Contacts of the helix formed by residues 149 - 166 (chain H) in PDB entry 5A0Q
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 LYS 149 (chain H).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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8H PHE* 5.3 0.9 - - - +
9H ASP* 2.7 46.7 + - + +
10H GLY* 4.2 12.1 - - - +
11H GLY 5.0 9.0 - - - +
13H VAL* 5.4 8.3 - - + +
148H THR* 1.3 78.5 + - - +
150H GLU* 1.3 63.4 + - + +
152H CYS* 2.9 34.1 - - - -
153H LEU* 4.2 2.3 + - - +
180H ALA* 5.4 6.5 - - - -
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Residues in contact with GLU 150 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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148H THR* 3.2 9.6 + - + +
149H LYS* 1.3 80.7 - - + +
151H GLU* 1.4 72.6 + - - +
152H CYS 3.4 0.5 + - - -
153H LEU* 3.4 26.2 + - - +
154H GLN* 3.9 10.5 + - - +
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Residues in contact with GLU 151 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147H MET* 3.7 35.7 - - + +
148H THR* 3.1 49.8 + - - +
150H GLU* 1.4 84.3 - - - +
152H CYS* 1.4 57.1 + - - +
154H GLN* 3.3 9.7 + - - +
155H PHE* 3.0 27.4 + - - +
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Residues in contact with CYS 152 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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6H VAL* 3.7 23.8 - - + -
7H GLN 4.6 7.9 - - - +
8H PHE* 5.0 11.2 - - + -
13H VAL* 3.8 29.1 - - + +
148H THR 4.1 1.9 + - - +
149H LYS* 2.9 34.5 - - - -
151H GLU* 1.4 75.9 - - - +
153H LEU* 1.3 58.9 + - - +
155H PHE* 3.8 9.6 - - + -
156H THR* 2.9 34.5 + - - +
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Residues in contact with LEU 153 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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13H VAL* 4.2 10.5 - - + -
149H LYS 5.0 2.0 - - - +
150H GLU* 3.4 21.0 + - - +
151H GLU 3.2 0.4 - - - -
152H CYS* 1.3 79.9 - - - +
154H GLN* 1.4 83.3 + - - +
156H THR* 3.4 5.2 + - - -
157H ALA* 3.1 34.0 + - + +
176H LEU* 4.3 15.2 - - + +
187H GLN* 4.2 29.4 - - + +
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Residues in contact with GLN 154 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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150H GLU 4.1 11.9 - - - +
151H GLU* 3.3 8.5 + - - +
153H LEU* 1.4 102.6 - - - +
155H PHE* 1.3 57.8 + - - +
157H ALA* 4.6 2.6 - - - +
158H ASN* 2.9 52.0 + - - +
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Residues in contact with PHE 155 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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4H MET* 3.9 3.1 - - + -
6H VAL* 3.6 31.4 - - + -
138H TYR* 3.6 37.1 - + - -
139H VAL* 3.8 37.0 - - + -
142H THR* 3.6 32.5 - - + -
143H TYR* 3.9 20.6 - + - -
147H MET* 5.9 5.4 - - - -
151H GLU* 3.0 18.8 + - + +
152H CYS* 3.7 12.1 - - + +
154H GLN* 1.3 73.0 - - - +
156H THR* 1.3 60.1 + - - +
159H ALA* 2.9 29.5 + - - +
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Residues in contact with THR 156 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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4H MET* 4.2 21.3 - - + +
6H VAL* 3.6 37.7 - - + -
13H VAL* 3.6 10.2 - - + +
14H LEU* 4.6 0.4 - - - -
15H GLY 5.1 2.5 - - - -
152H CYS 2.9 21.7 + - - +
153H LEU 3.4 0.7 + - - -
155H PHE* 1.3 76.0 - - + +
157H ALA* 1.4 61.6 + - - +
159H ALA* 3.2 5.4 + - - +
160H LEU* 3.1 32.8 + - - +
176H LEU* 3.1 27.9 - - - +
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Residues in contact with ALA 157 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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153H LEU* 3.1 22.1 + - + +
154H GLN* 4.1 4.7 - - - +
156H THR* 1.4 79.3 + - - +
158H ASN* 1.4 63.1 + - - +
160H LEU 4.3 0.2 - - - -
161H ALA* 3.9 5.2 + - - +
174H ILE* 3.6 36.7 - - + +
176H LEU* 4.9 2.0 - - + -
187H GLN* 4.3 19.5 - - - +
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Residues in contact with ASN 158 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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138H TYR* 3.9 18.3 + - + +
154H GLN* 2.9 35.6 + - - +
157H ALA* 1.4 80.5 - - - +
159H ALA* 1.3 65.3 + - - +
160H LEU 3.3 0.4 - - - -
161H ALA* 3.6 6.5 + - - +
162H LEU* 3.3 27.8 + - + +
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Residues in contact with ALA 159 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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4H MET* 4.3 15.5 - - + -
135H ILE* 3.9 20.9 - - + +
138H TYR* 3.6 26.6 - - + -
155H PHE* 2.9 19.9 + - + +
156H THR* 3.2 8.9 + - - +
158H ASN* 1.3 79.2 - - - +
160H LEU* 1.3 64.6 + - - +
162H LEU* 3.4 5.3 + - - +
163H ALA* 3.3 17.5 + - - +
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Residues in contact with LEU 160 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2H THR* 3.6 24.9 - - + -
4H MET* 2.8 37.5 - - + +
15H GLY* 3.8 10.3 - - - +
16H ALA* 3.8 26.7 - - - +
17H ASP* 6.0 0.7 - - + +
135H ILE* 4.2 0.9 - - + -
156H THR* 3.1 20.3 + - - +
158H ASN 3.3 0.2 - - - -
159H ALA* 1.3 80.2 - - - +
161H ALA* 1.3 57.3 - - - +
163H ALA* 3.0 9.0 + - - +
164H MET* 2.9 34.1 + - - +
174H ILE* 3.7 38.8 - - + -
176H LEU* 6.1 0.7 - - + -
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Residues in contact with ALA 161 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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157H ALA 3.9 6.9 + - - +
158H ASN* 3.6 9.8 + - - +
159H ALA 3.3 0.6 - - - -
160H LEU* 1.3 79.6 - - - +
162H LEU* 1.3 62.4 + - + +
164H MET* 3.2 12.4 + - + +
165H GLU* 3.2 24.6 + - - +
174H ILE* 3.6 20.1 - - + +
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Residues in contact with LEU 162 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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134H TYR* 5.0 2.7 - - - +
135H ILE* 6.4 1.1 - - + -
138H TYR* 3.7 37.0 - - + -
158H ASN* 3.3 19.5 - - + +
159H ALA 3.6 5.2 - - - +
160H LEU 3.3 0.2 - - - -
161H ALA* 1.3 74.2 - - + +
163H ALA* 1.3 64.3 + - - +
165H GLU* 3.7 17.2 + - + +
166H ARG* 4.1 10.6 + - - +
136V TYR* 5.8 1.0 - - - +
137V GLY* 4.0 19.3 - - - +
140V ASP* 4.8 13.3 - - + +
141V ALA* 3.9 29.8 - - + +
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Residues in contact with ALA 163 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2H THR* 3.8 13.2 - - + +
131H GLY 4.0 6.3 - - - +
134H TYR* 3.6 13.7 - - - -
135H ILE* 3.3 41.2 - - + +
159H ALA 3.3 1.8 + - - -
160H LEU 3.0 11.6 + - - +
162H LEU* 1.3 81.3 - - - +
164H MET* 1.4 57.1 - - - +
165H GLU 3.5 0.3 + - - -
166H ARG 3.6 0.9 + - - -
167H ASP* 3.1 28.0 + - - +
170H SER* 4.5 0.2 - - - -
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Residues in contact with MET 164 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2H THR* 4.5 3.6 - - - +
17H ASP* 3.8 10.1 - - + -
160H LEU* 2.9 17.6 + - + +
161H ALA* 3.2 12.1 + - + +
163H ALA* 1.4 75.2 - - - +
165H GLU* 1.3 59.7 + - - +
166H ARG 3.2 0.9 - - - -
167H ASP 2.8 21.8 - - - +
170H SER* 3.4 31.1 - - - +
171H GLY* 3.3 39.4 - - - +
172H GLY 4.0 7.0 - - - +
174H ILE* 3.7 34.3 - - + -
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Residues in contact with GLU 165 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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161H ALA 3.2 12.7 + - - +
162H LEU* 3.7 15.7 - - + +
163H ALA 3.3 0.8 - - - -
164H MET* 1.3 78.1 - - - +
166H ARG* 1.3 61.1 + - + +
167H ASP 4.8 0.2 - - - +
140V ASP* 6.4 1.8 - - + -
27b LEU* 6.0 0.5 - - - +
34b ALA* 4.4 2.6 - - - +
37b ARG* 3.3 53.4 + - - +
184b TYR* 4.0 37.7 + - - -
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Residues in contact with ARG 166 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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134H TYR* 3.8 22.0 - - + -
162H LEU 4.1 7.8 + - - +
163H ALA 3.6 2.6 + - - +
164H MET 3.2 0.2 - - - -
165H GLU* 1.3 80.8 - - + +
167H ASP* 1.3 60.6 + - - +
168H GLY 3.6 1.2 + - - -
123V GLN* 6.0 1.4 - - - +
125V PHE* 4.3 14.1 - - - -
136V TYR* 3.5 46.1 - - + -
139V VAL* 6.0 0.2 - - - +
140V ASP* 3.4 29.0 + - - +
33b LEU* 3.6 16.2 - - + -
34b ALA* 2.9 48.8 + - - +
35b ARG* 3.0 28.3 + - - +
37b ARG* 3.6 26.1 - - - +
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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