Contacts of the helix formed by residues 34 - 52 (chain Q) 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 Q).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2Q THR* 5.6 8.7 + - - +
30Q ILE* 3.2 30.3 + - + +
31Q GLY 3.0 8.1 + - - +
32Q ILE 3.6 0.4 - - - -
33Q ASP* 1.3 73.3 - - - +
35Q ALA* 1.3 65.1 + - - +
36Q GLU* 3.7 10.0 + - - +
37Q ALA* 3.3 29.9 + - + +
38Q ALA 3.3 16.5 + - - -
152Q VAL* 3.3 11.8 - - + +
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Residues in contact with ALA 35 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33Q ASP* 3.4 7.5 + - - +
34Q ASN* 1.3 73.5 - - - +
36Q GLU* 1.3 65.0 + - - +
38Q ALA* 3.1 3.6 + - - +
39Q TYR* 3.0 36.7 + - + -
151Q PHE* 3.9 25.1 - - + -
152Q VAL* 4.4 7.6 - - - -
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Residues in contact with GLU 36 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34Q ASN* 3.3 8.2 + - - +
35Q ALA* 1.3 79.9 - - - +
37Q ALA* 1.3 56.9 + - - +
39Q TYR* 3.6 6.7 + - - +
40Q ALA* 3.1 26.8 + - + +
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Residues in contact with ALA 37 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
2Q THR* 5.7 2.0 - - - +
6Q LEU* 4.2 24.0 - - + +
30Q ILE* 4.4 10.8 - - + -
34Q ASN* 3.3 33.7 + - + +
35Q ALA 3.2 0.6 - - - -
36Q GLU* 1.3 75.6 - - - +
38Q ALA* 1.3 60.9 + - - +
40Q ALA* 3.1 9.1 + - - +
41Q ILE* 2.9 34.4 + - - +
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Residues in contact with ALA 38 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30Q ILE* 4.5 5.8 - - + +
34Q ASN 3.3 2.8 + - - -
35Q ALA* 3.1 10.2 + - - +
37Q ALA* 1.3 77.1 - - - +
39Q TYR* 1.3 63.2 + - - +
41Q ILE* 3.4 1.6 + - - -
42Q GLN* 3.1 17.5 + - - +
152Q VAL* 3.4 42.2 - - + +
155Q VAL* 3.7 18.0 - - + +
156Q ALA* 3.3 20.0 + - - +
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Residues in contact with TYR 39 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35Q ALA* 3.0 30.9 + - + +
36Q GLU* 3.9 6.1 - - - +
38Q ALA* 1.3 73.6 - - - +
40Q ALA* 1.3 60.4 + - - +
42Q GLN* 3.4 10.8 + - - +
43Q HIS* 2.9 29.0 + - - +
77Q PRO 4.3 4.3 + - - -
78Q ASP* 3.8 10.6 + - - -
79Q PHE* 3.2 70.9 + + - -
151Q PHE* 4.5 15.8 - + - -
155Q VAL* 3.4 24.1 - - + +
210Q TRP* 4.4 4.0 - - - -
214Q LYS* 4.3 18.9 + - - -
218Q LEU* 6.1 2.7 - - + -
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Residues in contact with ALA 40 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6Q LEU* 4.1 19.5 - - + -
36Q GLU* 3.1 16.5 + - + +
37Q ALA* 3.1 10.7 + - - +
39Q TYR* 1.3 73.5 - - - +
41Q ILE* 1.3 59.8 + - - +
43Q HIS* 3.2 7.5 + - - +
44Q ILE* 2.8 38.0 + - + +
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Residues in contact with ILE 41 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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6Q LEU* 4.0 24.2 - - + +
9Q LEU* 3.9 31.2 - - + -
10Q ALA* 3.8 17.3 - - - +
13Q LEU* 3.8 27.4 - - + -
26Q LEU* 5.0 1.3 - - + -
30Q ILE* 4.2 18.2 - - + -
37Q ALA 2.9 17.8 + - - +
38Q ALA 3.7 6.1 - - - +
39Q TYR 3.3 0.4 - - - -
40Q ALA* 1.3 72.8 - - - +
42Q GLN* 1.3 64.8 + - - +
44Q ILE* 3.3 10.0 + - - +
45Q ASN* 3.2 22.7 + - - +
156Q ALA* 3.8 18.4 - - + +
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Residues in contact with GLN 42 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38Q ALA 3.1 8.8 + - - +
39Q TYR* 3.6 18.5 - - - +
40Q ALA 3.4 0.2 - - - -
41Q ILE* 1.3 75.3 - - - +
43Q HIS* 1.3 57.5 + - - +
45Q ASN* 3.3 6.6 + - - +
46Q VAL* 2.9 30.1 + - + +
59Q ARG* 4.9 0.2 + - - -
79Q PHE* 3.0 40.5 + - - -
81Q THR* 3.0 24.3 + - - -
155Q VAL 3.2 26.1 + - - +
156Q ALA 3.8 7.8 + - - -
158Q ASN* 3.2 34.3 + - + +
159Q ALA 4.0 0.2 - - - +
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Residues in contact with HIS 43 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39Q TYR 2.9 18.0 + - - +
40Q ALA* 3.5 8.7 - - - +
41Q ILE 3.2 0.2 - - - -
42Q GLN* 1.3 74.6 - - - +
44Q ILE* 1.3 70.5 + - + +
46Q VAL* 3.2 9.4 + - + +
47Q GLN* 2.8 57.7 + - + +
220Q GLU* 4.2 26.0 + - - -
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Residues in contact with ILE 44 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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3Q LYS* 4.8 10.3 - - + -
6Q LEU* 4.9 11.0 - - + +
7Q GLU* 3.6 42.6 - - + +
10Q ALA* 3.8 19.3 - - + -
14Q ARG* 4.5 8.5 - - - +
40Q ALA* 2.8 36.8 + - + +
41Q ILE* 3.3 10.3 + - - +
43Q HIS* 1.3 77.8 - - + +
45Q ASN* 1.3 57.3 + - - +
47Q GLN* 3.3 6.1 + - - +
48Q HIS* 2.9 28.1 + - + +
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Residues in contact with ASN 45 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10Q ALA* 3.2 27.6 + - - +
13Q LEU* 3.8 19.6 - - - +
14Q ARG* 2.8 43.0 + - + +
41Q ILE* 3.2 10.6 + - - +
42Q GLN* 3.7 8.1 - - - +
43Q HIS 3.2 0.8 - - - -
44Q ILE* 1.3 78.3 - - - +
46Q VAL* 1.3 64.6 - - - +
48Q HIS* 3.7 3.9 - - - +
49Q ASP* 3.1 31.6 + - - +
156Q ALA 4.8 3.4 + - - -
158Q ASN* 6.6 0.7 - - + -
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Residues in contact with VAL 46 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42Q GLN* 2.9 29.7 + - + +
43Q HIS* 3.8 9.6 - - - +
45Q ASN* 1.3 75.9 - - + +
47Q GLN* 1.3 65.6 + - - +
49Q ASP* 3.2 3.6 + - - +
50Q VAL* 2.9 39.1 + - + +
56Q VAL* 4.4 4.7 - - + -
59Q ARG* 5.3 3.4 - - - +
81Q THR* 3.6 39.0 - - + +
83Q PHE* 4.1 22.6 - - + -
158Q ASN* 4.6 4.3 - - - +
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Residues in contact with GLN 47 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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43Q HIS* 2.8 50.1 + - + +
44Q ILE* 3.5 6.7 - - - +
46Q VAL* 1.3 83.6 - - - +
48Q HIS* 1.3 61.7 + - - +
50Q VAL* 3.4 20.7 + - - +
51Q ALA* 3.1 22.9 + - - +
220Q GLU* 5.4 0.7 - - - +
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Residues in contact with HIS 48 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14Q ARG* 3.7 43.9 + - - +
18Q GLU* 6.0 0.2 + - - -
44Q ILE* 2.9 18.2 + - + +
45Q ASN* 3.7 8.7 - - - +
47Q GLN* 1.3 76.8 - - - +
49Q ASP* 1.3 75.3 + - - +
51Q ALA* 3.3 17.2 + - - +
52Q GLN* 3.3 38.3 + - + +
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Residues in contact with ASP 49 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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14Q ARG* 4.7 5.4 - - - -
45Q ASN* 3.1 18.5 + - - +
46Q VAL 3.2 4.0 + - - +
48Q HIS* 1.3 88.1 - - - +
50Q VAL* 1.3 65.7 + - - +
52Q GLN* 3.0 27.8 + - - +
53Q GLY 3.4 0.3 + - - -
54Q ARG* 3.0 61.1 + - + +
83Q PHE* 4.1 8.6 - - + -
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Residues in contact with VAL 50 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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46Q VAL* 2.9 25.7 + - + +
47Q GLN* 3.8 20.6 - - - +
49Q ASP* 1.3 75.0 - - - +
51Q ALA* 1.3 55.5 + - - +
53Q GLY* 2.8 24.3 + - - -
54Q ARG 3.6 19.5 - - - +
56Q VAL* 4.0 24.5 - - + -
83Q PHE* 4.3 2.0 - - + -
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Residues in contact with ALA 51 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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47Q GLN 3.1 13.4 + - - +
48Q HIS* 3.4 13.2 - - - +
49Q ASP 3.2 0.2 - - - -
50Q VAL* 1.3 76.4 - - - +
52Q GLN* 1.3 60.0 + - + +
53Q GLY 3.3 1.2 + - - -
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Residues in contact with GLN 52 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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48Q HIS* 3.3 34.3 + - + +
49Q ASP* 3.0 27.5 + - - +
51Q ALA* 1.3 78.9 - - + +
53Q GLY* 1.3 59.1 + - - +
54Q ARG* 3.4 3.8 + - + +
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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