* 4.3 0.7 - - - +
156C GLY* 3.3 29.4 + - - -
159C LEU* 4.4 6.5 - - + -
277C LEU* 2.9 34.1 + - - +
278C LEU* 4.1 10.3 - - - +
281C CYS* 1.3 72.4 - - - +
283C PRO* 1.3 67.4 - - + +
285C ALA* 3.1 3.0 + - - +
286C TYR* 3.0 23.2 + - - +
302C VAL* 3.4 35.4 + - - +
303C LEU* 3.6 14.0 - - - +
305C VAL 5.4 0.7 - - - +
307C PRO* 5.2 0.7 - - - +
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Residues in contact with PRO 283 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
135C ILE* 3.6 18.2 - - + -
136C PHE 3.6 31.0 - - - +
137C GLY* 4.3 6.1 - - - +
159C LEU* 4.7 2.2 - - + -
162C ALA* 3.9 12.3 - - + +
163C GLY* 4.5 3.1 - - - +
278C LEU 3.7 17.0 - - - +
279C TYR* 4.0 11.0 - - - -
280C GLU 3.5 14.6 - - - +
282C ASN* 1.3 92.7 - - + +
284C MET* 1.3 60.3 + - - +
286C TYR* 3.5 2.4 + - - +
287C VAL* 3.1 28.6 + - - +
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Residues in contact with MET 284 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
135C ILE* 4.0 27.4 - - + -
163C GLY 5.7 0.2 - - - +
164C TYR* 3.7 42.4 - - + -
248C MET* 3.8 18.2 - - + -
249C VAL* 4.1 18.6 - - - -
252C VAL* 3.9 22.6 - - + +
280C GLU 3.2 18.6 + - - +
281C CYS 3.2 4.5 + - - +
283C PRO* 1.3 76.7 - - - +
285C ALA* 1.3 61.2 + - - +
287C VAL* 3.2 4.5 + - - +
288C MET* 2.8 32.9 + - - +
318C LEU* 3.9 18.6 - - + -
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Residues in contact with ALA 285 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
281C CYS 2.8 18.0 + - - +
282C ASN 3.5 4.3 - - - +
284C MET* 1.3 75.2 - - - +
286C TYR* 1.3 57.9 + - - +
288C MET* 3.2 1.4 + - - +
289C GLU* 2.8 35.3 + - - +
295C ALA* 3.5 30.3 - - + -
302C VAL* 4.1 13.5 - - + -
303C LEU* 4.0 20.4 - - + -
316C ILE* 4.9 0.4 - - + -
318C LEU* 4.3 1.2 - - - +
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Residues in contact with TYR 286 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
156C GLY 4.4 2.5 - - - -
157C ARG 5.0 4.7 - - - -
159C LEU* 3.6 50.0 + - + -
160C VAL 3.7 5.1 + - - -
161C ALA 4.5 0.7 - - - -
162C ALA* 3.8 15.5 - - + -
176C ALA* 3.4 38.4 - - + -
177C MET 3.5 0.4 - - - -
178C ASP* 3.2 29.9 + - - +
282C ASN 3.0 14.7 + - - +
283C PRO 3.7 4.9 - - - +
285C ALA* 1.3 78.2 - - - +
287C VAL* 1.3 60.9 + - - +
289C GLU* 3.5 1.0 + - + +
290C LYS* 3.0 53.1 + - + +
303C LEU* 4.1 21.7 - - + +
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Residues in contact with VAL 287 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
162C ALA* 4.4 1.1 - - + +
163C GLY* 4.1 20.9 - - - +
164C TYR* 4.3 16.8 - - + -
174C VAL* 4.3 18.4 - - + -
176C ALA* 3.7 24.9 - - + +
181C VAL* 3.6 12.6 - - + +
252C VAL* 5.9 0.4 - - + -
256C LEU* 4.4 15.5 - - + -
283C PRO 3.1 15.3 + - - +
284C MET* 3.6 10.8 - - - +
286C TYR* 1.3 73.9 - - - +
288C MET* 1.3 69.3 + - + +
290C LYS 3.5 0.2 + - - -
291C ALA* 3.0 26.5 + - - +
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Residues in contact with MET 288 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
202C ILE* 3.5 25.6 - - + -
252C VAL* 3.6 36.6 - - + +
255C THR* 4.2 7.2 - - + -
256C LEU* 3.9 30.7 - - + +
284C MET 2.8 22.7 + - - +
285C ALA* 3.5 7.2 - - - +
287C VAL* 1.3 74.9 - - + +
289C GLU* 1.3 55.8 + - - +
291C ALA* 3.0 11.4 + - - +
292C GLY 3.2 0.3 + - - -
293C GLY* 2.7 28.3 + - - -
294C MET 4.0 16.6 - - - +
318C LEU* 3.8 24.7 - - + -
319C GLY* 4.2 7.6 - - - +
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Residues in contact with GLU 289 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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157C ARG* 2.9 34.7 + - - -
285C ALA 2.8 21.4 + - - +
286C TYR* 4.0 3.6 - - + +
288C MET* 1.3 73.9 - - - +
290C LYS* 1.3 63.7 + - + +
292C GLY* 3.2 12.0 + - - -
293C GLY 3.6 16.7 - - - +
294C MET* 4.7 6.7 - - - -
295C ALA* 4.5 12.4 + - + +
301C ALA* 4.5 9.9 - - - +
303C LEU* 3.8 24.6 - - + +
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Residues in contact with LYS 290 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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176C ALA* 4.6 1.1 - - + -
177C MET 3.9 13.0 - - - +
178C ASP* 3.0 55.9 + - - +
180C GLY* 4.7 8.2 - - - +
181C VAL* 3.9 21.2 + - + +
200C VAL 4.2 5.2 - - - +
201C LYS* 5.3 2.1 - - - +
286C TYR* 3.0 47.6 + - + +
289C GLU* 1.3 77.8 - - + +
291C ALA* 1.3 57.5 + - - +
292C GLY 3.2 1.5 + - - -
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Residues in contact with ALA 291 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
181C VAL* 3.9 7.8 - - + +
200C VAL 3.7 15.5 - - - +
201C LYS* 3.1 11.6 - - - +
202C ILE* 2.7 37.1 + - + +
256C LEU* 3.6 27.4 - - + -
287C VAL 3.0 18.5 + - - +
288C MET 3.0 5.3 + - - +
290C LYS* 1.3 76.8 - - - +
292C GLY* 1.3 55.6 + - - +
293C GLY 3.5 0.4 - - - -
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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
------------------------------------------------------------
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