Contacts of the helix formed by residues 19 - 34 (chain H) 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 H).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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17H ASP 3.1 6.6 + - - +
18H HIS* 1.3 73.5 + - - +
20H GLU* 1.3 61.5 + - - +
21H TYR 3.1 0.2 - - - -
22H GLN* 3.0 39.6 + - - +
23H TYR 4.3 0.2 + - - -
55H ARG 3.9 8.0 - - - +
56H PHE* 3.4 29.3 - - + +
57H SER* 2.9 44.8 + - - +
62H THR* 5.6 0.3 - - - +
64H PRO* 5.0 0.2 - - - +
277H PHE* 3.6 19.3 - - + -
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Residues in contact with GLU 20 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18H HIS* 2.9 21.4 + - + +
19H GLU* 1.3 74.6 - - - +
21H TYR* 1.3 64.4 + - - +
22H GLN 3.0 0.2 - - - -
23H TYR* 3.0 18.3 + - + +
24H LEU* 3.1 16.0 + - + +
56H PHE* 4.9 2.7 - - - -
66H LEU* 3.7 23.9 - - + +
67H THR* 2.8 34.9 + - - -
68H THR* 2.6 45.4 + - - +
274H PRO* 3.8 11.8 - - + +
277H PHE* 3.7 14.1 - - + -
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Residues in contact with TYR 21 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13H ARG* 3.3 65.4 - - + +
14H SER 4.8 0.7 + - - -
15H ASN* 3.1 28.2 + - + -
16H PRO 3.8 11.9 - - - +
18H HIS* 3.0 29.2 + - + +
20H GLU* 1.3 78.2 - - - +
22H GLN* 1.3 54.3 + - - +
23H TYR 3.2 0.2 - - - -
24H LEU* 3.8 19.7 - - + -
25H ASP* 2.7 41.8 + - - +
272H ARG 5.1 1.8 - - - -
273H GLU* 3.8 15.4 - - - +
274H PRO* 3.4 29.0 - - + +
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Residues in contact with GLN 22 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18H HIS 5.5 0.2 - - - +
19H GLU* 3.0 28.4 + - - +
20H GLU 3.0 0.2 - - - -
21H TYR* 1.3 79.6 - - - +
23H TYR* 1.3 62.4 + - - +
25H ASP* 4.0 3.4 - - - +
26H LEU* 3.1 20.1 + - - +
53H SER 4.2 4.6 + - - -
54H PHE* 3.4 37.0 - - + +
55H ARG* 2.9 49.9 + - - +
56H PHE* 3.6 10.5 - - + -
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Residues in contact with TYR 23 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19H GLU 4.3 0.6 + - - +
20H GLU* 3.0 12.9 + - + +
22H GLN* 1.3 80.9 - - - +
24H LEU* 1.3 75.7 + - + +
26H LEU* 3.4 2.1 + - - +
27H ILE* 3.2 50.4 + - + +
54H PHE* 3.7 17.4 - + + -
56H PHE* 5.4 2.2 - - + -
66H LEU* 3.6 39.5 - - + -
68H THR* 5.0 0.2 - - - -
69H LYS* 5.0 0.3 + - - -
220H LEU* 2.7 35.4 + - + +
221H GLY* 3.8 6.8 + - - -
224H VAL* 4.0 26.7 - - + -
225H PRO* 3.6 9.2 - - + +
228H ILE* 4.7 3.8 - - + -
266H LEU* 4.3 4.3 - - - +
269H GLN* 3.8 18.8 + - - -
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Residues in contact with LEU 24 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20H GLU* 3.1 12.6 + - + +
21H TYR* 4.0 21.1 - - + +
23H TYR* 1.3 89.3 - - + +
25H ASP* 1.3 63.6 + - - +
27H ILE* 3.3 2.7 + - + -
28H ARG* 3.0 27.1 + - - +
68H THR* 3.8 37.9 - - + +
269H GLN* 4.3 17.3 - - + +
270H LEU* 3.4 35.7 - - + +
272H ARG 4.0 9.0 - - - +
274H PRO* 3.9 17.3 - - + -
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Residues in contact with ASP 25 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13H ARG* 2.7 43.6 + - - -
21H TYR* 2.7 30.3 + - - +
22H GLN* 4.0 3.9 - - - +
24H LEU* 1.3 73.7 - - - +
26H LEU* 1.3 58.2 + - - +
28H ARG* 3.2 13.5 + - - +
29H ARG* 2.9 29.3 + - - +
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Residues in contact with LEU 26 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22H GLN 3.1 20.0 + - - +
23H TYR 3.8 2.2 - - - +
25H ASP* 1.3 76.0 - - - +
27H ILE* 1.3 58.7 + - - +
29H ARG* 3.1 11.6 + - - +
30H ILE* 2.8 55.7 + - + +
48H LEU* 4.5 8.7 - - + -
51H PRO* 3.9 31.9 - - + -
52H PRO* 5.4 0.4 - - + +
54H PHE* 3.4 29.6 - - + -
220H LEU* 3.8 14.8 - - + -
253H MET* 3.9 18.4 - - + -
256H ALA* 5.3 0.2 - - + -
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Residues in contact with ILE 27 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23H TYR* 3.2 52.3 + - + +
24H LEU* 3.6 9.6 - - + +
25H ASP 3.3 0.2 - - - -
26H LEU* 1.3 76.2 - - - +
28H ARG* 1.3 65.1 + - - +
30H ILE* 3.2 8.4 + - - +
31H ILE* 3.0 43.0 + - + +
220H LEU* 3.7 23.6 - - + -
258H VAL* 4.5 2.9 - - + -
266H LEU* 3.9 33.9 - - + -
269H GLN* 5.5 0.2 - - - +
270H LEU* 4.1 15.7 - - + -
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Residues in contact with ARG 28 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13H ARG* 3.7 11.7 - - - +
24H LEU* 3.0 19.9 + - - +
25H ASP* 3.4 30.6 + - - +
27H ILE* 1.3 78.8 - - - +
29H ARG* 1.3 56.6 + - - +
31H ILE* 3.3 4.0 + - - +
32H ASN* 2.9 50.2 + - - +
270H LEU* 3.5 51.8 + - + +
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Residues in contact with ARG 29 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25H ASP 2.9 14.5 + - - +
26H LEU* 3.5 14.4 - - - +
28H ARG* 1.3 78.1 - - - +
30H ILE* 1.3 58.5 + - - +
32H ASN* 4.4 4.7 - - - -
33H VAL* 2.8 52.3 + - + +
48H LEU* 3.6 24.6 - - + +
51H PRO* 4.1 12.7 - - - +
52H PRO* 3.7 27.1 - - - +
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Residues in contact with ILE 30 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26H LEU* 2.8 38.0 + - + +
27H ILE 3.2 3.8 + - - +
29H ARG* 1.3 72.4 - - - +
31H ILE* 1.3 59.4 + - - +
34H GLY* 2.7 31.0 + - - +
46H VAL* 3.0 47.6 - - + +
47H ALA* 4.1 4.5 - - - -
48H LEU* 3.9 21.5 - - + -
220H LEU* 3.6 32.3 - - + -
256H ALA* 3.8 14.1 - - + +
258H VAL* 3.8 14.1 - - + -
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Residues in contact with ILE 31 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27H ILE* 3.0 39.2 + - + +
28H ARG* 3.7 3.4 - - - +
30H ILE* 1.3 77.3 - - - +
32H ASN* 1.3 70.1 + - - +
34H GLY 4.5 1.0 + - - +
46H VAL* 4.5 10.8 - - + +
258H VAL* 4.6 15.3 - - + -
263H VAL* 4.2 43.7 - - + +
266H LEU* 4.7 2.5 - - + -
267H LYS* 4.6 13.5 - - + -
270H LEU* 4.3 15.3 - - + -
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Residues in contact with ASN 32 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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28H ARG* 2.9 37.3 + - - +
29H ARG* 3.7 5.5 - - - +
31H ILE* 1.3 89.7 + - - +
33H VAL* 1.3 71.0 + - + +
34H GLY 3.7 0.6 - - - +
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Residues in contact with VAL 33 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29H ARG* 2.8 43.6 + - + +
32H ASN* 1.3 82.7 - - + +
34H GLY* 1.3 68.0 + - - +
35H GLU* 3.8 0.9 + - - +
48H LEU* 4.0 13.7 - - + +
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Residues in contact with GLY 34 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29H ARG 3.6 2.6 + - - -
30H ILE 2.7 29.0 + - - -
31H ILE 5.3 0.5 - - - +
32H ASN 3.7 1.7 - - - +
33H VAL* 1.3 77.7 - - - +
35H GLU* 1.3 61.5 + - - -
36H VAL* 3.9 3.6 + - - +
46H VAL* 3.4 13.0 - - - +
47H ALA 3.6 10.5 - - - -
48H LEU* 3.9 9.9 - - - -
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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