Contacts of the helix formed by residues 161 - 180 (chain C) 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 C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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127C ILE* 4.5 2.0 - - - +
152C PHE* 4.9 9.2 - - + -
153C GLU* 2.7 30.4 + - - +
154C THR* 3.9 5.9 - - + +
159C ALA 4.2 0.8 + - - -
160C ILE* 1.3 84.1 - - - +
162C VAL* 1.3 55.6 + - - +
163C GLU 3.6 1.3 - - - +
164C GLN* 3.5 36.8 + - + +
165C ALA* 2.8 34.6 + - - +
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Residues in contact with VAL 162 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24C LEU* 4.0 25.6 - - + +
27C GLN* 4.0 20.4 - - + -
28C TYR* 3.9 30.3 - - + +
154C THR* 4.6 2.5 - - - -
155C SER 3.6 18.2 - - - +
159C ALA* 4.0 10.9 + - + -
160C ILE 2.7 22.0 + - - +
161C ASN* 1.3 70.3 - - - +
163C GLU* 1.3 62.2 + - - +
165C ALA* 3.4 3.2 + - - +
166C PHE* 3.0 41.1 + - + -
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Residues in contact with GLU 163 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28C TYR* 3.4 33.1 + - - +
48C LYS* 4.0 9.6 + - - -
50C VAL* 5.1 2.8 - - - +
162C VAL* 1.3 76.3 - - - +
164C GLN* 1.3 68.9 + - - +
166C PHE 3.5 0.9 + - - -
167C GLN* 3.1 48.4 + - + +
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Residues in contact with GLN 164 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
152C PHE* 3.8 24.4 - - + -
161C ASN* 3.5 34.3 + - + +
163C GLU* 1.3 77.5 - - - +
165C ALA* 1.3 65.0 + - - +
167C GLN* 2.9 25.0 + - + +
168C THR* 3.5 6.2 + - - -
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Residues in contact with ALA 165 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
123C LEU* 3.9 24.2 - - + -
152C PHE* 3.9 32.0 - - + -
154C THR* 4.2 4.9 - - + -
161C ASN 2.8 25.0 + - - +
162C VAL* 3.7 4.7 - - - +
164C GLN* 1.3 73.4 - - - +
166C PHE* 1.3 60.9 + - + +
168C THR* 3.4 6.6 + - - -
169C ILE* 3.1 27.4 + - - +
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Residues in contact with PHE 166 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11C VAL* 5.2 0.7 - - + -
13C ILE* 4.2 26.0 - - + -
24C LEU* 4.1 18.8 - - + -
25C MET* 5.1 2.5 - - - -
28C TYR* 3.4 66.4 + + + -
59C MET* 3.9 12.7 - - + +
61C ILE* 4.6 12.6 - - + -
85C VAL* 5.0 4.0 - - + -
123C LEU* 4.8 17.0 - - + -
162C VAL* 3.0 29.0 + - + +
163C GLU 4.2 0.2 - - - +
165C ALA* 1.3 78.4 - - + +
167C GLN* 1.3 65.9 + - - +
169C ILE* 3.5 23.6 - - + +
170C ALA* 2.9 25.1 + - - +
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Residues in contact with GLN 167 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28C TYR* 4.5 1.6 + - - -
50C VAL* 3.5 24.3 - - - +
51C MET 3.7 18.6 + - - +
52C VAL* 4.0 18.6 - - - +
163C GLU* 3.1 36.7 + - + +
164C GLN* 2.9 11.5 + - - +
166C PHE* 1.3 75.6 - - - +
168C THR* 1.3 57.8 + - - +
170C ALA* 3.2 4.1 + - - +
171C ARG* 2.9 43.8 + - - +
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Residues in contact with THR 168 (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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121C VAL* 4.1 4.7 - - + -
150C PRO* 3.8 13.9 - - + -
152C PHE* 3.3 34.1 - - + -
164C GLN 3.5 2.4 + - - -
165C ALA 3.4 8.8 + - - -
166C PHE 3.3 0.2 - - - -
167C GLN* 1.3 75.7 - - - +
169C ILE* 1.3 67.0 + - - +
170C ALA 3.1 0.2 + - - -
171C ARG* 3.2 15.0 + - - +
172C ASN* 2.8 45.8 + - - +
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Residues in contact with ILE 169 (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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11C VAL* 3.6 34.1 - - + -
59C MET* 4.6 1.3 - - - -
83C CYS* 3.9 15.8 - - + -
85C VAL* 3.6 24.9 - - + -
121C VAL* 3.4 37.7 - - + -
123C LEU* 5.0 3.6 - - + -
165C ALA 3.1 18.6 + - - +
166C PHE* 3.3 27.8 + - + +
168C THR* 1.3 74.9 - - - +
170C ALA* 1.3 57.9 + - - +
172C ASN* 3.7 0.9 - - - +
173C ALA* 2.8 31.9 + - - +
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Residues in contact with ALA 170 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9C LEU* 3.7 4.4 - - - +
50C VAL* 4.4 8.7 - - + -
52C VAL* 3.8 21.5 - - + +
57C VAL* 5.1 1.6 - - + -
59C MET* 3.9 26.5 - - + -
166C PHE 2.9 16.5 + - - +
167C GLN* 3.6 5.6 - - - +
168C THR 3.1 0.2 - - - -
169C ILE* 1.3 77.1 - - - +
171C ARG* 1.3 54.8 + - - +
173C ALA* 3.4 7.4 + - - +
174C LEU* 2.8 33.8 + - - +
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Residues in contact with ARG 171 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52C VAL* 3.8 21.9 - - + +
53C ASP* 3.1 38.4 + - - +
167C GLN* 2.9 29.4 + - - +
168C THR* 3.6 14.8 + - - +
170C ALA* 1.3 76.7 - - - +
172C ASN* 1.3 64.7 + - - +
174C LEU* 2.9 8.6 + - - +
175C LYS* 2.7 48.7 + - + +
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Residues in contact with ASN 172 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83C CYS* 4.8 3.6 - - - -
119C PRO* 3.6 26.7 - - + +
120C PHE 5.2 0.2 + - - -
121C VAL* 4.5 4.1 - - + +
150C PRO* 3.6 32.1 - - - +
168C THR* 2.8 31.9 + - - +
169C ILE* 3.9 2.7 - - - +
171C ARG* 1.3 82.6 - - - +
173C ALA* 1.3 65.7 + - - +
175C LYS* 3.4 10.8 + - - +
176C GLN* 3.1 22.9 + - - +
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Residues in contact with ALA 173 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9C LEU* 4.0 13.5 - - + -
11C VAL* 4.2 13.0 - - + -
82C ASP* 3.8 26.1 - - + +
83C CYS* 3.7 17.8 - - + +
169C ILE 2.8 18.4 + - - +
170C ALA* 3.6 5.2 - - - +
172C ASN* 1.3 76.6 - - - +
174C LEU* 1.3 56.4 + - - +
176C GLN* 3.1 3.8 + - - +
177C GLU* 2.9 29.1 + - - +
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Residues in contact with LEU 174 (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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7C VAL* 3.9 36.6 - - + -
9C LEU* 3.8 15.9 - - + +
52C VAL* 4.5 12.3 - - + +
53C ASP* 5.5 5.4 - - + +
55C ARG* 4.0 39.5 - - + +
57C VAL* 4.5 9.0 - - + -
170C ALA 2.8 14.7 + - - +
171C ARG* 2.9 10.1 + - - +
173C ALA* 1.3 73.3 - - - +
175C LYS* 1.3 58.6 + - - +
177C GLU* 4.7 2.5 - - - +
178C THR* 2.6 42.7 + - - +
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Residues in contact with LYS 175 (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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53C ASP* 6.1 1.1 - - - -
171C ARG* 2.7 34.2 + - + +
172C ASN* 3.5 14.6 - - - +
174C LEU* 1.3 71.9 - - - +
176C GLN* 1.3 56.2 + - - +
178C THR* 3.1 12.9 - - + -
179C GLU* 3.1 38.2 + - + +
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Residues in contact with GLN 176 (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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81C ALA 5.0 1.8 + - - -
82C ASP* 3.3 32.9 + - + +
112C PRO* 5.1 3.2 - - - +
113C ARG 5.1 8.4 + - - +
114C ASP 5.6 0.2 - - - +
117C ASN* 4.2 13.7 - - - +
118C PHE* 3.7 26.4 - - - -
119C PRO* 3.9 13.4 - - + +
172C ASN 3.1 9.5 + - - +
173C ALA 3.4 7.2 - - - +
175C LYS* 1.3 75.2 - - - +
177C GLU* 1.3 67.6 + - - +
178C THR 3.0 1.3 - - - -
179C GLU* 2.8 31.6 + - - +
180C VAL* 3.4 11.2 + - - +
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Residues in contact with GLU 177 (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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7C VAL* 3.6 18.0 - - + +
8C LEU 4.7 1.1 - - - +
9C LEU* 3.6 31.0 - - + -
82C ASP* 3.7 17.3 - - - +
173C ALA 2.9 9.7 + - - +
174C LEU* 3.8 5.8 - - + +
176C GLN* 1.3 75.9 - - - +
178C THR* 1.3 68.8 + - - +
180C VAL* 3.1 32.3 + - + +
131E ASN* 3.6 30.3 - - + +
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Residues in contact with THR 178 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55C ARG* 4.6 13.6 + - - +
174C LEU* 2.6 28.6 + - - +
175C LYS* 3.1 15.8 - - + -
176C GLN 3.0 0.6 - - - -
177C GLU* 1.3 82.4 + - - +
179C GLU* 1.3 64.1 + - - +
180C VAL 3.2 12.0 + - - +
181C GLU* 3.6 5.7 + - - -
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Residues in contact with GLU 179 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
113C ARG* 5.3 2.9 + - - -
117C ASN* 5.1 14.6 - - - +
175C LYS* 3.1 27.6 + - - +
176C GLN* 2.8 31.4 + - - +
178C THR* 1.3 73.8 - - - +
180C VAL* 1.3 57.7 + - - +
181C GLU* 2.9 18.9 + - - +
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Residues in contact with VAL 180 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82C ASP* 6.1 0.2 - - - +
113C ARG* 5.1 13.5 - - - +
176C GLN* 3.4 11.9 + - - +
177C GLU* 3.1 29.5 + - + +
178C THR* 3.4 7.5 - - - +
179C GLU* 1.3 74.2 - - - +
181C GLU* 1.3 83.3 + - - +
133E GLN* 5.7 11.4 - - + -
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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