Contacts of the helix formed by residues 157 - 173 (chain A) in PDB entry 4HVY
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 HIS 157 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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154A LEU* 3.8 25.1 - - + -
156A ALA* 1.3 72.4 - - - +
158A ASP* 1.3 64.6 + - - +
159A ILE 3.0 2.9 - - - -
160A LEU* 3.0 40.8 + - + +
161A HIS* 4.4 1.0 + - - +
204A SO4 2.4 43.0 + - - -
208A NA 3.2 20.5 - - - -
210A GOL 5.2 1.4 + - - -
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Residues in contact with ASP 158 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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72A TYR* 2.5 31.3 + - - -
111A ARG* 3.5 23.6 + - - +
117A ARG* 2.6 35.9 + - - +
156A ALA* 3.5 8.9 - - + +
157A HIS* 1.3 78.2 - - - +
159A ILE* 1.3 70.0 + - - +
160A LEU 3.3 0.4 + - - -
161A HIS* 3.8 9.4 + - - +
162A LEU* 3.4 20.5 + - - +
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Residues in contact with ILE 159 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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47A LEU* 4.2 5.4 - - + -
59A LEU* 4.0 15.7 - - + -
71A TRP 4.4 3.8 - - - +
72A TYR* 3.2 60.8 - - + +
73A LEU* 3.4 31.6 - - + +
150A LEU* 5.8 3.6 - - + -
154A LEU* 4.5 12.3 - - + -
156A ALA 3.7 13.7 - - - +
157A HIS 3.0 1.4 + - - -
158A ASP* 1.3 81.9 + - - +
160A LEU* 1.3 73.7 + - + +
162A LEU* 2.9 16.9 + - + +
163A VAL* 2.9 18.9 + - + +
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Residues in contact with LEU 160 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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150A LEU* 4.6 16.8 - - + -
154A LEU* 3.5 31.6 - - + -
157A HIS* 3.0 36.8 + - + +
159A ILE* 1.3 74.3 - - + +
161A HIS* 1.3 64.7 + - - +
163A VAL* 3.0 18.9 + - - +
164A GLU 3.0 9.4 + - - -
210A GOL 3.8 22.8 - - - +
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Residues in contact with HIS 161 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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109A GLU* 5.1 5.8 - - - -
157A HIS 4.4 0.4 + - - -
158A ASP* 3.8 10.9 + - - +
160A LEU* 1.3 79.3 - - - +
162A LEU* 1.3 73.1 + - + +
164A GLU 3.0 2.1 + - - -
165A LEU* 2.8 42.4 + - + +
210A GOL 3.3 39.0 + - - +
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Residues in contact with LEU 162 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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47A LEU* 3.8 36.8 - - + -
49A VAL* 4.2 19.1 - - + +
73A LEU* 4.2 1.3 - - + -
106A LEU* 4.5 1.4 - - - +
107A SER* 5.1 2.2 - - - -
109A GLU* 4.0 19.3 - - - +
111A ARG* 6.2 0.2 - - - +
117A ARG* 4.2 11.2 - - - +
119A VAL* 4.1 24.5 - - + -
158A ASP 3.4 16.6 - - - +
159A ILE* 2.9 14.8 + - + +
161A HIS* 1.3 89.9 - - + +
163A VAL* 1.3 62.5 + - - +
165A LEU* 3.0 15.7 + - + +
166A ALA* 3.0 20.8 + - - +
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Residues in contact with VAL 163 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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49A VAL* 4.3 14.4 - - + -
51A LEU* 4.4 5.8 - - + +
57A VAL* 3.5 37.7 - - + -
59A LEU* 5.8 1.1 - - + -
73A LEU* 4.6 8.1 - - + -
147A ARG* 3.4 34.8 - - + -
150A LEU* 5.7 9.9 - - + -
159A ILE* 2.9 17.3 + - + +
160A LEU* 3.0 7.4 + - - +
162A LEU* 1.3 76.3 - - - +
164A GLU 1.3 49.0 + - - +
166A ALA* 3.1 4.2 + - - +
167A ALA* 2.9 33.3 + - - +
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Residues in contact with GLU 164 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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147A ARG* 5.1 2.0 - - - +
160A LEU 3.0 13.3 + - - -
161A HIS* 3.0 3.4 + - - +
163A VAL* 1.3 77.2 + - - +
165A LEU* 1.3 55.8 - - - +
167A ALA* 3.0 6.2 - - - +
168A GLN* 2.8 31.8 - - - +
210A GOL 5.6 4.9 + - - -
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Residues in contact with LEU 165 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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106A LEU* 3.6 42.2 - - + +
107A SER* 3.8 17.0 - - - -
161A HIS* 2.8 26.4 + - + +
162A LEU* 3.0 21.5 + - + +
164A GLU 1.3 76.1 - - - +
166A ALA* 1.3 51.9 + - - +
168A GLN* 3.1 10.9 + - + +
169A TYR* 2.8 37.3 + - + +
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Residues in contact with ALA 166 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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49A VAL* 3.5 29.8 - - + -
51A LEU* 4.0 11.7 - - + -
106A LEU* 3.8 15.2 - - + +
121A LEU* 3.8 18.4 - - + -
162A LEU 3.0 6.3 + - - -
163A VAL 3.1 8.5 + - - +
165A LEU* 1.3 75.7 - - - +
167A ALA* 1.3 54.0 + - - +
169A TYR* 3.0 3.1 + - - +
170A ARG* 2.8 38.7 + - - +
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Residues in contact with ALA 167 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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51A LEU* 3.6 19.3 - - + -
55A ASP* 5.2 0.7 - - - +
147A ARG* 4.2 22.2 - - - +
163A VAL 2.9 13.4 + - - +
164A GLU 3.0 8.5 - - - +
166A ALA* 1.3 75.1 - - - +
168A GLN* 1.3 64.2 + - - +
170A ARG* 3.0 5.3 + - - +
171A GLN* 2.9 22.1 + - - +
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Residues in contact with GLN 168 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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164A GLU 2.8 16.2 - - - +
165A LEU* 3.7 11.2 - - + +
167A ALA* 1.3 74.4 - - - +
169A TYR* 1.3 68.7 + - - +
171A GLN* 3.0 8.7 + - + +
172A GLN* 2.8 42.5 + - + +
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Residues in contact with TYR 169 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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103A GLU* 4.1 19.7 + - - +
104A THR* 3.8 31.7 + - + -
106A LEU* 3.6 21.8 - - + -
121A LEU* 3.7 16.8 - - + -
165A LEU* 2.8 18.7 + - + +
166A ALA 3.5 4.3 - - - +
168A GLN* 1.3 77.3 - - - +
170A ARG* 1.3 59.7 + - + +
172A GLN* 3.0 8.9 + - + +
173A ALA* 2.8 44.9 + - + +
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Residues in contact with ARG 170 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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51A LEU* 3.1 41.4 + - + +
52A SER 5.4 2.7 - - - -
103A GLU* 3.0 40.2 + - - -
121A LEU* 3.6 28.0 - - + +
122A ALA 4.1 4.4 + - - -
123A ARG* 4.0 15.0 - - - +
166A ALA 2.8 20.9 + - - +
167A ALA* 3.0 6.9 + - - +
169A TYR* 1.3 81.5 - - + +
171A GLN* 1.3 60.9 + - - +
173A ALA* 3.2 20.1 + - - +
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Residues in contact with GLN 171 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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167A ALA 2.9 12.6 + - - +
168A GLN* 3.0 12.3 + - + +
170A ARG* 1.3 79.3 - - - +
172A GLN* 1.3 68.7 + - + +
173A ALA 3.3 6.9 - - - +
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Residues in contact with GLN 172 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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168A GLN* 2.8 39.2 + - + +
169A TYR* 3.7 8.3 - - + +
171A GLN* 1.3 82.3 - - - +
173A ALA* 1.3 62.5 + - - +
206A MG 3.4 24.4 - - - -
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Residues in contact with ALA 173 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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103A GLU* 5.6 2.0 - - - +
169A TYR* 2.8 38.1 + - + +
170A ARG* 3.2 18.2 - - - +
171A GLN 3.2 5.9 - - - +
172A GLN* 1.3 82.9 - - - +
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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