Contacts of the helix formed by residues 216 - 233 (chain A) in PDB entry 1XTG
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 ASP 216 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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97A ARG* 3.0 31.2 + - - -
214A ALA 3.6 2.6 + - - -
215A THR* 1.3 75.5 - - - +
217A PRO* 1.3 69.4 - - - +
218A ALA* 2.9 11.0 + - - +
219A VAL* 3.0 34.8 + - + +
220A THR 3.5 4.2 + - - -
360A VAL* 3.6 18.4 - - + +
361A LEU 5.0 1.4 + - - -
362A ASN* 5.3 0.6 + - - -
384A TYR* 2.5 29.3 + - - -
389A GLY* 4.0 6.6 - - - -
390A PHE* 4.6 8.7 + - + -
404A GLN* 4.1 9.8 + - - +
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Residues in contact with PRO 217 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94A LEU* 3.8 25.1 - - + -
188A PHE* 3.9 7.6 - - + -
190A PRO* 5.0 4.9 - - + +
192A PHE 4.9 2.9 - - - +
193A THR* 4.5 5.8 - - - +
215A THR 3.4 8.4 - - - +
216A ASP* 1.3 91.2 - - - +
218A ALA* 1.3 54.2 + - - +
220A THR* 3.2 11.7 + - - +
221A LEU* 3.0 28.8 + - - +
376A ILE* 3.5 31.6 - - + -
378A ILE* 4.4 8.3 - - + -
384A TYR* 3.9 4.7 - - + -
390A PHE* 3.7 14.6 - - + -
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Residues in contact with ALA 218 (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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94A LEU* 3.9 10.9 - - + +
97A ARG* 3.7 26.7 - - + +
98A ILE* 3.9 10.9 - - + +
216A ASP* 2.9 15.9 + - - +
217A PRO* 1.3 80.0 - - - +
219A VAL* 1.3 55.2 + - - +
221A LEU* 3.6 3.8 + - - +
222A ALA* 3.0 27.2 + - - +
358A PHE* 4.0 14.4 - - + -
384A TYR* 3.5 10.7 + - - +
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Residues in contact with VAL 219 (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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215A THR* 4.8 2.9 - - + -
216A ASP* 3.0 17.1 + - + +
218A ALA* 1.3 74.3 - - - +
220A THR* 1.3 61.7 + - - +
222A ALA* 3.3 6.4 + - - +
223A HIS* 2.9 28.1 + - - +
351A GLU* 3.6 33.0 - - + +
354A PHE* 5.1 2.2 - - + -
355A VAL* 4.3 12.3 - - + +
358A PHE* 4.0 17.9 - - + -
360A VAL* 4.0 26.7 - - + -
362A ASN* 3.7 20.0 - - - +
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Residues in contact with THR 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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163A PHE* 3.4 39.5 - - + -
188A PHE* 3.9 5.6 - - + -
193A THR* 4.9 1.4 + - - -
194A PHE* 4.3 14.0 - - + -
215A THR* 3.5 23.9 - - - +
216A ASP 3.8 1.6 + - - -
217A PRO* 3.2 13.1 + - - +
219A VAL* 1.3 79.6 - - - +
221A LEU* 1.3 61.7 + - - +
223A HIS* 3.3 20.4 - - + +
224A GLN* 3.3 12.7 + - + +
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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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91A VAL* 4.7 2.5 - - + +
94A LEU* 3.8 23.1 - - + -
95A PHE* 4.3 22.4 - - + -
98A ILE* 3.8 20.9 - - + -
153A ILE* 4.5 19.3 - - + -
186A ILE* 5.0 6.5 - - + -
188A PHE* 3.8 38.3 - - + -
217A PRO 3.0 16.0 + - - +
218A ALA* 4.0 5.2 - - - +
220A THR* 1.3 74.4 - - - +
222A ALA* 1.3 65.6 + - - +
224A GLN* 3.1 3.3 + - + -
225A LEU* 2.9 32.5 + - + +
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Residues in contact with ALA 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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98A ILE* 3.9 13.4 - - + +
107A LEU* 4.3 1.5 - - - +
218A ALA 3.0 19.6 + - - +
219A VAL* 3.5 7.0 - - - +
221A LEU* 1.3 76.4 - - - +
223A HIS* 1.3 64.5 + - - +
225A LEU* 3.1 7.5 + - - +
226A ILE* 2.9 29.7 + - - +
351A GLU* 6.2 1.1 - - - -
354A PHE* 3.9 39.5 - - + -
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Residues in contact with HIS 223 (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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219A VAL 2.9 13.4 + - - +
220A THR* 3.3 15.0 - - + +
221A LEU 3.1 0.2 - - - -
222A ALA* 1.3 78.8 - - - +
224A GLN* 1.3 77.3 + - - +
226A ILE* 3.3 18.4 + - - +
227A HIS* 3.4 13.0 + - - -
262A GLU* 3.5 10.8 + - - -
265A THR* 3.7 15.7 - - + +
266A PHE* 3.7 21.1 - + - -
351A GLU* 2.6 34.2 + - - +
426A ZN 2.2 37.1 - - - -
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Residues in contact with GLN 224 (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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163A PHE* 3.4 27.5 - - + +
164A GLU* 3.3 33.6 - - - +
165A CYS* 3.4 11.1 - - - +
186A ILE* 3.7 34.2 - - + +
188A PHE* 5.2 3.1 - - + -
220A THR* 3.3 13.8 + - - +
221A LEU* 3.1 8.6 + - - +
223A HIS* 1.3 92.8 - - - +
225A LEU* 1.3 57.8 + - - +
227A HIS* 3.1 16.2 + - - +
228A ALA* 3.0 25.6 + - - +
196B ASN 5.0 3.1 + - - +
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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
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95A PHE* 4.4 13.5 - - + -
98A ILE* 3.5 31.6 - - + -
107A LEU* 3.8 16.6 - - + +
108A LEU* 4.0 21.3 - - + -
111A ILE* 3.5 17.4 - - + +
151A LEU* 3.5 32.1 - - + -
153A ILE* 4.7 0.2 - - + -
186A ILE* 3.9 10.8 - - + -
221A LEU* 2.9 22.8 + - + +
222A ALA* 3.1 8.0 + - - +
224A GLN* 1.3 76.9 - - - +
226A ILE* 1.3 57.8 + - - +
228A ALA* 3.2 6.1 + - - +
229A GLY* 2.8 24.3 + - - -
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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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107A LEU* 4.2 18.8 - - + -
222A ALA 2.9 21.7 + - - +
223A HIS* 3.5 10.3 - - - +
224A GLN 3.2 0.2 - - - -
225A LEU* 1.3 72.3 - - - +
227A HIS* 1.3 66.1 + - - +
229A GLY* 3.1 2.6 + - - -
230A HIS* 3.1 45.6 + - + +
265A THR* 3.6 15.0 - - + +
349A TYR* 3.3 24.7 - - + +
350A THR* 3.4 40.2 - - - +
351A GLU* 3.5 6.5 - - - +
354A PHE* 4.0 10.1 - - + -
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Residues in contact with HIS 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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165A CYS* 3.9 13.0 - - + -
223A HIS* 3.4 22.1 + + - -
224A GLN* 3.1 20.3 + - - +
226A ILE* 1.3 76.8 - - - +
228A ALA* 1.3 66.0 + - - +
230A HIS* 3.1 8.0 + - - +
231A ARG* 2.9 31.3 + - - +
261A GLU* 3.1 26.4 + - - -
262A GLU* 3.0 9.8 + - - -
265A THR* 3.2 20.2 + - + +
426A ZN 2.2 36.9 - - - -
196B ASN* 3.2 29.6 + - + +
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Residues in contact with ALA 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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111A ILE* 4.7 4.7 - - + -
151A LEU* 4.3 7.4 - - + -
165A CYS* 3.6 18.8 - - - -
184A GLN* 3.9 15.7 - - + -
186A ILE* 4.2 8.1 - - + -
224A GLN 3.0 12.9 + - - +
225A LEU* 3.4 13.2 - - - +
227A HIS* 1.3 75.3 - - - +
229A GLY* 1.3 58.4 + - - +
231A ARG* 3.2 1.2 + - - +
232A LEU* 2.8 43.1 + - + +
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Residues in contact with GLY 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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107A LEU* 5.1 5.2 - - - -
110A SER* 6.4 0.9 - - - -
111A ILE* 4.3 14.1 - - - +
225A LEU 2.8 14.1 + - - -
226A ILE* 3.1 5.7 + - - -
228A ALA* 1.3 78.6 - - - +
230A HIS* 1.3 63.9 + - - +
232A LEU* 3.3 3.0 + - - -
233A TYR* 3.2 33.2 + - - +
345A LEU* 4.8 9.1 - - - +
349A TYR* 6.3 0.2 - - - -
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Residues in contact with HIS 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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226A ILE* 3.1 26.2 + - + +
227A HIS* 3.5 5.3 - - - +
229A GLY* 1.3 75.7 - - - +
231A ARG* 1.3 58.6 + - - +
233A TYR 3.4 0.9 + - - -
234A GLY 3.1 6.4 + - - -
235A ILE* 2.9 36.7 + - + +
236A ALA* 4.2 7.4 - - + +
261A GLU* 3.2 30.8 + - - +
264A ARG* 3.3 38.5 - - + +
265A THR* 3.4 19.8 + - - -
345A LEU* 2.8 36.1 + - + -
346A THR* 4.0 4.8 - - + -
349A TYR 4.6 0.4 + - - -
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Residues in contact with ARG 231 (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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165A CYS* 3.4 22.8 + - - -
166A LYS* 3.6 3.2 - - - +
167A SER* 3.1 26.9 + - - +
176A THR* 3.9 26.9 + - + +
181A GLY* 3.2 17.0 - - - -
182A SER 3.6 3.6 + - - -
184A GLN* 2.6 37.8 + - - +
227A HIS* 2.9 26.7 + - - +
228A ALA 3.8 0.9 - - - +
230A HIS* 1.3 75.9 - - - +
232A LEU* 1.3 62.7 + - - +
234A GLY* 3.3 5.3 + - - +
236A ALA* 3.9 21.2 - - + +
261A GLU* 5.6 1.3 - - - +
193B ASP* 3.1 26.1 + - - +
194B GLU 3.2 18.2 + - - -
195B ALA* 4.0 3.0 - - - +
196B ASN* 4.2 12.0 + - - +
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Residues in contact with LEU 232 (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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111A ILE* 3.8 43.7 - - + +
114A GLY* 3.3 22.0 - - - +
116A PRO* 4.2 3.8 - - + -
150A ASN* 3.5 29.4 - - + +
151A LEU* 5.3 0.2 - - + -
181A GLY* 3.0 12.5 - - - -
182A SER 3.3 23.6 - - - +
184A GLN* 4.0 5.8 - - + -
228A ALA* 2.8 32.0 + - + +
229A GLY 3.3 3.8 + - - +
231A ARG* 1.3 73.7 - - - +
233A TYR* 1.3 64.4 + - + +
234A GLY 3.2 0.4 - - - -
320A LYS* 3.0 23.4 + - - -
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Residues in contact with TYR 233 (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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110A SER* 2.7 40.1 + - - -
111A ILE* 5.1 0.9 - - - -
113A ARG* 3.5 13.7 - - - +
114A GLY* 3.5 18.3 + - - -
179A GLY* 3.2 20.6 - - - +
229A GLY* 3.2 22.2 + - - +
230A HIS 4.2 2.5 - - - +
231A ARG 3.3 0.2 - - - -
232A LEU* 1.3 83.6 - - + +
234A GLY* 1.3 63.6 + - - +
235A ILE* 3.3 15.0 + - + +
290A PHE* 3.8 14.2 - + + -
320A LYS* 3.5 41.2 + - + +
321A TYR* 4.8 1.1 - + - -
341A LEU* 4.7 13.2 - - + -
345A LEU* 3.8 35.9 - - + -
167B MET* 5.0 3.4 - - - -
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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