Contacts of the helix formed by residues 37 - 51 (chain C) in PDB entry 1FIU
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 ASN 37 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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34C ASP* 2.9 22.9 + - - +
35C GLY 4.6 0.9 - - - -
36C SER* 1.3 79.0 + - - +
38C THR* 1.3 64.6 + - - +
39C ARG* 3.1 12.3 + - - +
40C SER* 3.1 24.7 + - - +
41C PHE* 2.9 21.9 + - - +
224C THR* 4.4 6.5 - - - +
227C ARG* 3.6 15.4 - - - +
2H G 3.4 25.9 - - + +
3H C 2.9 28.6 + - + -
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Residues in contact with THR 38 (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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36C SER 3.9 1.4 + - - -
37C ASN* 1.3 71.2 + - - +
39C ARG* 1.3 64.2 + - + +
41C PHE* 3.4 6.7 + - + +
42C ASN* 3.0 49.4 + - - +
258C TYR* 4.0 6.3 - - + +
1H T 4.9 0.3 - - - -
2H G 2.9 28.4 + - - -
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Residues in contact with ARG 39 (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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37C ASN* 3.1 8.3 + - - +
38C THR* 1.3 76.1 - - - +
40C SER* 1.3 58.5 + - - +
43C ILE* 2.8 44.1 + - + +
224C THR* 5.1 3.8 - - + -
257C ASN 5.2 1.2 + - - -
258C TYR* 3.6 60.0 - - + +
259C GLU 5.0 0.4 - - - +
260C ASP* 2.4 46.6 + - - -
261C ALA* 4.2 7.8 - - - +
2H G 4.2 25.0 + - - +
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Residues in contact with SER 40 (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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33C ALA* 3.5 6.2 - - - -
34C ASP* 2.9 28.3 + - - +
37C ASN* 3.1 33.5 + - - -
39C ARG* 1.3 75.1 - - - +
41C PHE* 1.3 58.7 + - - +
43C ILE* 4.0 0.8 - - - +
44C ALA* 2.9 35.7 + - - +
222C GLU* 4.8 0.5 + - - -
223C PRO* 3.6 12.0 - - - +
224C THR* 3.6 19.2 - - - +
227C ARG* 4.7 1.3 + - - -
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Residues in contact with PHE 41 (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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27C ARG 3.9 10.8 - - - -
28C GLY* 3.3 35.9 - - - -
29C VAL* 4.0 20.2 - - + -
30C VAL* 5.3 2.1 + - - +
33C ALA* 4.2 9.5 - - - +
34C ASP 4.2 4.0 + - - +
35C GLY* 4.6 12.6 - - - +
37C ASN 2.9 16.2 + - - +
38C THR* 3.6 7.2 - - - +
40C SER* 1.3 77.7 - - - +
42C ASN* 1.3 80.1 + - - +
44C ALA* 4.0 1.4 - - - +
45C LYS* 3.1 27.9 + - + +
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Residues in contact with ASN 42 (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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38C THR* 3.0 30.3 + - - +
39C ARG 4.1 0.4 - - - +
41C PHE* 1.3 92.8 - - - +
43C ILE* 1.3 66.2 + - - +
45C LYS* 3.5 4.3 + - - +
46C GLY* 3.1 20.1 + - - -
256C LEU* 4.0 21.7 - - + +
258C TYR* 3.0 28.0 + - - +
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Residues in contact with ILE 43 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39C ARG* 2.8 34.6 + - + +
40C SER 4.0 1.6 - - - +
42C ASN* 1.3 71.5 - - - +
44C ALA* 1.3 63.9 + - - +
46C GLY 3.2 1.2 + - - -
47C ILE* 3.0 11.6 + - + +
223C PRO* 3.4 34.1 - - + +
224C THR* 4.6 5.8 - - + -
225C PRO* 4.3 9.2 - - + -
249C LEU* 3.6 7.0 - - + -
252C ILE* 2.8 43.8 - - + +
253C LEU* 3.9 23.6 - - + -
256C LEU* 4.2 7.2 - - + -
258C TYR* 4.0 21.1 - - + -
261C ALA* 5.1 2.5 - - + -
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Residues in contact with ALA 44 (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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30C VAL* 3.9 8.8 - - + +
32C ASN* 3.6 20.0 + - - +
33C ALA* 3.4 23.1 - - + -
40C SER 2.9 19.6 + - - +
41C PHE 4.0 0.9 - - - +
43C ILE* 1.3 78.6 - - - +
45C LYS* 1.3 57.7 + - - +
47C ILE* 3.4 6.9 + - - +
48C ALA* 3.0 28.2 + - - +
223C PRO* 4.1 13.2 - - + +
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Residues in contact with LYS 45 (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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24C THR* 3.0 31.3 + - - +
28C GLY 4.8 9.9 - - - +
30C VAL* 3.6 19.9 - - + +
41C PHE* 3.1 24.1 + - + +
42C ASN* 4.0 5.2 - - - +
43C ILE 3.3 0.2 - - - -
44C ALA* 1.3 74.2 - - - +
46C GLY* 1.3 61.0 + - - +
48C ALA* 3.2 6.0 + - + +
49C ASP* 2.9 53.5 + - - +
53C SER* 5.1 7.5 + - - -
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Residues in contact with GLY 46 (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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42C ASN 3.1 15.3 + - - -
43C ILE 3.6 2.9 - - - -
45C LYS* 1.3 76.5 - - - +
47C ILE* 1.3 61.1 + - - +
49C ASP* 3.3 9.8 + - - +
50C LEU* 3.0 26.5 + - - +
252C ILE* 3.4 19.1 - - - -
256C LEU* 6.2 0.2 - - - -
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Residues in contact with ILE 47 (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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22C LEU* 5.6 1.1 - - + -
32C ASN* 5.3 2.2 - - - +
43C ILE* 3.0 19.4 + - + +
44C ALA* 3.7 7.9 - - - +
45C LYS 3.3 0.2 - - - -
46C GLY* 1.3 76.6 - - - +
48C ALA* 1.3 62.8 + - - +
50C LEU* 3.0 4.0 + - - +
51C LEU* 2.9 29.9 + - + +
223C PRO* 4.5 11.0 - - + -
243C HIS* 4.3 14.1 - - + -
244C PHE* 3.9 17.9 - - + -
245C ALA* 3.8 23.6 - - + -
248C GLU* 4.2 6.7 - - + -
249C LEU* 4.0 29.2 - - + +
252C ILE* 3.1 28.7 - - + +
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Residues in contact with ALA 48 (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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22C LEU* 4.9 7.0 - - + -
23C ALA 6.4 0.2 - - - -
24C THR* 5.1 1.1 - - - +
30C VAL* 4.1 24.9 - - + -
44C ALA 3.0 17.6 + - - +
45C LYS* 3.6 12.3 - - + +
47C ILE* 1.3 76.7 - - - +
49C ASP* 1.3 60.8 + - - +
51C LEU* 3.1 12.9 + - - +
53C SER* 2.9 44.0 + - - +
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Residues in contact with ASP 49 (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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45C LYS* 2.9 47.8 + - - +
46C GLY* 3.6 8.6 - - - +
47C ILE 3.1 0.2 - - - -
48C ALA* 1.3 77.8 - - - +
50C LEU* 1.3 59.0 + - + +
52C HIS* 3.0 26.0 + - - +
53C SER 4.8 7.8 - - - +
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Residues in contact with LEU 50 (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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46C GLY 3.0 12.9 + - - +
47C ILE 3.0 6.5 + - - +
49C ASP* 1.3 78.1 - - + +
51C LEU* 1.3 62.3 + - - +
52C HIS* 3.2 17.6 + - - -
248C GLU* 3.7 34.2 - - + +
251C GLN* 3.4 41.1 - - + +
252C ILE* 3.6 27.8 - - + -
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Residues in contact with LEU 51 (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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10C ARG* 3.0 30.8 + - - +
13C HIS* 3.3 43.5 - - + +
17C LEU* 3.7 11.5 - - + +
22C LEU* 3.7 28.3 - - + -
47C ILE* 2.9 31.7 + - + +
48C ALA* 3.1 6.2 + - - +
50C LEU* 1.3 76.9 - - - +
52C HIS* 1.3 69.2 + - - +
53C SER 3.4 1.9 + - - +
244C PHE* 4.0 13.0 - - + -
245C ALA* 4.5 1.1 - - + -
248C GLU* 3.7 24.2 - - + +
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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