Contacts of the helix formed by residues 152 - 170 (chain E) in PDB entry 3K75
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 ARG 152 (chain E).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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150E ILE 3.8 0.6 + - - -
151E PRO* 1.3 72.7 - - - +
153E GLU* 1.3 63.2 + - - +
155E MET* 3.1 8.8 + - - +
156E LEU* 2.9 40.2 + - + +
181E PHE* 2.7 58.1 + - + -
182E ARG* 5.2 2.2 + - - +
184E GLY* 3.5 15.9 - - - +
185E ALA 2.6 36.7 + - - +
186E GLU* 3.0 45.1 + - - +
187E SER* 5.0 0.7 - - - +
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Residues in contact with GLU 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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151E PRO* 3.2 7.8 - - + +
152E ARG* 1.3 79.2 - - - +
154E GLU* 1.3 64.7 + - + +
156E LEU* 3.4 16.1 + - - +
157E GLN* 2.7 47.6 + - - +
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Residues in contact with GLU 154 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
150E ILE* 4.0 7.6 - - + -
151E PRO* 3.0 32.3 + - + +
153E GLU* 1.3 80.7 - - + +
155E MET* 1.3 56.5 + - - +
157E GLN* 3.1 7.6 + - - +
158E MET* 2.7 43.2 + - - +
241E LEU* 3.7 12.9 - - + +
250E TYR* 3.4 42.4 - - + +
251E PRO* 4.4 1.7 - - - +
253E ARG* 2.9 30.6 + - - +
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Residues in contact with MET 155 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
150E ILE* 3.8 16.4 - - + +
151E PRO 3.0 18.6 + - - +
152E ARG* 3.5 7.2 - - - +
154E GLU* 1.3 76.2 - - - +
156E LEU* 1.3 57.7 + - - +
158E MET* 3.5 27.2 - - - +
159E GLN* 2.8 30.0 + - - +
177E VAL* 4.6 2.5 - - + -
178E CYS 5.5 0.9 - - - +
181E PHE* 3.4 40.7 - - + -
188E SER* 3.2 40.6 - - - +
190E ASP 4.0 12.6 - - - +
191E MET* 3.7 19.9 - - + +
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Residues in contact with LEU 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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152E ARG* 2.9 34.6 + - + +
153E GLU* 3.6 19.7 - - - +
155E MET* 1.3 75.1 - - - +
157E GLN* 1.3 65.7 + - + +
159E GLN* 3.1 14.8 + - - +
160E ASP* 3.0 32.8 + - - +
181E PHE* 3.8 23.8 - - + -
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Residues in contact with GLN 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 GLU* 2.7 42.1 + - - +
154E GLU* 3.1 10.9 + - - +
156E LEU* 1.3 81.2 - - + +
158E MET* 1.3 63.6 + - - +
160E ASP* 3.3 16.2 + - - +
161E ILE* 3.4 17.2 + - - +
241E LEU* 3.7 29.5 - - + +
242E PRO 5.4 1.8 + - - -
250E TYR* 3.7 22.1 + - - -
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Residues in contact with MET 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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150E ILE* 3.8 24.9 - - + -
154E GLU* 2.7 34.7 + - - +
155E MET* 3.5 28.9 - - - +
157E GLN* 1.3 74.0 - - - +
159E GLN* 1.3 62.8 + - - +
161E ILE* 3.3 11.8 + - - +
162E VAL* 3.4 16.5 + - - +
191E MET* 3.8 31.6 - - + -
223E PHE* 3.8 16.5 - - + -
239E CYS* 5.1 5.4 - - - -
240E GLN 6.1 0.2 - - - -
241E LEU* 3.8 23.6 - - + -
253E ARG* 4.4 18.2 - - + -
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Residues in contact with GLN 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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155E MET 2.8 20.6 + - - +
156E LEU* 3.4 17.0 + - - +
158E MET* 1.3 74.0 - - - +
160E ASP* 1.3 62.7 + - - +
162E VAL* 3.2 5.4 + - - +
163E LEU* 2.8 54.5 + - + +
177E VAL* 3.5 36.9 + - + +
181E PHE* 3.6 25.0 - - + -
191E MET* 3.9 6.9 - - + +
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Residues in contact with ASP 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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156E LEU* 3.0 25.2 + - - +
157E GLN* 3.7 10.6 - - - +
158E MET 3.3 0.2 - - - -
159E GLN* 1.3 80.4 + - - +
161E ILE* 1.3 69.3 + - + +
163E LEU* 4.6 6.7 - - - +
164E ASN* 2.9 34.4 + - - +
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Residues in contact with ILE 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 GLN 3.5 11.7 - - - +
158E MET 3.3 6.7 + - - +
159E GLN 3.3 0.4 - - - -
160E ASP* 1.3 77.7 - - + +
162E VAL* 1.3 63.0 + - - +
164E ASN* 4.2 2.0 - - - +
165E GLU* 3.2 29.6 + - + +
218E LEU* 4.5 4.0 - - + -
221E VAL* 4.6 11.0 - - + -
223E PHE* 3.7 44.2 - - + -
241E LEU* 4.0 6.5 - - + -
242E PRO* 3.6 35.2 - - + -
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Residues in contact with VAL 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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158E MET 3.4 7.6 + - - +
159E GLN* 3.2 8.3 + - - +
161E ILE* 1.3 76.8 - - - +
163E LEU* 1.3 62.2 + - + +
165E GLU* 3.2 2.9 + - - +
166E VAL* 2.8 48.4 + - + +
175E ALA* 5.0 3.4 - - + -
177E VAL* 5.8 2.9 - - + -
191E MET* 4.6 7.9 - - - -
193E VAL* 4.7 22.9 - - + -
214E VAL* 5.6 0.7 - - + -
218E LEU* 3.9 18.8 - - + -
223E PHE* 3.5 31.4 - - + -
255E ILE* 4.3 12.8 - - + -
257E ILE* 6.0 2.0 - - + -
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Residues in contact with LEU 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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159E GLN* 2.8 52.7 + - + +
160E ASP* 4.1 5.8 - - - +
162E VAL* 1.3 76.7 - - + +
164E ASN* 1.3 58.7 + - - +
166E VAL* 3.3 5.9 + - + +
167E LYS* 2.8 33.0 + - + +
175E ALA* 3.4 42.6 - - + +
176E THR* 5.5 0.4 - - - -
177E VAL* 5.4 4.3 - - + +
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Residues in contact with ASN 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 ASP* 2.9 21.0 + - - +
161E ILE* 4.2 2.9 - - - +
163E LEU* 1.3 80.6 - - - +
165E GLU* 1.3 53.6 + - + +
167E LYS* 3.5 4.3 - - - +
168E LYS* 2.6 54.3 + - - +
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Residues in contact with GLU 165 (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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161E ILE* 3.2 21.3 + - + +
162E VAL 3.7 2.7 - - - +
164E ASN* 1.3 76.9 - - + +
166E VAL* 1.3 62.2 + - - +
168E LYS* 3.1 33.5 + - - +
169E LEU* 3.1 31.2 + - - +
214E VAL* 6.1 0.7 - - + -
217E GLN* 2.8 35.0 + - + +
218E LEU* 4.0 15.0 - - + -
221E VAL* 3.5 36.9 - - + +
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Residues in contact with VAL 166 (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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162E VAL* 2.8 43.3 + - + +
163E LEU* 3.4 8.7 - - + +
165E GLU* 1.3 78.3 - - + +
167E LYS* 1.3 59.0 + - + +
169E LEU* 3.7 3.0 - - - +
170E ASP 3.1 18.5 + - - +
173E TYR* 3.2 39.9 - - + +
175E ALA* 4.2 15.0 - - + +
195E LEU* 4.1 13.7 - - + -
214E VAL* 3.9 26.5 - - + -
218E LEU* 5.5 0.4 - - + -
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Residues in contact with LYS 167 (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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163E LEU* 2.8 18.4 + - + +
164E ASN* 4.0 4.0 - - - +
166E VAL* 1.3 75.1 - - + +
168E LYS* 1.3 64.7 + - - +
169E LEU 3.2 1.7 + - - -
170E ASP 3.7 15.2 - - - +
171E PRO* 3.3 34.0 + - + +
173E TYR* 3.8 12.7 + - - -
174E ILE* 5.7 0.2 - - - +
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Residues in contact with LYS 168 (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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164E ASN* 2.6 37.3 + - - +
165E GLU* 3.1 35.4 + - - +
167E LYS* 1.3 73.9 - - - +
169E LEU* 1.3 64.6 + - + +
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Residues in contact with LEU 169 (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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165E GLU* 3.1 16.0 + - - +
166E VAL 3.7 4.9 - - - +
167E LYS 3.2 0.2 - - - -
168E LYS* 1.3 83.0 - - + +
170E ASP* 1.3 60.5 + - - +
173E TYR* 4.3 4.5 - - + -
213E ARG* 2.9 64.3 + - + +
214E VAL* 3.8 18.4 - - + -
217E GLN* 3.8 46.2 - - + +
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Residues in contact with ASP 170 (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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166E VAL 3.1 15.5 + - - +
167E LYS* 3.7 6.5 - - - -
168E LYS 3.6 0.2 - - - -
169E LEU* 1.3 82.0 - - - +
171E PRO* 1.3 98.7 - - - +
172E GLU* 3.7 8.6 + - - +
173E TYR* 3.4 27.2 - - + +
197E HIS* 2.6 35.4 + - - -
213E ARG* 4.1 10.0 + - - +
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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