Contacts of the helix formed by residues 147 - 162 (chain E) in PDB entry 6D6Q
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 147 (chain E).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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32E TYR* 3.9 17.3 + - - -
53E LEU* 4.1 14.0 - - + +
146E GLY* 1.3 72.2 - - - +
148E LEU* 1.3 64.1 + - - +
149E PHE 3.4 1.3 - - - -
150E ASP* 2.9 30.1 + - - +
151E ALA* 3.5 15.1 + - - +
202E THR* 4.3 18.9 + - - -
213E ASP* 2.6 57.1 + - - +
214E ALA* 3.9 6.2 + - - +
219E GLU* 3.7 10.7 + - - -
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Residues in contact with LEU 148 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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56E THR* 4.1 18.8 - - - +
58E ILE* 4.5 2.5 - - + -
101E LEU* 4.1 21.1 - - + -
105E ILE* 3.9 22.2 - - + -
141E LEU* 3.6 31.0 - - + -
143E GLU 4.5 4.5 - - - +
144E CYS* 4.8 17.7 - - + -
145E GLY 5.9 0.2 - - - +
146E GLY* 3.0 9.1 - - - +
147E ASN* 1.3 77.4 - - - +
149E PHE* 1.3 74.5 + - + +
151E ALA* 3.3 6.6 + - - +
152E ILE* 3.0 36.8 + - + +
219E GLU* 5.3 0.4 + - - -
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Residues in contact with PHE 149 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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101E LEU* 5.0 6.5 - - + -
104E GLU* 4.3 20.4 - - + -
105E ILE* 3.5 41.3 - - + -
108E THR* 4.6 16.2 - - + -
109E LEU* 6.0 1.6 - - + -
147E ASN 3.4 0.6 - - - -
148E LEU* 1.3 85.4 - - + +
150E ASP* 1.3 64.3 + - - +
152E ILE* 3.2 6.8 + - + +
153E SER* 2.9 24.8 + - - -
200E ILE* 3.8 24.7 - - + +
202E THR* 3.9 11.4 + - + +
227E LEU* 3.8 34.5 - - + -
240E ARG* 5.4 0.7 - - - -
242E VAL* 5.4 7.4 - - + -
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Residues in contact with ASP 150 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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32E TYR* 2.7 42.2 + - - +
53E LEU* 5.5 1.7 - - + +
147E ASN* 2.9 25.4 + - - +
148E LEU 3.3 0.4 - - - -
149E PHE* 1.3 78.5 - - - +
151E ALA* 1.3 57.9 + - - +
153E SER* 3.3 2.3 + - - -
154E ILE* 2.9 44.8 + - - +
199E CYS* 4.7 0.2 - - - +
200E ILE* 3.0 32.7 + - - +
201E VAL* 4.9 2.5 - - - -
202E THR* 4.5 1.5 + - - +
266E LEU* 3.5 6.8 - - - +
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Residues in contact with ALA 151 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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51E VAL* 4.2 20.0 - - + +
53E LEU* 4.5 9.5 - - + +
56E THR* 4.4 13.2 - - + -
58E ILE* 3.4 21.4 - - + +
147E ASN 3.5 9.8 + - - +
148E LEU 3.3 4.8 + - - +
149E PHE 3.3 0.6 - - - -
150E ASP* 1.3 76.0 - - - +
152E ILE* 1.3 65.9 + - - +
154E ILE* 3.3 11.5 + - - +
155E ALA* 2.9 24.4 + - - +
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Residues in contact with ILE 152 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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58E ILE* 3.4 19.1 - - + -
60E VAL* 5.7 0.2 - - + -
83E VAL* 6.0 0.2 - - + -
105E ILE* 3.9 28.5 - - + -
109E LEU* 4.3 24.0 - - + -
139E VAL* 4.1 31.6 - - + -
141E LEU* 4.4 6.1 - - + -
148E LEU* 3.0 40.1 + - + +
149E PHE* 3.7 9.4 - - + +
151E ALA* 1.3 75.5 - - - +
153E SER* 1.3 57.3 + - - +
155E ALA* 3.3 6.0 + - - +
156E VAL* 2.9 27.3 + - + +
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Residues in contact with SER 153 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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109E LEU* 6.1 2.0 - - - +
149E PHE 2.9 10.2 + - - -
150E ASP 3.6 2.7 - - - -
151E ALA 3.2 0.2 - - - -
152E ILE* 1.3 74.3 - - - +
154E ILE* 1.3 66.4 + - - +
156E VAL* 3.1 10.0 + - - +
157E LYS* 2.9 23.0 + - - +
197E VAL* 5.7 0.3 - - - +
198E PRO 2.9 27.5 + - - +
199E CYS* 3.2 3.8 - - - -
200E ILE* 3.1 42.0 + - - +
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Residues in contact with ILE 154 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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32E TYR* 5.7 0.2 - - + -
35E VAL* 5.2 9.6 - - + -
37E VAL* 4.6 6.7 - - + -
51E VAL* 4.6 13.2 - - + -
53E LEU* 5.3 4.7 - - + -
150E ASP* 2.9 44.7 + - - +
151E ALA* 3.7 7.9 - - - +
153E SER* 1.3 75.8 - - - +
155E ALA* 1.3 57.8 + - - +
157E LYS* 3.3 6.3 + - - +
158E ALA* 2.9 28.3 + - + +
199E CYS* 5.0 4.5 - - + -
266E LEU* 4.0 27.8 - - + -
270E LEU* 4.0 27.7 - - + +
3H MET* 4.8 4.0 - - + -
5H MET* 4.3 14.1 - - + -
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Residues in contact with ALA 155 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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49E ALA* 3.8 7.6 - - + +
50E ARG 5.4 0.7 - - - -
51E VAL* 3.8 21.0 - - + +
58E ILE* 4.3 9.4 - - + +
60E VAL* 3.3 28.0 - - + -
151E ALA 2.9 17.4 + - - +
152E ILE 3.6 3.4 - - - +
154E ILE* 1.3 76.4 - - - +
156E VAL* 1.3 65.8 + - - +
158E ALA* 3.3 3.9 + - - +
159E ALA* 2.9 26.7 + - - +
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Residues in contact with VAL 156 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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60E VAL* 4.4 4.9 - - + +
81E PHE* 4.4 9.9 - - + -
109E LEU* 4.0 26.5 - - + -
113E PHE* 4.2 27.6 - - + -
137E VAL* 4.7 5.2 - - + -
139E VAL* 4.7 8.7 - - + -
152E ILE* 2.9 24.1 + - + +
153E SER* 3.5 11.0 - - - +
155E ALA* 1.3 75.3 - - - +
157E LYS* 1.3 59.8 + - - +
159E ALA* 3.7 4.5 - - - +
160E LEU* 2.9 51.8 + - + +
197E VAL* 5.1 1.8 - - + -
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Residues in contact with LYS 157 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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153E SER 2.9 16.0 + - - +
154E ILE* 3.7 5.2 - - - +
156E VAL* 1.3 75.0 - - - +
158E ALA* 1.3 59.5 + - - +
160E LEU* 3.4 3.1 + - - +
161E PHE* 2.9 29.7 + - + +
194E VAL* 3.6 34.4 + - + +
195E GLU* 5.7 1.4 - - - +
197E VAL* 3.7 35.8 + - + +
198E PRO 5.3 3.1 - - - +
199E CYS* 5.9 1.3 - - + -
232E SER* 5.4 3.6 - - - -
267E HIS* 2.7 44.6 + - + +
270E LEU* 3.7 23.0 - - + +
271E GLN* 4.9 12.6 - - - +
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Residues in contact with ALA 158 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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37E VAL* 4.6 20.0 - - + -
38E GLU 5.1 0.9 - - - +
39E THR* 4.0 7.0 + - - -
49E ALA* 3.9 14.8 - - + -
51E VAL* 5.9 0.7 - - + -
154E ILE* 2.9 17.8 + - + +
155E ALA* 3.8 4.9 - - - +
157E LYS* 1.3 76.3 - - - +
159E ALA* 1.3 57.4 + - - +
161E PHE* 3.6 7.8 + - - +
162E ASN* 3.1 28.2 + - - +
270E LEU* 4.8 11.1 - - + +
274E VAL* 5.1 9.4 - - + +
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Residues in contact with ALA 159 (chain E).
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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47E GLY* 4.4 2.6 - - - -
48E SER* 3.9 16.6 - - - -
49E ALA* 3.7 6.7 - - + +
60E VAL* 3.7 15.3 - - + -
62E VAL* 3.6 24.0 - - + -
155E ALA 2.9 19.1 + - - +
156E VAL* 3.7 3.6 - - - +
158E ALA* 1.3 74.2 - - - +
160E LEU* 1.3 59.5 + - - +
162E ASN* 3.0 11.6 + - - +
163E THR* 2.5 25.5 + - - -
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Residues in contact with LEU 160 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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62E VAL* 4.8 8.5 - - + -
79E LEU* 5.0 10.8 - - + -
113E PHE* 5.1 2.0 - - + -
119E VAL* 3.7 19.3 - - + -
135E LEU* 5.3 5.6 - - + -
137E VAL* 4.8 16.2 - - + -
156E VAL* 2.9 41.6 + - + +
157E LYS 3.7 4.3 - - - +
159E ALA* 1.3 75.5 - - - +
161E PHE* 1.3 65.1 + - - +
163E THR* 2.9 27.4 + - - +
191E ARG* 5.2 0.3 + - - -
192E LEU* 4.1 23.6 + - + +
194E VAL* 3.8 10.5 - - + -
197E VAL* 3.6 36.6 - - + -
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Residues in contact with PHE 161 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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157E LYS* 2.9 18.0 + - + +
158E ALA* 3.7 9.0 - - - +
160E LEU* 1.3 75.8 - - - +
162E ASN* 1.3 54.7 + - + +
191E ARG* 2.3 52.4 + - - -
192E LEU 5.1 4.0 - - - +
194E VAL* 3.9 30.5 - - + +
271E GLN* 3.8 19.7 - - - -
274E VAL* 3.2 35.9 - - + -
275E HIS* 4.2 16.6 - + - -
278E GLU* 3.2 30.5 - - + -
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Residues in contact with ASN 162 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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39E THR* 2.0 40.0 + - + +
40E ASP* 2.9 25.7 + - - +
46E SER 3.7 0.9 - - - +
47E GLY* 3.4 13.3 - - - -
48E SER 3.8 9.9 - - - +
158E ALA 3.1 12.2 + - - +
159E ALA 3.0 9.3 + - - +
161E PHE* 1.3 78.3 - - + +
163E THR* 1.3 60.0 + - - +
164E ARG* 3.0 33.7 + - - +
191E ARG* 4.3 2.5 - - - +
274E VAL* 6.4 0.2 - - + -
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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