Contacts of the helix formed by residues 145 - 157 (chain A) in PDB entry 2O7T
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 ALA 145 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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131A ILE* 5.3 0.7 - - - -
135A LYS* 4.6 0.9 - - - +
143A ASP 3.4 4.7 + - - +
144A ILE* 1.3 81.3 - - - +
146A PRO* 1.3 75.9 - - + +
147A GLY* 4.3 4.7 - - - +
148A THR* 3.2 19.1 + - - +
149A TYR* 3.2 17.7 + - - +
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Residues in contact with PRO 146 (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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124A GLU 5.7 0.2 - - - +
127A THR* 4.6 4.3 - - + -
128A THR* 3.9 42.6 - - + +
131A ILE* 4.3 25.8 - - + -
132A ASN* 5.4 2.5 - - - +
135A LYS* 4.6 6.5 - - - +
144A ILE 4.2 3.1 - - - +
145A ALA* 1.3 86.7 - - + +
147A GLY* 1.3 56.3 + - - +
149A TYR* 3.3 5.9 + - + +
150A ILE* 3.0 34.5 + - + +
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Residues in contact with GLY 147 (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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145A ALA* 3.2 3.8 - - - +
146A PRO* 1.3 75.9 - - - +
148A THR* 1.3 64.5 + - - +
150A ILE* 3.8 12.2 - - - +
151A VAL* 3.0 31.4 + - - +
200A UNL 4.4 10.8 - - - -
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Residues in contact with THR 148 (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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144A ILE* 4.5 9.2 - - + -
145A ALA* 3.2 26.5 + - - +
147A GLY* 1.3 76.4 - - - +
149A TYR* 1.3 58.4 + - - +
151A VAL* 3.9 4.4 - - - +
152A GLY* 2.9 25.8 + - - -
179A TYR* 3.5 3.4 + - - +
183A LEU* 6.3 0.9 - - + -
187A MSE 6.5 0.9 - - - -
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Residues in contact with TYR 149 (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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85A TRP* 3.6 18.7 - + - -
88A PHE* 3.7 17.3 - + - -
89A ASN* 2.5 33.9 + - - -
127A THR* 3.9 21.3 - - + -
130A LEU* 6.4 0.9 - - + -
131A ILE* 3.6 28.0 - - + -
144A ILE* 4.5 8.2 - - + +
145A ALA 3.2 9.7 + - - +
146A PRO 3.3 11.2 + - - +
148A THR* 1.3 79.1 - - - +
150A ILE* 1.3 62.6 + - + +
153A LEU* 2.9 32.1 + - + +
179A TYR* 2.6 29.5 + + - -
183A LEU* 3.5 28.5 - - + -
200A UNL 5.3 3.8 - - - -
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Residues in contact with ILE 150 (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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124A GLU* 4.9 17.7 - - + +
127A THR* 3.7 33.7 - - + +
146A PRO* 3.0 22.9 + - + +
147A GLY* 3.8 13.2 - - - +
148A THR 3.3 0.2 - - - -
149A TYR* 1.3 82.4 - - + +
151A VAL* 1.3 65.9 + - + +
153A LEU* 3.3 6.1 + - - +
154A ILE* 3.0 43.1 + - + +
200A UNL 4.0 45.5 - - - +
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Residues in contact with VAL 151 (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 GLY 3.0 17.3 + - - +
148A THR* 4.1 4.0 - - - +
150A ILE* 1.3 82.2 - - + +
152A GLY* 1.3 58.5 + - - +
154A ILE* 3.4 8.9 + - + +
155A THR* 2.8 42.1 + - - +
200A UNL 4.2 17.0 - - - +
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Residues in contact with GLY 152 (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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148A THR 2.9 13.4 + - - -
151A VAL* 1.3 78.5 - - - +
153A LEU* 1.3 55.9 + - - +
155A THR* 3.2 7.0 + - - -
156A ILE* 2.8 34.9 + - - +
179A TYR* 3.3 26.9 - - - -
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Residues in contact with LEU 153 (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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89A ASN* 3.7 20.6 - - + +
92A LEU* 3.8 21.8 - - + -
93A PHE* 5.3 1.3 - - + +
97A LEU* 3.5 21.3 - - + -
149A TYR* 2.9 41.7 + - + +
150A ILE* 3.6 5.8 - - - +
152A GLY* 1.3 75.0 - - - +
154A ILE* 1.3 59.2 + - - +
156A ILE* 3.5 4.5 - - + +
157A SER* 2.5 38.4 + - - +
176A LEU* 4.1 22.9 - - + -
179A TYR* 3.3 17.5 + - + -
200A UNL 4.7 6.1 - - - +
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Residues in contact with ILE 154 (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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97A LEU* 3.9 30.7 - - + +
98A GLY* 3.9 4.6 - - - -
101A VAL* 4.2 29.2 - - + -
102A PRO* 5.1 5.6 - - + -
150A ILE* 3.0 39.2 + - + +
151A VAL* 3.7 8.1 - - + +
153A LEU* 1.3 77.7 - - - +
155A THR* 1.3 63.6 + - - +
157A SER* 3.5 2.8 + - - -
158A ARG* 3.4 17.7 + - - +
200A UNL 3.9 23.1 - - - +
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Residues in contact with THR 155 (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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151A VAL* 2.8 32.5 + - - +
152A GLY* 3.6 7.0 - - - -
154A ILE* 1.3 78.7 - - - +
156A ILE* 1.3 67.9 + - + +
157A SER 3.2 1.0 + - - -
158A ARG* 3.3 21.0 + - - +
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Residues in contact with ILE 156 (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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93A PHE* 3.6 12.2 - - + -
152A GLY* 2.8 27.1 + - - +
153A LEU* 3.5 11.7 - - + +
155A THR* 1.3 76.0 - - + +
157A SER* 1.3 58.8 + - - +
158A ARG 3.3 1.9 - - - +
172A HIS* 3.2 21.8 + - - -
175A LEU* 4.1 21.2 - - + +
176A LEU* 3.8 32.1 - - + +
179A TYR* 3.7 45.8 - - + -
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Residues in contact with SER 157 (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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93A PHE* 3.5 38.7 - - - +
96A GLY* 5.6 1.6 - - - -
97A LEU* 4.0 10.5 - - - +
98A GLY* 3.4 27.2 + - - -
153A LEU* 2.5 26.6 + - - +
154A ILE 3.8 0.4 - - - -
155A THR 3.1 1.0 - - - -
156A ILE* 1.3 74.6 - - - +
158A ARG* 1.3 64.4 + - - +
159A PRO* 3.2 9.0 - - - +
172A HIS* 3.6 9.5 + - - -
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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