Contacts of the helix formed by residues 321 - 334 (chain C) in PDB entry 2UZ1
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 321 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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152C ALA* 3.6 17.4 - - + +
154C ARG* 3.0 31.5 + - - -
186C GLY* 3.6 25.2 + - - -
187C ALA* 3.0 22.4 + - + +
214C GLU* 4.1 1.2 - - - +
218C THR* 4.0 8.0 - - - +
301C VAL* 5.0 0.2 - - - -
303C PRO* 4.9 0.2 - - - -
320C ALA* 1.3 72.1 - - - +
322C VAL* 1.3 62.9 + - - +
323C GLY* 3.1 8.6 + - - -
324C GLY 2.9 22.1 + - - +
325C THR* 2.8 31.8 + - - -
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Residues in contact with VAL 322 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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214C GLU* 3.7 23.0 - - + +
215C ALA* 3.7 32.1 - - + +
276C LEU* 3.7 20.6 - - + +
277C GLY* 3.5 32.8 - - - +
301C VAL* 4.1 11.9 - - + +
303C PRO* 4.7 7.3 - - + +
320C ALA 3.7 0.2 + - - -
321C ASP* 1.3 77.5 + - - +
323C GLY* 1.3 58.8 + - - +
325C THR* 3.2 6.4 + - - -
326C ILE* 2.9 34.1 + - + +
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Residues in contact with GLY 323 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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214C GLU 4.7 0.2 + - - -
218C THR* 3.2 25.8 + - - +
220C ARG* 3.6 19.3 - - - +
321C ASP* 3.1 7.9 + - - -
322C VAL* 1.3 77.8 - - - +
324C GLY* 1.3 56.3 + - - +
326C ILE* 3.2 7.5 + - - +
327C GLU* 2.9 32.6 + - - +
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Residues in contact with GLY 324 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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190B ASP* 5.8 1.6 - - - -
185C HIS* 6.2 0.4 - - - -
186C GLY 3.7 25.7 - - - +
187C ALA 4.1 2.2 - - - -
188C ARG* 3.8 14.3 + - - +
321C ASP* 2.9 15.3 + - - -
322C VAL 3.4 0.2 - - - -
323C GLY* 1.3 74.4 - - - +
325C THR* 1.3 56.4 + - - +
327C GLU* 3.4 9.2 + - - +
328C ALA* 2.9 28.9 + - - +
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Residues in contact with THR 325 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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187C ALA 4.4 0.4 + - - -
189C PRO* 3.3 34.9 - - + +
194C LEU* 4.7 1.8 - - + -
274C LEU* 6.2 0.2 - - + -
276C LEU* 4.3 5.4 - - + -
301C VAL* 3.5 27.7 - - + +
320C ALA* 3.4 10.0 - - - +
321C ASP 2.8 21.3 + - - -
322C VAL* 3.5 5.2 - - - -
324C GLY* 1.3 75.0 - - - +
326C ILE* 1.3 60.2 + - - +
328C ALA* 3.2 2.0 + - - +
329C LEU* 2.8 49.3 + - + +
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Residues in contact with ILE 326 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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211C LEU* 4.6 2.2 - - + -
215C ALA* 4.5 14.1 - - + +
220C ARG* 4.0 10.5 - - + +
223C ALA* 3.9 5.4 - - + +
224C LEU* 3.5 55.6 - - + +
227C PHE* 4.9 3.9 - - + +
244C MET* 5.3 3.8 - - + -
276C LEU* 4.1 23.6 - - + -
322C VAL* 2.9 36.2 + - + +
323C GLY* 3.2 10.5 + - - +
325C THR* 1.3 71.7 - - - +
327C GLU* 1.3 58.4 + - - +
329C LEU* 3.3 8.8 + - + +
330C ALA* 2.9 28.8 + - - +
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Residues in contact with GLU 327 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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190B ASP* 5.1 4.9 - - - +
188C ARG* 3.7 15.7 - - - +
220C ARG* 3.6 34.1 - - - +
223C ALA* 3.4 26.0 - - - -
323C GLY 2.9 20.0 + - - +
324C GLY* 3.6 9.0 - - - +
326C ILE* 1.3 75.0 - - - +
328C ALA* 1.3 58.3 + - - +
330C ALA* 3.4 2.6 + - - +
331C GLN* 2.9 29.5 + - - +
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Residues in contact with ALA 328 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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188C ARG* 3.7 38.8 - - + +
189C PRO* 4.2 0.9 - - + +
194C LEU* 3.4 32.5 - - + +
324C GLY 2.9 16.8 + - - +
325C THR* 3.2 7.2 + - - +
327C GLU* 1.3 75.3 - - - +
329C LEU* 1.3 57.8 + - - +
331C GLN* 3.3 3.4 + - - +
332C ALA 3.0 23.6 + - - -
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Residues in contact with LEU 329 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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194C LEU* 3.8 23.6 - - + -
197C ALA* 5.3 7.9 - - + -
198C LEU* 3.8 28.9 - - + -
201C LEU* 6.0 0.2 - - + -
227C PHE* 3.8 37.7 - - + -
274C LEU* 4.2 17.9 - - + -
276C LEU* 4.5 9.2 - - + -
325C THR* 2.8 39.2 + - + +
326C ILE* 3.7 7.4 - - - +
328C ALA* 1.3 69.3 - - - +
330C ALA* 1.3 60.9 + - - +
332C ALA* 3.4 1.5 + - - +
333C THR* 2.9 36.5 + - - +
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Residues in contact with ALA 330 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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223C ALA* 3.4 38.4 - - + +
226C ALA* 4.3 9.9 - - + +
227C PHE* 4.1 9.3 - - - +
326C ILE 2.9 14.3 + - - +
327C GLU 3.6 4.7 - - - +
329C LEU* 1.3 77.0 - - - +
331C GLN* 1.3 60.6 - - - +
333C THR* 3.5 6.9 + - - -
334C ALA* 3.0 25.9 + - - +
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Residues in contact with GLN 331 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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191B PRO* 3.9 17.3 - - - +
188C ARG* 3.0 25.7 + - - +
327C GLU 2.9 16.5 + - - +
328C ALA* 3.6 5.6 - - - +
330C ALA* 1.3 75.2 - - - +
332C ALA* 1.3 63.0 + - - +
334C ALA* 3.3 15.3 + - - +
335C GLN* 3.0 32.7 + - - +
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Residues in contact with ALA 332 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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194C LEU* 3.8 10.5 - - + -
195C ASP* 5.9 1.8 - - - +
198C LEU* 3.6 28.7 - - + -
328C ALA 3.0 16.2 + - - +
329C LEU 3.8 1.8 - - - +
330C ALA 3.3 0.2 - - - -
331C GLN* 1.3 77.1 - - - +
333C THR* 1.3 57.4 + - - +
335C GLN* 3.2 24.3 + - - +
336C ASP* 3.4 15.8 + - - +
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Residues in contact with THR 333 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
198C LEU* 3.7 16.8 - - + -
226C ALA 4.7 0.2 + - - -
227C PHE* 3.7 13.6 - - + -
230C ALA* 3.8 31.4 - - - +
231C THR* 3.9 9.9 - - + -
329C LEU 2.9 22.2 + - - +
330C ALA* 3.5 7.4 + - - -
332C ALA* 1.3 73.9 - - - +
334C ALA* 1.3 57.3 + - - +
335C GLN 3.2 3.8 - - - -
336C ASP* 3.3 20.0 + - - +
339C TRP* 3.6 32.0 + - + +
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Residues in contact with ALA 334 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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226C ALA* 6.3 2.2 - - + -
330C ALA 3.0 17.4 + - - +
331C GLN* 3.6 9.0 - - - +
332C ALA 3.1 1.0 - - - -
333C THR* 1.3 78.0 - - - +
335C GLN* 1.3 59.2 + - + +
336C ASP 3.9 1.1 - - - -
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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