Contacts of the helix formed by residues 214 - 231 (chain A) in PDB entry 2J51
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 TYR 214 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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147A HIS* 3.3 45.6 - + + +
150A LYS* 3.7 34.9 - - - +
151A ILE 4.0 0.4 - - - -
152A ILE* 3.5 27.6 - - + -
180A ASN* 3.3 22.1 + - - +
207A SER 4.4 3.8 - - - -
208A LYS* 2.7 26.5 + - - -
210A ARG 3.4 26.5 - - - -
211A PRO 3.1 6.0 + - - +
213A ASP* 1.3 78.8 - - + +
215A LYS* 1.3 59.7 + - - +
217A ASP* 3.0 20.4 + - - +
218A VAL 3.9 0.2 + - - -
1309A EDO 3.6 17.3 - - - -
1311A EDO 3.9 18.8 - - - -
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Residues in contact with LYS 215 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
211A PRO* 3.1 27.4 + - + +
212A TYR* 3.5 9.6 - - - +
213A ASP 3.2 0.6 - - - -
214A TYR* 1.3 74.8 - - - +
216A ALA* 1.3 64.2 + - - +
217A ASP 3.1 0.2 - - - -
218A VAL* 2.9 19.7 + - - +
219A TRP 3.2 3.8 + - - -
277A VAL* 2.9 38.4 + - + +
278A ASP* 3.3 16.8 + - - +
280A ARG* 2.9 50.5 + - + +
281A TRP 4.2 7.4 - - - +
282A THR* 3.7 25.3 - - - +
285A GLN* 5.4 0.6 + - - -
1309A EDO 3.7 11.2 - - - +
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Residues in contact with ALA 216 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
152A ILE* 5.1 4.9 - - + -
154A ARG* 6.3 2.0 - - + -
212A TYR 4.2 1.8 + - - -
213A ASP* 3.3 17.4 + - - +
214A TYR 3.1 0.4 - - - -
215A LYS* 1.3 75.0 - - - +
217A ASP* 1.3 63.7 + - - +
219A TRP* 3.3 7.5 + - - +
220A SER* 3.2 23.4 + - - -
280A ARG* 3.9 8.0 - - - +
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Residues in contact with ASP 217 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143A LEU* 3.9 14.5 - - + +
147A HIS* 2.8 29.3 + - + +
152A ILE* 3.6 10.2 - - - +
153A HIS* 2.9 30.3 + - - +
154A ARG* 2.9 29.6 + - - -
155A ASP 4.8 0.2 + - - -
156A LEU* 3.9 8.9 - - + +
213A ASP 4.7 0.2 + - - -
214A TYR 3.0 10.4 + - - +
216A ALA* 1.3 79.4 - - - +
218A VAL* 1.3 56.1 + - - +
220A SER* 3.4 8.1 + - - -
221A LEU* 2.9 27.2 + - - +
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Residues in contact with VAL 218 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143A LEU* 5.3 0.9 - - + -
147A HIS* 4.6 0.2 - - + -
214A TYR 4.6 0.9 - - - +
215A LYS* 2.9 13.7 + - - +
217A ASP* 1.3 72.9 - - - +
219A TRP* 1.3 65.9 + - - +
221A LEU* 3.4 9.7 + - + +
222A GLY 3.2 16.1 + - - -
271A LYS 4.5 0.4 - - - +
272A CYS* 3.4 28.1 - - + +
280A ARG* 3.8 7.2 - - - -
281A TRP 3.4 26.0 - - - +
283A THR* 3.9 21.3 - - + +
286A LEU* 3.7 16.2 - - + -
1309A EDO 3.5 24.9 - - - +
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Residues in contact with TRP 219 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
215A LYS 3.2 5.5 + - - -
216A ALA* 3.3 8.3 + - - +
218A VAL* 1.3 77.4 - - - +
220A SER* 1.3 69.1 + - - +
222A GLY* 3.0 13.3 + - - -
223A ILE* 3.2 29.4 + - + +
247A ILE* 4.6 24.2 - - + +
252A PRO* 3.8 26.0 - - + -
253A PRO* 4.1 16.4 - - + -
272A CYS 3.7 9.3 + - - -
273A LEU* 3.5 27.1 - - + +
274A GLU 3.6 28.0 - - - -
275A LYS* 4.1 16.8 - - + -
280A ARG* 3.7 27.6 - - - +
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Residues in contact with SER 220 (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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154A ARG 5.6 3.9 + - - -
156A LEU* 3.8 31.3 + - - +
216A ALA 3.2 12.6 + - - -
217A ASP* 3.7 10.6 + - - -
219A TRP* 1.3 84.0 - - - +
221A LEU* 1.3 52.6 + - - +
223A ILE* 3.3 7.1 + - - +
224A THR* 2.7 37.9 + - - -
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Residues in contact with LEU 221 (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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136A CYS* 4.5 7.2 - - - +
139A THR* 4.1 29.8 - - + -
140A LEU* 4.0 28.9 - - + -
143A LEU* 4.3 7.4 - - + -
156A LEU* 3.7 13.1 - - + +
161A ILE* 6.0 0.4 - - + -
217A ASP 2.9 14.0 + - - +
218A VAL* 3.4 10.8 - - + +
219A TRP 3.2 0.2 - - - -
220A SER* 1.3 75.8 - - - +
222A GLY* 1.3 56.9 + - - +
224A THR* 3.2 8.4 + - + -
225A LEU* 2.9 53.9 + - + +
228A MET* 6.1 0.7 - - + -
268A PHE* 4.1 20.6 - - + -
272A CYS* 4.4 6.1 - - - -
286A LEU* 4.5 4.5 - - + -
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Residues in contact with GLY 222 (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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218A VAL 3.2 4.2 + - - -
219A TRP 3.0 8.6 + - - -
221A LEU* 1.3 78.3 - - - +
223A ILE* 1.3 60.7 + - - +
225A LEU* 3.3 3.7 + - - -
226A ILE* 3.2 13.5 + - - +
269A LEU* 3.2 33.8 - - - +
272A CYS* 3.9 11.6 - - - +
273A LEU* 3.9 14.1 - - - -
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Residues in contact with ILE 223 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
219A TRP* 3.2 36.3 + - + +
220A SER* 3.7 8.3 - - - +
221A LEU 3.3 0.2 - - - -
222A GLY* 1.3 74.7 - - - +
224A THR* 1.3 59.5 + - - +
226A ILE* 3.2 6.6 + - - +
227A GLU* 2.8 26.3 + - - +
233A PRO* 4.1 13.0 - - + -
234A PRO* 4.0 20.5 - - + +
253A PRO* 3.6 25.4 - - + -
273A LEU* 3.6 20.9 - - + -
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Residues in contact with THR 224 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
156A LEU* 3.8 4.5 + - + +
157A LYS* 3.3 24.3 + - - +
158A ALA* 3.4 28.9 - - + +
161A ILE* 3.7 21.5 - - + -
220A SER 2.7 23.3 + - - -
221A LEU* 3.2 10.7 + - + -
223A ILE* 1.3 78.0 - - - +
225A LEU* 1.3 55.9 + - - +
227A GLU* 3.3 10.0 + - - +
228A MET* 2.9 34.8 + - + +
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Residues in contact with LEU 225 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132A ILE* 3.8 9.1 - - + +
136A CYS* 3.6 28.7 - - + -
221A LEU* 2.9 27.7 + - + +
222A GLY* 3.6 7.9 - - - +
223A ILE 3.3 0.2 - - - -
224A THR* 1.3 74.3 - - - +
226A ILE* 1.3 59.5 + - - +
228A MET* 3.3 27.0 + - + +
229A ALA* 3.0 27.0 + - - +
265A PHE* 3.8 21.5 - - + -
268A PHE* 3.6 37.2 - - + -
269A LEU* 3.9 18.2 - - + -
291A PHE* 4.5 2.0 - - + -
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Residues in contact with ILE 226 (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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222A GLY 3.2 10.8 + - - +
223A ILE* 3.2 7.6 + - - +
225A LEU* 1.3 74.3 - - - +
227A GLU* 1.3 57.7 + - - +
229A ALA* 3.0 8.7 + - - +
230A GLU* 2.9 56.8 + - + +
232A GLU 4.6 0.7 - - - +
234A PRO* 3.7 23.1 - - + -
253A PRO* 3.9 29.2 - - + +
254A THR* 4.0 13.2 - - - +
255A LEU* 4.4 4.0 - - + -
269A LEU* 3.9 18.6 - - + -
273A LEU* 3.7 25.8 - - + -
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Residues in contact with GLU 227 (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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117A ASP* 4.3 11.1 - - - +
120A MET* 3.6 1.7 - - + +
157A LYS* 4.0 9.6 - - - +
158A ALA* 3.0 42.5 + - + +
159A GLY 4.7 1.2 + - - -
223A ILE* 2.8 20.4 + - - +
224A THR* 3.4 10.9 - - - +
225A LEU 3.3 0.2 - - - -
226A ILE* 1.3 72.2 - - - +
228A MET* 1.3 56.1 + - - +
231A ILE* 2.8 48.7 + - - +
232A GLU 3.7 10.1 - - - -
233A PRO* 4.0 29.8 - - + +
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Residues in contact with MET 228 (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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116A VAL* 3.8 29.8 - - + -
120A MET* 3.6 7.4 - - - +
126A PRO* 3.2 4.9 - - - +
127A LEU* 2.8 42.5 + - + -
132A ILE* 4.0 20.9 - - + -
135A VAL* 3.6 34.5 - - + -
136A CYS 4.9 0.2 - - - +
158A ALA* 4.3 8.5 - - + -
161A ILE* 4.8 1.6 - - + -
221A LEU* 6.1 0.4 - - + -
224A THR* 2.9 31.6 + - + +
225A LEU* 3.5 34.8 - - + +
226A ILE 3.3 0.2 - - - -
227A GLU* 1.3 76.2 - - - +
229A ALA* 1.3 57.0 + - - +
230A GLU 3.4 0.2 - - - -
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Residues in contact with ALA 229 (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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126A PRO* 3.0 20.6 - - - +
132A ILE* 3.8 11.4 - - + +
225A LEU 3.0 12.6 + - - +
226A ILE 3.0 5.8 + - - +
228A MET* 1.3 76.3 - - - +
230A GLU* 1.3 62.5 + - + +
255A LEU* 3.4 32.3 - - + -
261A TRP* 3.6 28.7 - - + -
265A PHE* 4.2 2.5 - - + -
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Residues in contact with GLU 230 (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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126A PRO* 4.2 1.8 - - - -
226A ILE* 2.9 31.8 + - - +
227A GLU 3.7 0.2 - - - -
229A ALA* 1.3 86.9 - - + +
231A ILE* 1.3 63.7 + - - +
232A GLU* 2.9 26.8 + - - +
234A PRO* 5.6 1.9 - - - +
236A HIS* 5.6 5.0 - - + -
254A THR 5.1 0.7 - - - +
255A LEU* 3.4 14.2 - - - +
256A ALA* 2.7 44.4 + - - +
257A GLN 4.4 1.2 + - - -
261A TRP* 5.0 2.9 + - + +
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Residues in contact with ILE 231 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
117A ASP* 5.4 2.1 - - - +
120A MET* 3.6 29.8 - - + +
121A LEU* 4.0 28.0 - - + -
124A GLU* 4.0 7.4 - - - +
125A ARG* 3.7 29.8 - - - +
126A PRO* 3.5 24.4 - - + +
227A GLU* 2.8 23.2 + - - +
229A ALA 3.8 1.0 - - - -
230A GLU* 1.3 78.7 - - - +
232A GLU* 1.3 64.2 + - + +
233A PRO* 4.7 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
------------------------------------------------------------
Atomic class I II III IV V VI VII VIII
------------------------------------------------------------
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