Contacts of the helix formed by residues 152 - 171 (chain A) in PDB entry 1XTQ
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 GLU 152 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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25A GLN* 4.2 1.3 - - - -
121A LYS* 3.8 20.6 + - - -
122A ASP* 4.0 14.4 - - - +
149A SER* 2.8 28.8 + - - +
151A LYS* 1.3 81.4 - - + +
153A ASN* 1.3 60.2 + - - +
154A GLN* 3.2 3.4 - - + +
155A THR* 2.6 48.9 + - + +
156A ALA* 3.4 1.7 + - - +
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Residues in contact with ASN 153 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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25A GLN* 2.8 54.4 + - - +
26A PHE* 4.7 2.2 + - - +
29A GLY* 3.4 13.8 + - - +
151A LYS 3.8 1.2 + - - -
152A GLU* 1.3 72.2 - - - +
154A GLN* 1.3 60.9 + - - +
156A ALA* 3.1 3.1 + - - +
157A VAL* 2.9 41.9 + - - +
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Residues in contact with GLN 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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152A GLU* 3.1 2.1 + - + -
153A ASN* 1.3 82.4 + - - +
155A THR* 1.3 60.9 + - + +
157A VAL* 4.0 17.2 - - - +
158A ASP* 2.9 65.1 + - - +
161A ARG* 5.5 4.2 - - - +
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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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121A LYS* 4.8 9.6 - - + +
146A LEU* 5.1 0.5 - - - +
147A GLU 4.5 3.9 - - - +
148A SER* 3.8 11.3 - - - -
149A SER 3.0 31.3 + - - +
152A GLU* 2.6 45.1 + - + +
154A GLN* 1.3 77.0 - - + +
156A ALA* 1.3 64.9 + - - +
158A ASP* 3.4 10.1 + - - +
159A VAL* 3.1 28.7 + - - +
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Residues in contact with ALA 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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22A LEU* 3.3 37.2 - - + +
25A GLN* 3.5 25.4 - - + -
26A PHE* 4.1 7.9 - - + +
149A SER 5.1 0.4 - - - +
152A GLU 3.4 1.1 + - - +
153A ASN 3.1 9.1 + - - +
155A THR* 1.3 81.0 + - - +
157A VAL* 1.3 62.4 + - - +
159A VAL* 3.4 1.8 + - - +
160A PHE* 3.3 31.5 + - - -
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Residues in contact with VAL 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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26A PHE* 4.0 26.0 - - + +
153A ASN* 2.9 40.3 + - - +
154A GLN* 3.8 18.6 - - - +
156A ALA* 1.3 76.3 - - + +
158A ASP* 1.3 59.6 + - - +
160A PHE* 3.4 2.3 + - - +
161A ARG* 2.9 57.3 + - + +
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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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146A LEU* 3.7 15.6 - - + +
154A GLN* 2.9 52.6 + - - +
155A THR* 3.7 9.9 - - - +
156A ALA 3.3 0.2 - - - -
157A VAL* 1.3 76.7 - - - +
159A VAL* 1.3 58.1 + - - +
161A ARG* 3.9 10.8 + - - +
162A ARG* 2.9 32.2 + - - +
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Residues in contact with VAL 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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22A LEU* 4.5 11.0 - - + -
82A ILE* 4.0 23.1 - - + -
115A MET* 3.5 6.0 - - - +
117A VAL* 3.9 33.0 - - + -
146A LEU* 4.0 17.5 - - + -
147A GLU 5.1 0.2 - - - +
148A SER* 4.0 20.2 - - - +
155A THR 3.1 19.4 + - - +
156A ALA* 3.5 9.4 - - - +
157A VAL 3.2 0.2 - - - -
158A ASP* 1.3 76.3 - - - +
160A PHE* 1.3 69.6 + - + +
162A ARG* 3.1 5.0 + - - +
163A ILE* 3.1 19.6 + - - +
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Residues in contact with PHE 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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9A ILE* 4.5 6.7 - - + -
11A ILE* 4.2 9.6 - - + -
22A LEU* 4.1 11.0 - - + -
23A THR* 3.8 33.7 - - + -
26A PHE* 3.4 52.5 - + + -
47A ILE* 5.3 0.2 - - - -
56A LEU* 5.2 1.6 - - + -
58A LEU* 3.6 34.3 - - + -
82A ILE* 3.5 25.8 - - + -
156A ALA 3.3 23.6 + - - +
159A VAL* 1.3 86.5 - - + +
161A ARG* 1.3 66.5 + - - +
163A ILE* 3.0 20.4 - - - +
164A ILE* 3.2 13.6 - - - +
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Residues in contact with ARG 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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26A PHE* 5.6 0.7 - - + -
47A ILE* 5.0 5.8 - - + -
48A THR 5.1 3.0 + - - -
49A VAL* 3.8 44.1 - - + +
50A ASN* 4.6 9.1 + - - +
154A GLN* 5.5 3.6 - - - +
157A VAL* 2.9 48.0 + - + +
158A ASP* 3.9 12.1 + - - +
160A PHE* 1.3 76.1 - - + +
162A ARG* 1.3 63.0 + - - +
164A ILE* 3.2 13.2 + - - +
165A LEU* 3.1 31.5 + - + +
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Residues in contact with ARG 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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115A MET* 3.6 25.6 - - + -
144A ALA* 3.5 29.6 - - + +
145A PHE 4.5 10.5 + - - +
146A LEU* 4.2 11.1 - - + +
158A ASP 2.9 18.7 + - - +
159A VAL 3.3 5.2 - - - +
161A ARG* 1.3 76.0 - - - +
163A ILE* 1.3 59.8 + - - +
165A LEU* 3.1 21.0 + - - +
166A GLU* 2.9 39.6 + - - +
169A LYS* 5.6 2.0 - - - +
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Residues in contact with ILE 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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9A ILE* 3.8 26.0 - - + -
80A GLY* 4.3 10.1 - - - -
81A TYR 3.6 32.5 - - - +
82A ILE* 4.1 19.5 - - + -
113A PRO* 3.9 17.3 - - + +
115A MET* 3.9 17.9 - - + +
159A VAL 3.1 8.3 + - - +
160A PHE* 3.0 26.5 - - - +
162A ARG* 1.3 76.1 - - - +
164A ILE* 1.3 57.0 + - - +
166A GLU* 4.1 11.9 - - + -
167A ALA* 2.9 28.0 + - + +
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Residues in contact with ILE 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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7A ARG* 5.9 4.5 - - + -
9A ILE* 4.5 5.4 - - + -
47A ILE* 3.2 36.6 - - + -
49A VAL* 4.3 9.2 - - + -
54A TYR* 3.6 40.4 - - + +
56A LEU* 3.9 24.2 - - + -
160A PHE 3.2 13.7 - - - +
161A ARG* 3.2 9.8 + - - +
163A ILE* 1.3 82.7 - - + +
165A LEU* 1.3 63.6 + - + +
167A ALA* 3.3 7.7 + - - +
168A GLU* 3.0 33.6 + - + +
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Residues in contact with LEU 165 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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49A VAL* 4.3 13.0 - - + -
50A ASN* 3.5 28.5 - - - +
54A TYR* 5.8 0.4 - - - +
161A ARG* 3.3 17.7 - - + +
162A ARG* 3.1 25.0 + - - +
164A ILE* 1.3 77.7 - - + +
166A GLU* 1.3 61.7 + - - +
168A GLU* 3.2 9.6 + - + +
169A LYS* 2.8 31.6 + - - +
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Residues in contact with GLU 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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113A PRO* 4.2 1.3 - - + -
114A ILE 3.9 31.8 + - - +
142A ASN 4.0 15.9 - - - +
143A ALA* 4.3 0.3 - - - -
144A ALA* 4.0 15.6 + - + +
162A ARG* 2.9 32.4 + - - +
163A ILE* 3.3 15.5 + - + +
165A LEU* 1.3 75.8 - - - +
167A ALA* 1.3 64.0 + - - +
169A LYS* 3.1 28.4 + - - -
170A LEU* 2.9 45.6 + - + +
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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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7A ARG* 5.4 8.1 - - + +
79A ASN* 3.9 26.0 - - + +
80A GLY* 5.4 0.9 - - - -
113A PRO* 3.8 15.3 - - + +
163A ILE* 2.9 13.8 + - + +
164A ILE* 3.4 12.3 - - - +
166A GLU* 1.3 78.7 - - - +
168A GLU* 1.3 68.6 + - - +
170A LEU* 3.3 2.6 + - - +
171A GLU* 2.9 23.0 + - - +
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Residues in contact with GLU 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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5A LYS* 3.8 14.9 + - - +
7A ARG* 3.8 11.8 + - - -
54A TYR* 2.5 39.3 + - - +
164A ILE* 3.0 20.5 + - + +
165A LEU* 3.6 11.2 - - + +
167A ALA* 1.3 77.7 - - - +
169A LYS* 1.3 63.4 + - - +
171A GLU* 2.8 51.9 - - - +
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Residues in contact with LYS 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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142A ASN* 5.5 6.9 + - - +
162A ARG* 5.6 2.2 - - - +
165A LEU 2.8 21.3 + - - +
166A GLU* 3.1 32.2 + - - +
168A GLU* 1.3 75.1 - - - +
170A LEU* 1.3 84.6 + - - +
171A GLU 3.0 9.1 + - - +
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Residues in contact with LEU 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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111A GLN* 3.5 52.5 - - + +
112A ILE 4.8 1.3 - - - +
113A PRO* 4.1 21.5 - - + -
166A GLU* 2.9 47.9 + - + +
167A ALA 3.9 3.1 - - - +
169A LYS* 1.3 96.8 - - - +
171A GLU* 1.3 67.5 + - - +
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Residues in contact with GLU 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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5A LYS* 5.4 4.4 + - - -
7A ARG* 3.3 17.5 + - - -
167A ALA 2.9 13.0 + - - +
168A GLU* 2.8 43.1 - - - +
169A LYS 3.0 10.2 - - - +
170A LEU* 1.3 84.3 - - - +
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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
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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