Contacts of the helix formed by residues 150 - 157 (chain H) 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 GLN 150 (chain H).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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27H ARG* 3.4 33.7 - - + +
32H ILE* 4.0 24.5 - - + +
71H GLN 4.4 13.0 + - - +
72H LEU* 3.8 27.6 - - - +
149H ILE* 1.3 86.0 + - - +
151H PHE* 1.3 67.7 + - - +
152H VAL* 3.2 4.3 - - + +
153H ASP* 2.9 26.3 + - - +
154H THR* 3.1 15.9 + - - -
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Residues in contact with PHE 151 (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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32H ILE 5.4 4.5 - - - +
33H ASP* 6.2 1.8 - - - -
35H ALA* 4.0 26.9 - - + -
39H TYR* 4.4 12.3 - + - -
63H LEU* 3.5 25.8 - - + -
72H LEU* 3.9 27.9 + - + +
74H VAL* 3.8 31.6 - - + -
76H GLN* 4.6 5.8 - - + -
77H PRO 3.8 23.1 - - - -
78H ASP* 4.0 2.0 - - - -
150H GLN* 1.3 74.3 - - - +
152H VAL* 1.3 73.2 + - + +
154H THR* 3.3 6.9 + - - -
155H VAL* 3.1 51.3 + - + +
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Residues in contact with VAL 152 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27H ARG* 3.8 24.5 - - + +
30H ILE* 3.5 28.7 - - + +
31H GLY 3.9 7.6 - - - +
32H ILE 3.8 20.6 + - - +
33H ASP 4.7 0.2 - - - -
34H ASN 3.3 35.4 - - - +
35H ALA* 4.2 3.4 - - - +
38H ALA* 3.4 20.2 - - + +
150H GLN* 3.2 2.1 - - + +
151H PHE* 1.3 83.8 - - + +
153H ASP* 1.3 63.8 + - - +
156H ALA* 3.3 22.0 + - - +
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Residues in contact with ASP 153 (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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25H PRO* 3.8 6.2 - - - +
26H LEU* 2.8 33.9 + - - +
27H ARG* 2.9 44.9 + - - +
144H ILE* 3.6 15.7 - - + +
148H SER 4.7 0.4 - - - -
149H ILE* 3.6 15.3 - - + -
150H GLN* 2.9 20.1 + - - +
152H VAL* 1.3 75.4 - - - +
154H THR* 1.3 63.2 + - - +
156H ALA* 3.7 3.6 + - - +
157H ASP* 3.1 23.7 + - - +
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Residues in contact with THR 154 (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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63H LEU* 5.1 6.2 - - + +
72H LEU* 4.7 4.2 - - - +
78H ASP* 4.2 12.8 - - - +
147H TRP* 5.6 1.1 - - + -
149H ILE* 3.8 20.7 - - + +
150H GLN 3.1 14.7 + - - -
151H PHE* 3.4 6.9 + - - -
153H ASP* 1.3 73.5 - - - +
155H VAL* 1.3 62.9 + - - +
157H ASP* 2.9 14.7 + - - +
159H ALA* 2.8 40.2 + - - +
160H SER* 2.5 34.1 - - - +
1263H PO4 4.9 4.9 - - - +
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Residues in contact with VAL 155 (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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38H ALA* 3.7 8.5 - - + -
39H TYR* 3.4 56.8 - - + +
42H GLN* 3.2 19.8 + - - +
78H ASP* 3.2 24.7 - - - +
79H PHE 5.0 0.2 - - - +
151H PHE* 3.1 42.6 + - + +
154H THR* 1.3 77.9 - - - +
156H ALA* 1.3 64.5 + - - +
158H ASN 3.0 11.6 + - - -
159H ALA* 4.0 6.1 - - - +
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Residues in contact with ALA 156 (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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13H LEU* 3.6 10.9 - - - +
26H LEU* 4.1 18.4 - - + -
30H ILE* 5.0 1.6 - - + -
38H ALA* 3.4 20.1 + - - +
41H ILE* 3.9 24.4 - - + +
42H GLN* 3.9 14.1 - - - +
45H ASN* 4.8 4.0 + - - +
152H VAL 3.3 17.4 + - - +
153H ASP 3.8 4.3 - - - +
154H THR 3.3 0.2 - - - -
155H VAL* 1.3 79.7 - - - +
157H ASP* 1.3 57.0 + - - +
158H ASN 3.0 6.1 + - - -
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Residues in contact with ASP 157 (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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13H LEU* 4.0 14.9 - - + +
141H GLY 4.3 1.0 - - - +
142H SER* 3.7 9.2 + - - -
143H ARG* 2.7 78.8 + - - +
144H ILE* 4.1 8.9 + - + +
149H ILE* 5.8 0.4 - - + -
153H ASP 3.1 16.7 + - - +
154H THR* 2.9 11.1 + - - +
156H ALA* 1.3 73.2 - - - +
158H ASN* 1.3 65.3 + - - +
160H SER* 3.1 7.6 + - - +
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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