Contacts of the helix formed by residues 144 - 157 (chain A) in PDB entry 2IHU
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 144 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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139A LEU* 4.4 2.0 - - + -
140A GLN* 5.2 1.6 + - - +
141A ARG* 2.7 63.8 + - - +
143A HIS* 1.3 95.3 + - + +
145A ILE* 1.3 64.3 + - - +
146A THR 3.1 3.1 - - - -
147A ASP* 3.1 16.9 + - - +
148A LEU* 3.0 28.9 + - + +
327C ARG* 3.2 43.8 + - + +
112D HIS* 3.8 7.3 - - - +
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Residues in contact with ILE 145 (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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14A ALA* 3.8 11.0 - - + +
17A ALA* 3.7 29.6 - - + -
18A LEU* 3.8 32.8 - - + +
139A LEU* 3.8 19.9 - - + +
142A PRO 3.3 18.2 + - - +
143A HIS 4.6 1.6 - - - +
144A GLU* 1.3 77.7 - - - +
146A THR* 1.3 63.6 + - - +
148A LEU* 4.2 6.3 - - + -
149A VAL* 3.0 31.5 + - - +
166A ILE* 4.0 18.2 - - + -
168A LEU* 3.6 30.5 - - + -
173A LEU* 6.2 0.4 - - + -
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Residues in contact with THR 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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17A ALA* 4.2 21.3 + - - +
21A ARG* 3.7 37.2 - - - +
143A HIS 3.8 10.8 + - - -
144A GLU 3.1 0.8 - - - -
145A ILE* 1.3 79.5 - - - +
147A ASP* 1.3 61.4 + - - +
149A VAL* 3.5 3.3 + - - +
150A ASP* 3.2 23.0 + - - +
185A ASN* 4.2 20.6 + - + +
186A PRO* 5.1 5.8 - - + -
330C ARG* 4.3 9.0 - - - +
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Residues in contact with ASP 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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143A HIS* 5.8 0.2 - - - -
144A GLU* 3.1 24.0 + - - +
146A THR* 1.3 76.7 - - - +
148A LEU* 1.3 65.3 + - - +
150A ASP* 3.4 2.7 + - - +
151A SER* 2.9 34.0 + - - -
326C PRO* 4.0 3.3 - - + +
327C ARG* 3.0 69.9 + - - +
330C ARG* 3.8 20.2 - - - +
115D PHE* 5.4 1.4 - - - -
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Residues in contact with LEU 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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135A TYR* 3.5 23.4 - - - +
137A VAL* 3.9 26.7 - - + -
138A GLU 4.6 0.7 - - - +
139A LEU* 3.9 43.3 - - + +
140A GLN 5.2 0.4 - - - +
144A GLU* 3.0 20.3 + - + +
145A ILE* 3.8 9.6 - - + +
146A THR 3.3 0.4 - - - -
147A ASP* 1.3 76.3 + - - +
149A VAL* 1.3 60.6 + - - +
151A SER* 3.4 2.1 + - - -
152A ALA* 2.9 30.0 + - - +
166A ILE* 3.7 15.1 - - + +
327C ARG* 3.5 25.6 - - - +
115D PHE* 6.2 0.4 - - + -
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Residues in contact with VAL 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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18A LEU* 3.6 32.3 - - + +
21A ARG* 3.7 28.7 - - + -
22A LEU* 4.2 18.8 - - + -
25A HIS* 3.9 15.3 - - + -
103A ILE* 5.5 2.2 - - + -
105A LEU* 5.5 0.2 - - + -
145A ILE* 3.0 22.7 + - + +
146A THR 3.7 4.7 - - - +
148A LEU* 1.3 76.4 - - - +
150A ASP* 1.3 56.7 + - - +
152A ALA* 3.2 3.8 + - - +
153A VAL* 2.9 33.1 + - + +
166A ILE* 4.1 13.0 - - + -
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Residues in contact with ASP 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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21A ARG* 2.8 34.4 + - - -
25A HIS* 2.8 31.2 + - + -
146A THR 3.2 6.3 + - - +
147A ASP* 3.6 8.3 - - - +
148A LEU 3.3 0.2 - - - -
149A VAL* 1.3 75.7 - - - +
151A SER* 1.3 57.8 + - - +
153A VAL* 3.5 2.1 + - - +
154A ASN* 2.9 37.5 + - - +
188A ALA 5.3 2.0 - - - -
326C PRO* 4.5 6.5 - - + -
330C ARG* 2.7 37.6 + - - +
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Residues in contact with SER 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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135A TYR* 3.5 33.9 - - - -
147A ASP* 2.9 19.3 + - - -
148A LEU* 3.8 0.9 - - - -
150A ASP* 1.3 73.6 - - - +
152A ALA* 1.3 65.2 + - - +
154A ASN* 3.5 9.6 + - - +
155A ALA* 3.1 25.1 + - - +
323C ASN 5.0 0.5 + - - -
324C PRO 4.3 6.1 + - - -
326C PRO* 3.4 23.6 - - - +
115D PHE* 6.2 0.2 - - - -
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Residues in contact with ALA 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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103A ILE* 3.8 14.4 - - + -
135A TYR* 3.7 12.5 - - + -
148A LEU 2.9 17.7 + - - +
149A VAL* 3.2 6.9 + - - +
151A SER* 1.3 77.2 - - - +
153A VAL* 1.3 57.1 + - - +
156A ALA* 3.0 15.6 + - - +
164A SER* 2.7 41.6 + - - -
166A ILE* 4.1 15.0 - - + -
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Residues in contact with VAL 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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22A LEU* 5.9 0.9 - - + -
25A HIS* 3.9 44.9 - - + +
74A PRO* 4.0 23.6 - - + -
103A ILE* 3.8 24.5 - - + -
149A VAL* 2.9 22.8 + - + +
150A ASP 3.8 3.1 - - - +
152A ALA* 1.3 73.7 - - - +
154A ASN* 1.3 65.5 + - - +
156A ALA* 3.3 1.7 + - - -
157A MET* 3.0 28.8 + - + +
190A THR* 4.2 7.9 - - + -
191A PRO* 4.4 7.4 - - + -
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Residues in contact with ASN 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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150A ASP* 2.9 29.5 + - - +
151A SER* 3.5 10.3 - - - +
153A VAL* 1.3 79.0 - - - +
155A ALA* 1.3 60.3 + - - +
157A MET* 3.6 3.3 + - - +
158A THR* 2.8 25.7 + - - -
191A PRO* 5.5 8.5 - - - +
195A VAL* 5.7 0.9 - - - +
322C VAL* 3.5 28.6 - - + +
323C ASN* 3.4 28.6 + - - +
326C PRO* 4.8 7.1 - - - +
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Residues in contact with ALA 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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134A LYS* 2.9 41.4 + - + +
135A TYR* 3.6 29.2 - - + -
151A SER 3.1 14.2 + - - +
154A ASN* 1.3 77.0 - - - +
156A ALA* 1.3 63.8 + - - +
157A MET 3.4 0.3 + - - -
158A THR* 3.4 8.7 + - - -
164A SER* 3.8 1.8 - - - +
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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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74A PRO* 5.9 0.2 - - + -
101A PRO* 3.8 16.9 - - + +
102A VAL 4.5 0.4 - - - +
103A ILE* 4.1 16.2 - - + -
134A LYS* 4.4 0.4 - - - -
152A ALA 3.0 19.0 + - - +
153A VAL* 3.3 5.1 + - + +
155A ALA* 1.3 77.1 - - - +
157A MET* 1.3 59.5 + - + +
158A THR 3.3 0.2 - - - -
161A VAL* 3.3 12.8 - - - +
162A GLY 3.2 44.6 + - - +
164A SER* 3.5 7.2 + - - +
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Residues in contact with MET 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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72A GLY 4.2 14.4 - - - +
74A PRO* 3.9 24.9 - - + -
101A PRO* 3.5 30.3 - - + -
153A VAL* 3.0 23.0 + - + +
154A ASN 3.9 2.2 - - - +
155A ALA 3.3 0.2 - - - -
156A ALA* 1.3 76.2 - - + +
158A THR* 1.3 61.3 + - - +
161A VAL* 4.1 8.7 - - - -
191A PRO* 3.4 42.0 - - + +
193A LYS* 3.8 4.9 - - - -
194A PRO* 3.3 31.7 - - + +
195A VAL* 2.8 27.8 + - - +
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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