Contacts of the helix formed by residues 144 - 164 (chain E) in PDB entry 4H3K
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 144 (chain E).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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17E ASN* 3.6 9.0 + - - -
142E GLN* 2.9 19.6 + - - +
143E ASP* 1.3 74.5 - - - +
145E HIS* 1.3 57.4 + - - +
146E GLU* 3.2 12.0 + - - +
147E GLU* 3.0 39.8 + - - +
148E ALA* 2.8 34.8 + - - +
6F PRO* 4.2 6.7 - - + -
7F SEP 6.1 0.2 - - - +
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Residues in contact with HIS 145 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17E ASN* 3.6 8.1 - - - -
21E GLU* 5.1 2.9 - - - +
79E ASN 3.5 25.1 + - - -
80E GLY* 4.0 18.3 + - - -
81E ILE* 5.4 0.9 - - + -
84E MET* 2.7 40.5 - - + +
144E ASN* 1.3 76.0 + - - +
146E GLU* 1.3 73.1 + - - +
148E ALA* 3.4 5.0 + - - +
149E THR* 2.9 31.2 + - - -
6F PRO* 4.1 13.4 - - + +
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Residues in contact with GLU 146 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
144E ASN* 3.5 11.8 - - - +
145E HIS* 1.3 84.4 + - - +
147E GLU* 1.3 63.9 + - + +
149E THR* 3.2 8.0 + - - -
150E LEU* 2.8 29.3 + - - +
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Residues in contact with GLU 147 (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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141E ILE* 3.5 9.3 - - - +
142E GLN* 3.6 44.6 + - + +
144E ASN* 3.0 29.5 + - - +
146E GLU* 1.3 76.4 - - + +
148E ALA* 1.3 55.0 + - - +
150E LEU* 3.8 22.4 - - - +
151E GLY 2.8 30.0 + - - -
185E ARG* 4.3 14.7 + - - -
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Residues in contact with ALA 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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17E ASN* 3.5 25.4 - - - +
18E ARG* 4.0 18.4 - - + +
21E GLU* 3.6 11.2 - - + +
141E ILE* 3.9 11.3 - - - +
142E GLN 3.9 1.0 + - - -
144E ASN 2.8 25.4 + - - +
145E HIS 3.5 5.4 - - - +
147E GLU* 1.3 72.7 - - - +
149E THR* 1.3 56.0 + - - +
151E GLY* 3.5 0.9 + - - -
152E ALA* 2.9 29.8 + - - +
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Residues in contact with THR 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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21E GLU* 3.7 26.4 + - - +
145E HIS 2.9 16.1 + - - -
146E GLU* 3.2 10.9 + - - -
148E ALA* 1.3 73.9 - - - +
150E LEU* 1.3 67.4 + - - +
152E ALA* 3.2 2.8 + - - +
153E PHE* 3.1 51.5 + - + -
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Residues in contact with LEU 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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146E GLU 2.8 19.1 + - - +
147E GLU* 3.8 20.4 - - - +
149E THR* 1.3 74.9 - - - +
151E GLY* 1.3 58.0 + - - +
153E PHE* 3.2 10.4 + - + -
154E LEU* 2.9 39.2 + - + +
185E ARG* 4.0 23.6 - - - +
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Residues in contact with GLY 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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139E VAL* 5.4 0.2 - - - +
141E ILE* 3.8 28.1 - - - +
147E GLU 2.8 21.8 + - - -
148E ALA 3.7 1.8 - - - -
150E LEU* 1.3 73.7 - - - +
152E ALA* 1.3 55.0 + - - +
154E LEU* 3.2 11.6 + - - +
155E ILE* 2.9 33.1 + - - +
185E ARG* 4.9 3.1 - - - +
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Residues in contact with ALA 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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18E ARG 5.1 0.9 + - - +
21E GLU* 3.7 13.0 - - + +
22E ALA* 3.6 40.4 - - + +
25E ILE* 4.1 11.5 - - + +
26E LEU* 5.6 0.9 - - - +
141E ILE* 4.8 0.4 - - - +
148E ALA 2.9 20.6 + - - +
149E THR 3.2 6.2 + - - +
151E GLY* 1.3 74.3 - - - +
153E PHE* 1.3 59.7 + - - +
155E ILE* 3.5 4.2 + - - +
156E CYS* 2.9 26.9 + - - +
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Residues in contact with PHE 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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25E ILE* 3.7 37.5 - - + -
29E ARG* 3.6 35.7 - - - -
149E THR* 3.1 46.0 + - + -
150E LEU* 3.2 11.2 + - + +
152E ALA* 1.3 77.2 - - - +
154E LEU* 1.3 59.2 + - - +
156E CYS* 3.2 3.5 + - + +
157E GLU* 2.9 29.7 + - - +
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Residues in contact with LEU 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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139E VAL* 5.1 10.5 - - + -
150E LEU* 2.9 27.6 + - + +
151E GLY* 3.4 10.8 - - - +
153E PHE* 1.3 75.7 - - - +
155E ILE* 1.3 59.8 + - - +
157E GLU* 3.3 18.4 + - - +
158E LEU* 2.9 29.9 + - - +
179E PHE* 3.7 21.7 - - + -
183E SER* 4.8 10.3 - - - -
185E ARG* 3.6 48.2 - - - +
187E PHE* 5.6 1.8 - - + -
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Residues in contact with ILE 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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10E VAL* 4.1 15.0 - - + -
18E ARG 5.5 0.2 - - - +
22E ALA* 4.0 20.6 - - + -
26E LEU* 3.9 22.2 - - + -
109E LEU* 3.9 31.0 - - + -
110E THR 5.6 0.7 - - - +
111E CYS* 4.5 3.4 - - - -
139E VAL* 4.1 22.0 - - + +
141E ILE* 3.8 20.4 - - + -
151E GLY 2.9 21.4 + - - +
152E ALA* 3.6 6.3 - - - +
154E LEU* 1.3 74.8 - - - +
156E CYS* 1.3 57.6 + - - +
158E LEU* 3.4 7.5 + - - +
159E CYS* 2.9 30.2 + - - -
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Residues in contact with CYS 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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25E ILE* 4.0 25.4 - - + -
26E LEU* 3.9 19.5 - - + -
29E ARG* 4.0 23.8 - - - -
31E PHE* 4.7 0.4 - - - -
152E ALA 2.9 18.0 + - - +
153E PHE* 3.5 8.3 - - + +
154E LEU 3.2 0.2 - - - -
155E ILE* 1.3 76.3 - - - +
157E GLU* 1.3 59.6 + - - +
159E CYS* 3.3 0.9 + - - +
160E GLN* 2.9 59.6 + - - +
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Residues in contact with GLU 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 PHE 2.9 16.7 + - - +
154E LEU* 3.3 15.0 + - - +
156E CYS* 1.3 77.3 - - - +
158E LEU* 1.3 57.4 + - - +
160E GLN* 3.8 8.7 - - - +
161E CYS* 2.9 32.5 + - + +
179E PHE* 3.6 28.4 - - + -
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Residues in contact with LEU 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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109E LEU* 4.1 24.9 - - + -
137E VAL* 4.3 6.7 - - + -
139E VAL* 5.0 3.6 - - + -
154E LEU 2.9 17.6 + - - +
155E ILE* 3.7 5.2 - - - +
157E GLU* 1.3 74.1 - - - +
159E CYS* 1.3 60.5 + - - +
161E CYS* 3.3 7.0 + - + +
162E ILE* 2.9 46.7 + - + +
175E LEU* 5.0 6.1 - - + +
176E LEU* 3.8 33.9 - - + -
179E PHE* 3.9 35.1 - - + -
187E PHE* 4.7 10.8 - - + -
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Residues in contact with CYS 159 (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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6E LEU* 4.0 9.0 - - + +
8E VAL* 4.1 14.6 - - - -
26E LEU* 4.1 12.6 - - + -
31E PHE* 3.7 23.9 - - + -
107E LEU* 4.1 10.5 - - - -
109E LEU* 3.4 31.9 - - - -
155E ILE* 2.9 25.4 + - - +
156E CYS 3.8 2.0 - - - +
158E LEU* 1.3 72.4 - - - +
160E GLN* 1.3 58.6 + - - +
162E ILE* 3.8 2.8 - - - -
163E GLN* 2.9 31.0 + - - +
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Residues in contact with GLN 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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29E ARG* 4.2 18.2 + - - +
31E PHE* 3.6 24.7 - - + -
156E CYS* 2.9 40.8 + - - +
157E GLU* 3.8 7.9 - - + +
159E CYS* 1.3 71.9 - - - +
161E CYS* 1.3 65.2 + - - +
163E GLN* 3.4 4.6 + - - +
164E HIS* 3.1 38.6 + - + +
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Residues in contact with CYS 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 GLU* 2.9 20.7 + - + +
158E LEU* 3.7 10.1 - - + +
160E GLN* 1.3 77.2 - - - +
162E ILE* 1.3 62.7 + - - +
164E HIS* 3.2 17.6 + - - +
165E THR* 3.3 15.3 + - - +
175E LEU* 3.8 36.3 - - - -
178E GLU* 4.8 6.5 - - - -
179E PHE* 5.7 8.7 - - + -
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Residues in contact with ILE 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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6E LEU* 4.3 15.6 - - + +
107E LEU* 3.9 24.2 - - + -
137E VAL* 5.8 0.4 - - + -
158E LEU* 2.9 47.2 + - + +
159E CYS 4.0 2.7 - - - +
161E CYS* 1.3 74.4 - - - +
163E GLN* 1.3 63.4 + - - +
165E THR* 3.1 27.1 + - - +
168E MET* 3.3 36.2 - - + +
172E ILE* 4.0 27.4 - - + -
175E LEU* 4.2 12.3 - - + -
176E LEU* 4.7 1.6 - - + -
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Residues in contact with GLN 163 (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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5E PRO* 3.7 13.3 - - + +
6E LEU* 3.2 42.9 + - + +
31E PHE* 3.1 32.2 - - + +
159E CYS 2.9 17.9 + - - +
160E GLN* 3.7 6.5 - - - +
162E ILE* 1.3 79.9 - - - +
164E HIS* 1.3 60.7 + - + +
165E THR 3.4 5.7 + - - +
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Residues in contact with HIS 164 (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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160E GLN* 3.1 33.8 + - + +
161E CYS* 3.2 10.9 + - - +
163E GLN* 1.3 76.8 - - + +
165E THR* 1.3 62.1 + - + +
166E GLU* 3.7 1.2 + - - -
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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