Contacts of the helix formed by residues 34 - 52 (chain C) 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 C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2C THR* 5.6 7.9 + - - +
30C ILE* 3.2 30.8 + - + +
31C GLY* 3.0 7.4 + - - +
32C ILE 3.6 0.4 - - - -
33C ASP* 1.3 73.5 - - - +
35C ALA* 1.3 64.0 + - - +
36C GLU* 3.7 9.4 + - - +
37C ALA* 3.2 30.9 + - + +
38C ALA 3.3 12.6 + - - -
152C VAL* 3.3 15.0 - - + +
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Residues in contact with ALA 35 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33C ASP 3.4 7.8 + - - +
34C ASN* 1.3 74.0 - - - +
36C GLU* 1.3 62.9 + - - +
38C ALA* 3.2 3.3 + - - +
39C TYR* 3.0 36.2 + - + -
151C PHE* 4.0 29.2 - - + -
152C VAL* 4.2 4.0 - - - +
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Residues in contact with GLU 36 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34C ASN* 3.3 7.8 + - - +
35C ALA* 1.3 79.7 - - - +
37C ALA* 1.3 57.2 + - - +
39C TYR* 3.5 6.4 + - - +
40C ALA* 3.0 27.9 + - + +
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Residues in contact with ALA 37 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
2C THR* 5.7 2.5 - - - +
6C LEU* 4.1 23.5 - - + +
30C ILE* 4.4 11.0 - - + -
34C ASN* 3.2 34.0 + - + +
35C ALA 3.2 0.2 - - - -
36C GLU* 1.3 76.2 - - - +
38C ALA* 1.3 66.9 + - - +
40C ALA* 3.1 9.5 + - - +
41C ILE* 2.9 28.7 + - - +
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Residues in contact with ALA 38 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30C ILE* 4.5 6.3 - - + +
34C ASN 3.3 2.4 + - - -
35C ALA* 3.2 10.2 + - - +
37C ALA* 1.3 76.9 - - - +
39C TYR* 1.3 62.7 + - - +
41C ILE* 3.3 2.4 + - - -
42C GLN 3.1 17.5 + - - -
152C VAL* 3.4 42.6 - - + +
155C VAL* 3.7 18.5 - - + +
156C ALA* 3.4 20.2 + - + +
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Residues in contact with TYR 39 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35C ALA* 3.0 30.5 + - + +
36C GLU* 3.9 6.3 - - - +
38C ALA* 1.3 77.1 - - - +
40C ALA* 1.3 57.6 + - - +
42C GLN* 3.4 10.8 + - - +
43C HIS* 2.9 29.5 + - - +
77C PRO 4.3 4.2 + - - -
78C ASP* 3.8 11.1 + - - -
79C PHE* 3.2 72.2 + + - -
151C PHE* 4.4 15.8 - + - -
155C VAL* 3.4 24.6 - - + +
210C TRP* 4.4 4.5 - - - -
214C LYS* 4.3 19.4 + - - -
218C LEU* 5.9 2.9 - - + -
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Residues in contact with ALA 40 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6C LEU* 4.1 19.5 - - + -
36C GLU* 3.0 15.9 + - + +
37C ALA* 3.1 10.5 + - - +
39C TYR* 1.3 75.1 - - - +
41C ILE* 1.3 58.6 + - - +
43C HIS* 3.3 8.3 + - - +
44C ILE* 2.8 38.7 + - + +
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Residues in contact with ILE 41 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6C LEU* 4.0 23.1 - - + +
9C LEU* 3.9 31.4 - - + -
10C ALA* 3.8 17.0 - - - +
13C LEU* 3.8 18.6 - - + -
26C LEU* 5.0 1.6 - - + -
30C ILE* 4.2 17.5 - - + -
37C ALA 2.9 18.0 + - - +
38C ALA 3.6 6.5 - - - +
40C ALA* 1.3 72.4 - - - +
42C GLN* 1.3 66.4 + - - +
44C ILE* 3.3 10.2 + - - +
45C ASN* 3.2 22.4 + - - +
156C ALA* 3.8 27.6 - - + +
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Residues in contact with GLN 42 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38C ALA 3.1 7.7 + - - +
39C TYR* 3.6 18.7 - - - +
41C ILE* 1.3 76.4 - - - +
43C HIS* 1.3 56.9 + - - +
45C ASN* 3.3 7.0 + - - +
46C VAL* 2.9 30.6 + - + +
79C PHE* 3.0 41.1 + - - -
81C THR* 3.1 23.2 + - - -
155C VAL 3.1 26.9 + - - +
156C ALA 3.8 8.0 + - - +
158C ASN* 3.2 33.5 + - + +
159C ALA 4.0 0.4 - - - +
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Residues in contact with HIS 43 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39C TYR 2.9 18.2 + - - +
40C ALA* 3.5 9.0 - - - +
41C ILE 3.2 0.2 - - - -
42C GLN* 1.3 74.2 - - - +
44C ILE* 1.3 71.4 + - + +
46C VAL* 3.2 9.6 + - - +
47C GLN* 2.8 57.6 + - + +
220C GLU* 4.2 27.4 + - - -
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Residues in contact with ILE 44 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3C LYS* 4.8 10.1 - - - -
6C LEU* 4.9 11.4 - - + +
7C GLU* 3.6 40.8 - - + +
10C ALA* 3.9 19.5 - - + -
14C ARG* 4.5 8.1 - - - +
40C ALA* 2.8 37.9 + - + +
41C ILE* 3.5 10.1 - - - +
43C HIS* 1.3 78.0 - - + +
45C ASN* 1.3 58.5 + - - +
47C GLN* 3.3 6.4 + - - +
48C HIS* 2.9 28.2 + - + +
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Residues in contact with ASN 45 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10C ALA* 3.3 27.9 + - - +
13C LEU* 3.8 19.8 - - - +
14C ARG* 2.8 42.0 + - + +
41C ILE* 3.2 9.9 + - - +
42C GLN* 3.7 8.1 - - - +
44C ILE* 1.3 76.5 - - - +
46C VAL* 1.3 65.7 + - - +
48C HIS* 3.5 3.8 + - - +
49C ASP* 3.2 31.4 + - - +
156C ALA 4.8 3.4 + - - -
158C ASN* 6.5 0.4 - - + -
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Residues in contact with VAL 46 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42C GLN* 2.9 30.0 + - + +
43C HIS* 3.7 9.0 - - - +
45C ASN* 1.3 75.5 - - + +
47C GLN* 1.3 66.1 + - - +
49C ASP* 3.2 3.6 + - - +
50C VAL* 2.9 39.2 + - + +
56C VAL* 4.4 4.7 - - + -
59C ARG* 5.3 3.1 - - - +
81C THR* 3.6 40.2 - - + +
83C PHE* 4.1 21.9 - - + -
158C ASN* 4.6 3.8 - - - +
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Residues in contact with GLN 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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43C HIS* 2.8 48.6 + - + +
44C ILE* 3.5 7.2 - - - +
46C VAL* 1.3 82.9 - - - +
48C HIS* 1.3 61.5 + - - +
50C VAL* 3.4 19.4 + - - +
51C ALA* 3.1 23.2 + - - +
220C GLU* 5.4 1.0 - - - +
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Residues in contact with HIS 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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14C ARG* 3.7 44.6 + - - +
44C ILE* 2.9 17.7 + - + +
45C ASN* 3.7 9.6 - - - +
46C VAL 3.2 0.2 - - - -
47C GLN* 1.3 76.7 - - - +
49C ASP* 1.3 74.2 + - - +
51C ALA* 3.3 15.7 + - - +
52C GLN* 3.3 38.5 + - + +
1263C K 4.2 5.1 - - - -
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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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14C ARG* 4.8 3.6 - - - -
45C ASN 3.2 17.3 + - - +
46C VAL 3.7 3.8 - - - +
48C HIS* 1.3 89.2 - - - +
50C VAL* 1.3 64.2 + - - +
52C GLN* 3.0 24.0 + - - +
53C GLY 3.4 0.2 + - - -
54C ARG* 3.0 60.4 + - + +
83C PHE* 4.1 8.4 - - + -
1263C K 4.2 3.3 - - - -
1310C NA 3.5 13.8 - - - -
4M HIS* 3.7 12.9 - - - -
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Residues in contact with VAL 50 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46C VAL* 2.9 25.5 + - + +
47C GLN* 3.8 20.9 - - - +
48C HIS 3.4 0.2 - - - -
49C ASP* 1.3 75.1 - - - +
51C ALA* 1.3 55.6 + - - +
53C GLY* 2.8 24.4 + - - -
54C ARG 3.6 19.5 - - - +
56C VAL* 4.0 24.9 - - + +
83C PHE* 4.3 2.5 - - + -
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Residues in contact with ALA 51 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47C GLN 3.1 13.6 + - - +
48C HIS* 3.4 13.0 - - - +
50C VAL* 1.3 77.1 - - - +
52C GLN* 1.3 58.8 + - + +
53C GLY 3.3 1.4 + - - -
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Residues in contact with GLN 52 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48C HIS* 3.3 32.9 + - + +
49C ASP* 3.0 21.2 + - - +
51C ALA* 1.3 77.8 - - + +
53C GLY* 1.3 60.4 + - - +
54C ARG* 3.4 2.8 + - + +
1263C K 3.7 18.2 - - - -
3M LYS* 2.9 31.9 + - - +
4M HIS* 4.4 9.7 + - - +
7M GLU* 3.5 42.5 - - + +
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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) + - + + + + + -
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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