Contacts of the helix formed by residues 161 - 180 (chain B) in PDB entry 3LAW
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 161 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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127B ILE* 4.6 2.0 - - - +
152B PHE* 4.7 8.5 - - + -
153B GLU* 2.7 31.8 + - - +
154B THR* 3.8 6.5 - - + +
159B ALA 3.4 3.0 + - - -
160B ILE* 1.3 82.8 - - - +
162B VAL* 1.3 62.4 + - - +
163B GLU 3.5 1.6 - - - -
164B GLN* 3.3 38.8 + - + +
165B ALA* 3.1 23.7 + - - +
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Residues in contact with VAL 162 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24B LEU* 4.1 24.2 - - + +
27B GLN* 3.9 26.0 - - + -
28B TYR* 4.0 28.7 - - + +
154B THR* 4.6 4.7 - - - -
155B SER 3.5 25.6 - - - +
159B ALA* 3.8 9.2 + - + +
160B ILE 2.8 11.6 + - - +
161B ASN* 1.3 72.7 - - - +
163B GLU* 1.3 67.0 + - - +
165B ALA* 3.7 1.5 - - - +
166B PHE* 3.0 34.0 + - + +
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Residues in contact with GLU 163 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28B TYR* 3.5 29.7 + - - -
31B LYS* 3.8 19.9 + - - -
48B LYS* 4.1 6.6 + - - -
50B VAL* 4.6 4.5 - - - +
159B ALA 5.1 1.0 + - - -
162B VAL* 1.3 79.4 - - - +
164B GLN* 1.3 64.2 + - - +
166B PHE* 3.2 2.4 + - - +
167B GLN* 3.0 52.4 + - + +
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Residues in contact with GLN 164 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
152B PHE* 3.8 23.4 - - + -
161B ASN* 3.3 34.4 + - - +
162B VAL 3.3 0.2 - - - -
163B GLU* 1.3 77.2 - - - +
165B ALA* 1.3 64.0 + - - +
167B GLN* 3.0 20.0 + - - +
168B THR* 3.3 12.7 + - - +
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Residues in contact with ALA 165 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
123B LEU* 3.7 33.2 - - + -
152B PHE* 3.7 25.4 - - + -
154B THR* 4.4 2.9 - - + -
161B ASN 3.1 19.1 + - - +
162B VAL* 3.7 4.0 - - - +
164B GLN* 1.3 78.2 - - - +
166B PHE* 1.3 53.8 + - + +
168B THR* 3.2 6.2 + - - -
169B ILE* 2.7 37.2 + - + +
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Residues in contact with PHE 166 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11B VAL* 4.8 5.4 - - + -
13B ILE* 4.2 24.7 - - + -
24B LEU* 4.3 14.4 - - + -
25B MET* 4.9 2.0 - - - -
28B TYR* 3.3 62.0 + + + -
59B MET* 3.9 14.6 - - + +
61B ILE* 4.0 21.1 - - + -
85B VAL* 5.0 3.6 - - + -
123B LEU* 4.8 17.3 - - + -
162B VAL* 3.0 27.0 + - + +
163B GLU 3.7 0.9 - - - +
164B GLN 3.1 0.4 - - - -
165B ALA* 1.3 79.0 - - + +
167B GLN* 1.3 60.1 + - - +
169B ILE* 3.2 25.3 - - + +
170B ALA* 3.1 26.3 + - - +
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Residues in contact with GLN 167 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28B TYR* 3.6 8.0 + - - -
50B VAL* 3.3 19.9 - - - +
51B MET 3.7 21.0 + - - -
52B VAL* 4.6 8.7 - - - +
163B GLU* 3.0 46.7 + - + +
164B GLN* 3.0 10.8 + - - +
166B PHE* 1.3 75.8 - - - +
168B THR* 1.3 59.8 + - - +
170B ALA* 3.3 4.9 + - - +
171B ARG* 2.9 43.2 + - - +
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Residues in contact with THR 168 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121B VAL* 5.0 1.6 - - + -
150B PRO* 4.1 17.9 - - + -
152B PHE* 3.0 32.2 - - + -
164B GLN* 3.3 5.2 + - - +
165B ALA 3.2 7.5 + - - -
167B GLN* 1.3 72.8 - - - +
169B ILE* 1.3 61.0 - - - +
171B ARG* 3.1 16.1 + - + +
172B ASN* 2.8 50.0 + - - +
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Residues in contact with ILE 169 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11B VAL* 4.0 15.3 - - + -
59B MET* 4.6 2.7 - - - -
83B CYS* 3.5 26.3 - - + +
85B VAL* 3.8 25.1 - - + -
121B VAL* 3.5 38.8 - - + +
123B LEU* 4.7 9.4 - - + -
165B ALA* 2.7 29.7 + - + +
166B PHE* 3.2 25.6 - - + +
168B THR* 1.3 69.2 - - - +
170B ALA* 1.3 68.2 + - - +
171B ARG 3.1 0.2 + - - -
172B ASN* 4.2 0.2 - - - +
173B ALA* 2.9 28.3 + - - +
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Residues in contact with ALA 170 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9B LEU* 3.5 10.1 - - - +
50B VAL* 4.2 6.1 - - + -
52B VAL* 3.8 26.4 - - + +
57B VAL* 5.1 0.7 - - + -
59B MET* 4.0 25.8 - - + -
166B PHE 3.1 16.1 + - - +
167B GLN* 3.3 8.5 + - - +
169B ILE* 1.3 79.4 - - - +
171B ARG* 1.3 57.6 + - - +
173B ALA* 4.5 2.2 - - - -
174B LEU* 3.1 26.5 + - - +
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Residues in contact with ARG 171 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52B VAL* 3.8 15.1 - - + +
53B ASP* 2.7 46.8 + - - +
167B GLN* 2.9 34.5 + - - +
168B THR* 3.6 18.2 + - - +
169B ILE 3.0 0.4 - - - -
170B ALA* 1.3 75.4 - - - +
172B ASN* 1.3 73.4 + - - +
174B LEU* 3.1 12.7 + - - +
175B LYS* 3.2 13.9 + - + +
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Residues in contact with ASN 172 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83B CYS* 5.3 2.2 - - - -
119B PRO* 3.8 24.6 - - + +
120B PHE 5.2 0.4 + - - -
121B VAL* 5.0 3.2 - - + +
150B PRO* 3.8 29.1 - - - +
168B THR* 2.8 30.5 + - - +
169B ILE* 4.2 2.5 - - - +
171B ARG* 1.3 80.5 - - - +
173B ALA* 1.3 65.8 + - - +
174B LEU 3.1 0.4 + - - -
175B LYS* 3.3 14.6 - - - +
176B GLN* 3.1 22.0 + - - +
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Residues in contact with ALA 173 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9B LEU* 4.0 13.2 - - + +
11B VAL* 4.6 6.5 - - + -
82B ASP* 3.3 34.5 - - + +
83B CYS* 3.6 19.7 - - + -
119B PRO* 4.4 1.2 - - - +
169B ILE 2.9 20.2 + - - +
170B ALA* 3.7 4.5 - - - +
172B ASN* 1.3 79.3 - - - +
174B LEU* 1.3 55.3 + - - +
176B GLN* 3.8 0.4 - - - +
177B GLU* 3.2 21.8 + - - +
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Residues in contact with LEU 174 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7B VAL* 3.8 19.1 - - + -
9B LEU* 3.8 23.3 - - + -
52B VAL* 4.4 19.1 - - + +
53B ASP* 6.1 1.6 - - + -
55B ARG* 4.3 34.8 - - + +
57B VAL* 4.1 19.7 - - + -
170B ALA 3.1 12.7 + - - +
171B ARG* 3.4 10.5 - - - +
172B ASN 3.1 0.6 - - - -
173B ALA* 1.3 76.7 - - - +
175B LYS* 1.3 67.7 + - - +
177B GLU* 3.1 19.3 - - + +
178B THR* 3.3 8.8 + - - +
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Residues in contact with LYS 175 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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171B ARG* 3.2 10.1 + - + +
172B ASN* 3.3 15.9 - - + +
174B LEU* 1.3 76.4 - - - +
176B GLN* 1.3 55.6 + - - +
178B THR* 2.7 39.8 + - - -
179B GLU* 3.3 26.4 + - - +
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Residues in contact with GLN 176 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
81B ALA 4.9 1.1 - - - +
82B ASP* 3.6 32.1 - - - +
112B PRO* 5.1 3.2 - - - +
113B ARG* 4.4 15.5 + - - +
114B ASP 5.5 0.3 - - - +
117B ASN* 4.6 3.3 - - - +
118B PHE* 4.0 25.1 + - + -
119B PRO* 3.4 28.3 - - + +
172B ASN 3.1 5.0 + - - +
173B ALA 3.8 1.3 - - - +
175B LYS* 1.3 77.0 - - - +
177B GLU* 1.3 66.6 + - - +
179B GLU* 2.9 29.1 + - - +
180B VAL* 3.0 36.7 + - + +
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Residues in contact with GLU 177 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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131A ASN* 2.9 40.5 - - - +
133A GLN* 5.3 5.0 + - - +
7B VAL* 4.4 1.5 - - + +
8B LEU 4.1 2.4 - - - +
9B LEU* 3.7 17.5 - - + -
82B ASP* 3.3 23.8 + - - +
173B ALA 3.2 8.5 + - - +
174B LEU* 3.1 17.9 - - + +
175B LYS 3.2 0.2 - - - -
176B GLN* 1.3 79.2 - - - +
178B THR* 1.3 66.0 + - - +
180B VAL* 3.1 28.9 + - - +
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Residues in contact with THR 178 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55B ARG* 5.3 6.2 + - - -
174B LEU* 3.5 8.3 + - - +
175B LYS* 2.7 23.4 + - - -
177B GLU* 1.3 73.1 - - - +
179B GLU* 1.3 65.5 + - - +
180B VAL 2.8 20.8 - - - +
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Residues in contact with GLU 179 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
113B ARG* 2.5 28.0 + - - +
114B ASP* 6.0 1.8 - - - +
175B LYS* 3.4 33.1 - - - +
176B GLN* 2.9 26.7 + - - +
178B THR* 1.3 87.6 - - - +
180B VAL* 1.3 55.8 + - - +
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Residues in contact with VAL 180 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
133A GLN* 4.6 16.2 - - - +
82B ASP* 5.9 1.3 - - - +
113B ARG* 3.6 20.6 - - + +
176B GLN* 3.0 38.5 + - + +
177B GLU* 3.1 23.9 + - - +
178B THR 2.8 16.6 - - - +
179B GLU* 1.3 76.3 - - - +
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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) + - + + + + + -
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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