Contacts of the helix formed by residues 34 - 52 (chain I) in PDB entry 2WQT
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 34 (chain I).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
2I THR* 5.6 8.1 + - - +
30I ILE* 3.2 29.9 + - - +
31I GLY* 3.0 8.5 + - - +
32I ILE 3.6 0.2 - - - -
33I ASP* 1.3 75.8 - - - +
35I ALA* 1.3 62.9 + - - +
36I GLU* 3.7 9.7 + - - +
37I ALA* 3.2 29.7 + - + +
38I ALA 3.3 12.1 + - - -
152I VAL* 3.2 15.8 - - + +
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Residues in contact with ALA 35 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33I ASP 3.4 7.3 + - - +
34I ASN* 1.3 71.0 - - - +
36I GLU* 1.3 67.3 + - - +
38I ALA* 3.1 3.8 + - - +
39I TYR* 3.0 35.4 + - + -
151I PHE* 3.9 25.4 - - + -
152I VAL* 4.4 7.6 - - - -
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Residues in contact with GLU 36 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34I ASN* 3.3 8.0 + - - +
35I ALA* 1.3 78.8 - - - +
37I ALA* 1.3 58.0 + - - +
39I TYR* 3.6 7.0 + - - +
40I ALA* 3.0 26.8 + - + +
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Residues in contact with ALA 37 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
2I THR* 5.7 2.2 - - - +
6I LEU* 4.1 23.7 - - + +
30I ILE* 4.4 10.5 - - + -
34I ASN* 3.2 33.5 + - + +
35I ALA 3.2 0.8 - - - -
36I GLU* 1.3 76.9 - - - +
38I ALA* 1.3 61.1 + - - +
40I ALA* 3.1 9.1 + - - +
41I ILE* 2.9 34.5 + - - +
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Residues in contact with ALA 38 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30I ILE* 4.5 7.1 - - + +
34I ASN 3.3 2.4 + - - -
35I ALA* 3.1 9.3 + - - +
37I ALA* 1.3 76.9 - - - +
39I TYR* 1.3 62.6 + - - +
41I ILE 3.3 1.7 + - - -
42I GLN* 3.1 18.2 + - - +
152I VAL* 3.4 43.1 - - + +
155I VAL* 3.7 17.3 - - + -
156I ALA* 3.3 20.3 + - - +
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Residues in contact with TYR 39 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35I ALA* 3.0 31.1 + - + +
36I GLU* 3.9 6.3 - - - +
38I ALA* 1.3 73.4 - - - +
40I ALA* 1.3 60.1 + - - +
42I GLN* 3.4 10.0 + - - +
43I HIS* 2.9 29.5 + - - +
77I PRO 4.3 4.3 + - - -
78I ASP* 3.8 10.6 + - - -
79I PHE* 3.2 72.2 + + - -
151I PHE* 4.5 15.2 - + - -
155I VAL* 3.4 24.6 - - + +
210I TRP* 4.3 4.2 - - - -
214I LYS* 4.2 19.8 + - - -
218I LEU* 6.1 2.5 - - + -
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Residues in contact with ALA 40 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6I LEU* 4.0 20.4 - - + -
36I GLU* 3.0 17.6 + - + +
37I ALA* 3.1 9.6 + - - +
39I TYR* 1.3 77.9 - - - +
41I ILE* 1.3 57.0 + - - +
43I HIS* 3.3 8.6 + - - +
44I ILE* 2.9 37.7 + - + +
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Residues in contact with ILE 41 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6I LEU* 3.9 24.2 - - + +
9I LEU* 3.9 30.7 - - + -
10I ALA* 3.8 17.0 - - - -
13I LEU* 3.8 27.8 - - + -
26I LEU* 5.0 2.0 - - + -
30I ILE* 4.2 17.3 - - + -
37I ALA 2.9 18.9 + - - +
38I ALA 3.3 6.5 + - - +
40I ALA* 1.3 72.2 - - - +
42I GLN* 1.3 66.3 + - - +
44I ILE* 3.3 10.0 + - - +
45I ASN* 3.2 23.0 + - - +
156I ALA* 3.9 17.5 - - + +
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Residues in contact with GLN 42 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38I ALA 3.1 8.8 + - - +
39I TYR* 3.6 18.5 - - - +
40I ALA 3.4 0.2 - - - -
41I ILE* 1.3 75.3 - - - +
43I HIS* 1.3 56.8 + - - +
45I ASN* 3.3 7.3 + - - +
46I VAL* 2.9 30.2 + - + +
79I PHE* 3.0 40.9 + - - -
81I THR* 3.1 24.3 + - - -
155I VAL 3.1 26.0 + - - +
156I ALA 3.8 7.8 + - - -
158I ASN* 3.2 33.6 + - + +
159I ALA 4.0 0.4 - - - +
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Residues in contact with HIS 43 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39I TYR 2.9 18.0 + - - +
40I ALA* 3.4 9.6 - - - +
42I GLN* 1.3 74.0 - - - +
44I ILE* 1.3 71.2 + - + +
46I VAL* 3.2 9.3 + - + +
47I GLN* 2.9 58.9 + - + +
220I GLU* 4.1 28.1 + - - -
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Residues in contact with ILE 44 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3I LYS* 4.8 10.3 - - + -
6I LEU* 4.9 11.2 - - + +
7I GLU* 3.6 42.2 - - + +
10I ALA* 3.8 20.6 - - + -
14I ARG* 4.5 8.3 - - - +
40I ALA* 2.9 37.5 + - + +
41I ILE* 3.5 10.3 - - - +
43I HIS* 1.3 77.0 - - + +
45I ASN* 1.3 56.7 + - - +
47I GLN* 3.3 6.8 + - - +
48I HIS* 2.9 28.1 + - + +
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Residues in contact with ASN 45 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10I ALA* 3.2 27.3 + - - +
13I LEU* 3.8 20.4 - - - +
14I ARG* 2.8 41.3 + - + +
41I ILE* 3.2 9.6 + - - +
42I GLN* 3.7 7.9 - - - +
43I HIS 3.2 0.8 - - - -
44I ILE* 1.3 78.1 - - - +
46I VAL* 1.3 65.4 + - + +
48I HIS* 3.6 3.8 + - - +
49I ASP* 3.1 31.4 + - - +
156I ALA 4.9 3.2 + - - -
158I ASN* 6.6 0.2 - - + -
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Residues in contact with VAL 46 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42I GLN* 2.9 29.4 + - + +
43I HIS* 3.2 9.6 + - - +
45I ASN* 1.3 74.4 - - + +
47I GLN* 1.3 65.7 + - - +
49I ASP* 3.2 3.5 + - - +
50I VAL* 2.9 38.6 + - + +
56I VAL* 4.3 4.0 - - + -
59I ARG* 5.3 3.4 - - - +
81I THR* 3.6 39.3 - - + +
83I PHE* 4.1 22.6 - - + -
158I ASN* 4.7 3.4 - - - +
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Residues in contact with GLN 47 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43I HIS* 2.9 49.9 + - + +
44I ILE* 3.5 7.0 - - - +
46I VAL* 1.3 82.4 - - - +
48I HIS* 1.3 60.9 + - - +
50I VAL* 3.4 19.7 + - - +
51I ALA* 3.1 22.7 + - - +
220I GLU* 5.3 1.4 - - - +
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Residues in contact with HIS 48 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14I ARG* 3.7 44.6 + - - +
44I ILE* 2.9 17.9 + - + +
45I ASN* 3.7 9.0 - - - +
47I GLN* 1.3 77.1 - - - +
49I ASP* 1.3 75.4 + - - +
51I ALA* 3.3 16.4 + - - +
52I GLN* 3.3 37.5 + - + +
1263I K 4.1 5.1 - - - -
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Residues in contact with ASP 49 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14I ARG* 4.8 2.1 - - - -
45I ASN 3.1 16.4 + - - +
46I VAL 3.2 3.8 + - - +
48I HIS* 1.3 90.2 - - - +
50I VAL* 1.3 65.5 + - - +
52I GLN* 3.0 24.8 + - - +
53I GLY 3.3 0.2 + - - -
54I ARG* 3.0 60.8 + - + +
83I PHE* 4.2 8.6 - - + -
1263I K 4.0 6.6 - - - -
1306I NA 3.3 16.8 - - - -
4R HIS* 3.8 9.3 - - - -
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Residues in contact with VAL 50 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46I VAL* 2.9 25.0 + - + +
47I GLN* 3.8 19.7 - - - +
49I ASP* 1.3 75.2 - - - +
51I ALA* 1.3 58.6 + - - +
53I GLY* 2.8 21.8 + - - -
54I ARG 3.6 19.9 - - - +
56I VAL* 4.0 25.1 - - + +
83I PHE* 4.3 2.0 - - + -
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Residues in contact with ALA 51 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47I GLN 3.1 13.6 + - - +
48I HIS* 3.5 13.2 - - - +
49I ASP 3.2 0.2 - - - -
50I VAL* 1.3 76.1 - - - +
52I GLN* 1.3 58.4 + - + +
53I GLY 3.3 0.8 + - - -
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Residues in contact with GLN 52 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48I HIS* 3.3 33.0 + - + +
49I ASP* 3.0 21.8 + - - +
51I ALA* 1.3 77.4 - - + +
53I GLY* 1.3 58.9 + - - +
54I ARG* 3.4 2.8 + - + +
1263I K 3.6 18.5 - - - -
3R LYS* 3.2 31.7 + - - +
4R HIS* 4.3 9.9 + - - +
7R GLU* 3.5 43.3 - - + +
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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
------------------------------------------------------------
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) + - + + + + + -
------------------------------------------------------------
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