Contacts of the helix formed by residues 19 - 34 (chain L) in PDB entry 2AAZ
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 GLU 19 (chain L).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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17L ASP 3.1 8.1 + - - +
18L HIS* 1.3 73.9 + - - +
20L GLU* 1.3 62.3 + - - +
21L TYR 3.1 0.2 - - - -
22L GLN* 3.0 40.3 + - - +
23L TYR 4.3 0.2 + - - -
55L ARG 3.9 8.0 - - - +
56L PHE* 3.4 29.2 - - + +
57L SER* 2.9 45.4 + - - +
62L THR* 5.7 0.5 - - - +
64L PRO* 5.0 0.2 - - - +
277L PHE* 3.7 19.1 - - + -
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Residues in contact with GLU 20 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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18L HIS* 2.9 19.8 + - + +
19L GLU* 1.3 77.7 - - - +
21L TYR* 1.3 62.2 + - - +
22L GLN 3.0 0.2 - - - -
23L TYR* 3.1 18.1 + - + +
24L LEU* 3.1 17.1 + - + +
56L PHE* 4.9 2.2 - - - -
66L LEU* 3.7 21.4 - - + +
67L THR* 2.9 35.4 + - - -
68L THR* 2.6 42.3 + - - +
274L PRO* 3.7 12.5 - - + +
277L PHE* 3.7 17.6 - - + -
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Residues in contact with TYR 21 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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16L PRO* 4.1 26.9 - - + +
18L HIS* 3.0 44.1 + - + +
20L GLU* 1.3 74.7 - - - +
22L GLN* 1.3 58.2 + - - +
24L LEU* 3.7 19.7 - - + -
25L ASP* 2.7 53.6 + - - +
28L ARG* 6.2 0.4 - - - -
272L ARG 5.2 2.0 - - - -
273L GLU* 3.8 16.5 - - + +
274L PRO* 3.5 27.9 - - + +
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Residues in contact with GLN 22 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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18L HIS 5.5 0.2 - - - +
19L GLU* 3.0 26.2 - - - +
20L GLU 3.0 0.4 - - - -
21L TYR* 1.3 79.3 - - - +
23L TYR* 1.3 62.0 + - - +
25L ASP* 4.0 4.5 - - - +
26L LEU* 3.1 19.4 + - - +
53L SER 4.2 4.8 + - - -
54L PHE* 3.4 35.5 - - + +
55L ARG* 2.9 50.1 + - - +
56L PHE* 3.6 10.3 - - + -
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Residues in contact with TYR 23 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20L GLU* 3.1 10.8 + - + +
22L GLN* 1.3 81.1 - - - +
24L LEU* 1.3 75.9 + - + +
26L LEU* 3.4 3.5 + - - +
27L ILE* 3.2 48.8 + - + +
54L PHE* 3.7 18.1 - + + -
56L PHE* 5.4 2.2 - - + -
66L LEU* 3.7 39.0 - - + -
68L THR* 5.0 1.1 - - - -
69L LYS* 5.0 0.2 + - - -
220L LEU* 2.5 36.2 + - + +
221L GLY* 3.8 6.6 + - - -
224L VAL* 3.9 27.1 - - + -
225L PRO* 3.6 9.5 - - + +
228L ILE* 4.7 4.3 - - + -
266L LEU* 4.4 3.6 - - - +
269L GLN* 3.9 19.8 + - - -
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Residues in contact with LEU 24 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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20L GLU* 3.1 13.3 + - + +
21L TYR* 3.9 22.2 - - + +
23L TYR* 1.3 91.1 - - + +
25L ASP* 1.3 64.3 + - - +
27L ILE* 3.4 2.5 + - + -
28L ARG* 3.1 27.7 + - - +
68L THR* 3.8 39.5 - - + +
269L GLN* 4.3 13.5 - - + +
270L LEU* 3.4 35.5 - - + +
272L ARG 4.1 9.0 - - - +
274L PRO* 3.9 17.0 - - + -
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Residues in contact with ASP 25 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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21L TYR* 2.7 44.2 + - - +
22L GLN* 4.0 4.6 - - - +
24L LEU* 1.3 72.0 - - - +
26L LEU* 1.3 58.5 + - - +
28L ARG* 3.3 23.2 + - - +
29L ARG* 2.9 29.0 + - - +
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Residues in contact with LEU 26 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22L GLN 3.1 18.8 + - - +
23L TYR 3.8 4.3 - - - +
24L LEU 3.3 0.2 - - - -
25L ASP* 1.3 75.8 - - - +
27L ILE* 1.3 57.6 + - - +
29L ARG* 3.2 12.0 + - - +
30L ILE* 2.8 55.4 + - + +
48L LEU* 4.6 8.1 - - + -
51L PRO* 3.9 31.0 - - + -
52L PRO* 5.9 0.4 - - + -
54L PHE* 3.4 28.0 - - + -
220L LEU* 3.7 15.5 - - + -
253L MET* 3.9 17.5 - - + -
256L ALA* 4.7 0.4 - - + -
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Residues in contact with ILE 27 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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23L TYR* 3.2 53.2 + - + +
24L LEU* 3.7 9.0 - - + +
25L ASP 3.3 0.2 - - - -
26L LEU* 1.3 75.7 - - - +
28L ARG* 1.3 64.1 + - - +
30L ILE* 3.3 7.7 + - - +
31L ILE* 3.0 43.5 + - + +
220L LEU* 3.6 22.7 - - + -
258L VAL* 4.5 2.9 - - + -
266L LEU* 3.9 33.7 - - + -
269L GLN* 5.6 0.2 - - - +
270L LEU* 4.2 15.0 - - + -
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Residues in contact with ARG 28 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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21L TYR* 6.2 0.6 - - - -
24L LEU* 3.1 20.7 + - - +
25L ASP* 3.4 30.3 + - - +
27L ILE* 1.3 76.5 - - - +
29L ARG* 1.3 58.6 + - - +
31L ILE* 3.5 4.3 + - - +
32L ASN* 3.0 49.9 + - - +
270L LEU* 3.6 51.9 + - + +
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Residues in contact with ARG 29 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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25L ASP 2.9 17.2 + - - +
26L LEU* 3.5 13.2 - - - +
28L ARG* 1.3 75.1 - - - +
30L ILE* 1.3 60.5 + - - +
32L ASN* 3.2 6.1 + - - -
33L VAL* 2.8 52.3 + - + +
48L LEU* 3.6 24.5 - - + +
51L PRO* 4.2 11.7 - - - +
52L PRO* 3.7 28.7 - - - +
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Residues in contact with ILE 30 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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26L LEU* 2.8 37.8 + - + +
27L ILE 3.7 4.3 - - - +
29L ARG* 1.3 71.4 - - - +
31L ILE* 1.3 58.3 + - - +
34L GLY* 2.7 29.2 + - - +
46L VAL* 3.0 47.6 - - + +
47L ALA* 4.1 4.7 - - - -
48L LEU* 3.9 23.1 - - + -
220L LEU* 3.6 31.9 - - + -
256L ALA* 3.8 15.5 - - + +
258L VAL* 3.8 13.0 - - + -
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Residues in contact with ILE 31 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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27L ILE* 3.0 35.2 + - + +
28L ARG* 3.8 4.7 - - - +
30L ILE* 1.3 76.4 - - - +
32L ASN* 1.3 70.9 + - - +
34L GLY 4.5 1.0 + - - +
46L VAL* 4.6 10.5 - - + +
258L VAL* 4.7 15.0 - - + -
263L VAL* 4.2 44.0 - - + +
266L LEU* 4.8 2.7 - - + -
267L LYS* 4.6 13.0 - - + -
270L LEU* 4.4 14.1 - - + -
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Residues in contact with ASN 32 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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28L ARG* 3.0 37.8 + - - +
29L ARG* 3.2 5.8 + - - +
31L ILE* 1.3 89.2 - - - +
33L VAL* 1.3 69.7 + - + +
34L GLY 5.0 0.7 - - - +
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Residues in contact with VAL 33 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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29L ARG* 2.8 44.5 + - + +
32L ASN* 1.3 82.2 - - + +
34L GLY* 1.3 68.5 + - - +
35L GLU* 3.8 0.7 + - - +
48L LEU* 4.0 13.8 - - + +
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Residues in contact with GLY 34 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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29L ARG 3.6 2.2 + - - -
30L ILE* 2.7 29.4 + - - -
31L ILE 4.5 0.9 - - - +
32L ASN 3.6 1.8 - - - +
33L VAL* 1.3 78.0 - - - +
35L GLU* 1.3 60.5 + - - -
36L VAL* 3.9 3.8 + - - +
46L VAL* 3.4 12.8 - - - +
47L ALA 3.6 10.3 - - - -
48L LEU* 3.8 9.4 - - - -
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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
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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