Contacts of the helix formed by residues 150 - 157 (chain K) 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 K).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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27K ARG* 3.4 33.7 - - + +
32K ILE* 4.0 27.1 - - + +
71K GLN 4.3 13.0 + - - +
72K LEU* 3.8 27.8 - - - +
149K ILE* 1.3 86.2 + - - +
151K PHE* 1.3 69.6 + - - +
152K VAL* 3.2 3.6 - - + +
153K ASP* 2.9 25.6 + - - +
154K THR* 3.1 15.2 + - - -
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Residues in contact with PHE 151 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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32K ILE 5.4 4.5 - - - +
33K ASP* 6.2 2.0 - - + -
35K ALA* 3.9 27.8 - - + -
39K TYR* 4.4 12.3 - + - -
63K LEU* 3.5 25.8 - - + -
72K LEU* 3.9 28.8 + - + +
74K VAL* 3.8 32.5 - - + -
76K GLN* 4.7 5.6 - - + -
77K PRO 3.9 22.4 - - - -
78K ASP* 4.0 2.2 - - - -
150K GLN* 1.3 75.3 - - - +
152K VAL* 1.3 73.6 + - + +
154K THR* 3.3 6.2 + - - -
155K VAL* 3.1 49.1 + - + +
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Residues in contact with VAL 152 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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27K ARG* 3.9 24.2 - - + +
30K ILE* 3.5 27.7 - - + +
31K GLY 3.9 4.9 - - - +
32K ILE 3.7 20.6 + - - +
33K ASP 4.6 0.4 - - - -
34K ASN 3.3 37.7 - - - +
35K ALA* 4.2 3.8 - - - +
38K ALA* 3.4 19.2 - - + +
150K GLN* 3.2 2.3 - - + +
151K PHE* 1.3 84.3 - - + +
153K ASP* 1.3 63.2 - - - +
156K ALA* 3.3 21.5 + - - +
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Residues in contact with ASP 153 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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25K PRO* 3.8 5.0 - - - +
26K LEU* 2.8 35.4 + - - +
27K ARG* 2.9 43.3 + - - +
144K ILE* 3.7 18.1 - - + +
148K SER 4.7 0.2 - - - -
149K ILE* 3.6 16.6 - - + -
150K GLN* 2.9 19.7 + - - +
152K VAL* 1.3 75.4 - - - +
154K THR* 1.3 65.0 + - - +
156K ALA* 3.6 3.8 + - - +
157K ASP* 3.1 23.7 + - - +
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Residues in contact with THR 154 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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63K LEU* 5.0 6.0 - - + +
72K LEU* 4.7 4.5 - - - +
78K ASP* 4.2 13.2 - - - +
147K TRP* 5.7 0.7 - - + -
149K ILE* 3.8 20.5 - - + +
150K GLN 3.1 15.5 + - - -
151K PHE* 3.4 6.2 + - - -
153K ASP* 1.3 74.1 - - - +
155K VAL* 1.3 60.4 - - - +
157K ASP* 2.9 13.7 + - - -
159K ALA* 2.7 34.6 + - - +
160K SER* 2.5 41.5 + - - +
1264K PO4 4.4 8.5 - - - +
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Residues in contact with VAL 155 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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38K ALA* 3.7 8.7 - - + -
39K TYR* 3.4 56.3 - - + +
42K GLN* 3.2 20.9 + - - +
78K ASP* 3.1 26.0 - - - +
151K PHE* 3.1 42.7 + - + +
154K THR* 1.3 77.2 - - - +
156K ALA* 1.3 64.4 + - - +
158K ASN 3.0 11.6 + - - -
159K ALA* 4.0 4.5 - - - +
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Residues in contact with ALA 156 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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13K LEU* 3.6 12.0 - - - +
26K LEU* 4.0 18.8 - - + -
30K ILE* 5.0 1.6 - - + -
38K ALA* 3.4 20.4 + - - +
41K ILE* 3.9 25.0 - - + +
42K GLN* 3.8 12.6 - - - -
45K ASN* 4.8 4.2 + - - -
152K VAL 3.3 16.1 + - - +
153K ASP 3.8 3.6 - - - +
154K THR 3.3 0.2 - - - -
155K VAL* 1.3 78.3 - - - +
157K ASP* 1.3 57.8 + - - +
158K ASN 3.0 5.2 + - - -
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Residues in contact with ASP 157 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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13K LEU* 4.0 16.1 - - + +
141K GLY 4.2 0.9 - - - +
142K SER* 3.7 9.4 + - - -
143K ARG* 2.7 78.8 + - - +
144K ILE* 4.0 9.3 + - + +
149K ILE* 5.3 0.6 - - + +
153K ASP 3.1 16.7 + - - +
154K THR* 2.9 10.3 + - - +
156K ALA* 1.3 72.4 - - - +
158K ASN* 1.3 66.6 + - - +
160K SER* 3.1 6.8 + - - +
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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
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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