Contacts of the helix formed by residues 156 - 167 (chain B) in PDB entry 1ATT
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 156 (chain B).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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21B MET* 5.4 6.9 - - - +
154B THR 3.2 5.2 + - - -
155B PHE* 1.3 69.5 - - - +
157B GLU* 1.3 58.9 + - - +
158B THR* 2.7 25.7 + - - +
159B TYR* 2.8 29.3 + - - +
160B GLN 2.9 8.7 + - - -
354B GLY* 3.3 33.2 + - - +
355B ILE 3.0 6.8 + - - +
356B VAL 3.7 18.5 + - - +
357B ALA* 4.3 11.4 - - + +
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Residues in contact with GLU 157 (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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154B THR* 5.6 5.2 - - - +
155B PHE 2.9 13.4 + - - +
156B ASN* 1.3 69.9 + - - +
158B THR* 1.3 56.1 + - - +
160B GLN* 3.3 17.4 - - + +
161B ASP* 2.8 35.9 + - - +
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Residues in contact with THR 158 (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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19B ASN* 3.5 37.3 + - - +
20B PRO* 5.4 3.4 - - + -
156B ASN* 2.7 18.7 + - - +
157B GLU* 1.3 70.4 - - - +
159B TYR* 1.3 65.2 + - - +
161B ASP* 3.3 16.2 + - + +
162B ILE* 2.9 30.5 + - + +
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Residues in contact with TYR 159 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
90B MET* 4.4 8.1 - - + -
91B THR* 5.4 0.8 - - - -
93B LEU* 3.8 31.2 - - + -
94B GLY* 4.4 2.7 - - - -
147B LEU* 3.5 23.3 - - + +
155B PHE* 5.0 4.5 - + + -
156B ASN* 2.8 11.3 + - - +
158B THR* 1.3 77.7 - - - +
160B GLN* 1.3 69.3 + - + +
162B ILE* 4.1 5.6 - - - +
163B SER* 3.1 36.8 + - - -
171B LEU* 5.4 1.1 - - + -
214B LEU* 3.2 33.0 - - + +
216B LEU* 3.2 23.2 - - + +
354B GLY 3.2 22.7 - - - +
355B ILE* 3.7 34.2 - - + +
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Residues in contact with GLN 160 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147B LEU* 4.1 8.7 - - - +
155B PHE* 3.8 23.1 - - + +
156B ASN 2.9 15.2 + - - +
157B GLU* 3.3 23.2 - - + +
159B TYR* 1.3 79.4 - - + +
161B ASP* 1.3 63.5 + - - +
163B SER* 3.5 3.1 + - - -
164B GLU* 3.3 21.8 + - - +
169B ALA 4.4 2.4 + - - +
170B LYS* 5.4 0.2 - - - +
171B LEU* 3.0 60.8 - - - +
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Residues in contact with ASP 161 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
157B GLU* 2.8 28.6 + - - +
158B THR* 3.0 21.4 + - - +
160B GLN* 1.3 77.6 - - - +
162B ILE* 1.3 63.3 + - + +
164B GLU* 3.4 3.3 + - - +
165B VAL* 3.4 27.8 + - + +
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Residues in contact with ILE 162 (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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16B ILE 4.3 5.4 - - - +
17B PRO 4.3 9.2 - - - +
18B VAL* 3.5 41.7 - - + -
19B ASN* 4.8 8.1 - - - +
20B PRO* 5.6 1.3 - - + -
93B LEU* 3.7 36.8 - - + -
121B HIS* 5.2 0.7 - - + -
158B THR* 2.9 28.6 + - + +
159B TYR* 4.1 4.3 - - - +
161B ASP* 1.3 72.5 - - + +
163B SER* 1.3 69.9 + - - +
165B VAL* 4.7 4.5 - - + +
166B VAL* 3.1 40.0 + - + +
167B TYR* 4.5 0.5 - - - -
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Residues in contact with SER 163 (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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90B MET* 5.6 3.0 - - - +
93B LEU* 3.9 8.2 - - - +
147B LEU* 3.8 18.6 - - - +
159B TYR* 3.1 39.9 + - - -
160B GLN 3.6 5.4 - - - -
162B ILE* 1.3 74.1 - - - +
164B GLU* 1.3 57.9 + - - +
167B TYR* 2.7 37.0 + - - -
168B GLY 2.9 4.1 + - - -
169B ALA* 3.7 19.5 - - - -
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Residues in contact with GLU 164 (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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160B GLN 3.3 10.7 + - - +
161B ASP* 3.4 7.1 + - - +
163B SER* 1.3 76.4 - - - +
165B VAL* 1.3 64.8 + - + +
168B GLY* 2.8 29.0 + - - +
169B ALA 3.2 23.2 + - - +
170B LYS* 3.5 41.2 - - + +
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Residues in contact with VAL 165 (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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16B ILE* 3.6 40.4 - - + +
125B ALA* 4.4 4.9 - - - +
161B ASP* 3.4 17.2 + - + +
162B ILE* 4.9 4.0 - - + +
164B GLU* 1.3 81.0 - - + +
166B VAL* 1.3 63.1 + - + +
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Residues in contact with VAL 166 (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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16B ILE* 5.0 9.6 - - + -
18B VAL* 4.5 5.4 - - + -
121B HIS* 3.1 35.0 - - + +
122B PHE* 4.7 2.2 - - - -
125B ALA* 3.4 28.9 - - + +
128B ASN* 4.3 5.2 - - - +
162B ILE* 3.1 35.3 + - + +
165B VAL* 1.3 81.3 - - + +
167B TYR* 1.3 97.5 + - + +
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Residues in contact with TYR 167 (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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86B THR* 4.6 9.6 - - + -
89B ALA* 3.5 20.5 + - + +
90B MET* 3.5 48.2 - - + -
93B LEU* 4.3 7.0 - - + -
121B HIS* 3.0 43.2 + - - +
124B PHE* 3.8 28.9 - + + +
128B ASN* 4.3 8.1 - - - -
145B ASN* 2.9 27.5 + - + +
162B ILE 4.5 0.2 - - - -
163B SER* 2.7 26.6 + - - +
166B VAL* 1.3 97.5 - - + +
168B GLY* 1.3 59.3 + - - +
169B ALA* 4.5 2.0 - - + +
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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