Contacts of the helix formed by residues 327 - 342 (chain C) in PDB entry 2CAN
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 PRO 327 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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104C GLN* 4.1 7.2 - - - +
108C LEU* 4.0 28.3 - - + +
109C THR 3.1 20.4 - - - +
110C LEU* 4.1 5.6 - - - +
111C THR* 4.6 4.7 - - - +
117C ASN* 3.4 33.8 - - + +
119C VAL* 3.8 26.8 - - + +
325C GLY 3.7 0.4 - - - -
326C ASN* 1.4 82.9 - - + +
328C LEU* 1.3 62.0 + - - +
330C CYS* 3.4 4.5 + - + +
331C ARG* 3.2 27.2 + - - +
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Residues in contact with LEU 328 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101C LEU* 3.5 39.9 - - + +
104C GLN* 3.8 19.2 - - + +
105C VAL* 3.5 30.7 - - + +
108C LEU 4.6 0.4 - - - +
109C THR* 3.8 28.0 + - + +
299C TYR* 4.0 19.3 - - + +
326C ASN* 3.2 8.4 + - - +
327C PRO* 1.3 81.4 - - - +
329C GLY* 1.3 63.6 + - - +
331C ARG* 3.2 12.6 + - - +
332C VAL* 3.3 17.9 + - - +
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Residues in contact with GLY 329 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
299C TYR* 3.8 25.9 - - - -
301C VAL* 3.7 12.8 - - - +
326C ASN* 2.8 21.6 + - - -
328C LEU* 1.3 74.1 - - - +
330C CYS* 1.3 56.0 + - - +
332C VAL* 3.2 7.6 - - - +
333C ALA* 3.0 28.8 + - - +
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Residues in contact with CYS 330 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
119C VAL* 3.6 21.1 - - + -
120C LEU* 3.6 37.9 - - - -
123C TYR* 3.8 22.4 - - + -
301C VAL* 6.0 0.7 - - - -
325C GLY* 3.8 10.1 - - - -
326C ASN 3.1 16.4 + - - +
327C PRO 3.6 3.8 - - - +
328C LEU 3.2 0.4 - - - -
329C GLY* 1.3 76.0 - - - +
331C ARG* 1.3 64.0 + - - +
333C ALA* 3.5 6.1 + - - +
334C ILE* 3.1 30.6 + - - +
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Residues in contact with ARG 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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100C ALA* 3.9 18.3 - - + +
104C GLN* 3.1 41.6 + - + +
107C LYS* 6.1 1.0 - - - +
118C ASN* 4.0 11.9 + - - -
119C VAL* 3.5 30.0 - - + +
122C GLU* 3.2 36.8 + - - -
327C PRO 3.2 12.8 + - - +
328C LEU 3.2 7.6 + - - +
330C CYS* 1.3 74.7 - - - +
332C VAL* 1.3 65.2 + - - +
334C ILE* 3.4 11.5 + - - +
335C ALA* 3.1 22.5 + - - +
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Residues in contact with VAL 332 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
97C ILE* 4.0 18.0 - - + +
100C ALA* 4.5 2.0 - - - -
101C LEU* 3.6 44.2 - - + +
295C SER* 3.8 17.9 - - - +
298C LEU* 5.0 2.9 - - + -
299C TYR* 3.8 25.6 - - + -
301C VAL* 4.4 0.2 - - + -
328C LEU 3.3 11.6 + - - +
329C GLY* 3.2 15.3 - - - +
331C ARG* 1.3 76.0 - - - +
333C ALA* 1.3 55.9 + - - +
335C ALA* 3.3 6.2 + - - +
336C ALA* 2.7 38.5 + - - +
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Residues in contact with ALA 333 (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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123C TYR* 3.5 29.2 - - + -
294C LEU* 3.2 21.7 - - + +
301C VAL* 4.3 11.0 - - + -
329C GLY 3.0 19.3 + - - +
330C CYS* 3.7 3.8 - - - +
332C VAL* 1.3 78.2 - - - +
334C ILE* 1.3 62.4 + - - +
336C ALA* 3.3 1.7 + - - +
337C LEU* 2.9 31.2 + - - +
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Residues in contact with ILE 334 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
119C VAL* 4.8 2.9 - - + -
122C GLU* 4.2 25.4 - - + +
123C TYR* 3.8 39.0 - - + +
126C TYR* 3.8 24.8 - - + -
330C CYS 3.1 21.0 + - - +
331C ARG* 3.7 14.6 - - - +
333C ALA* 1.3 75.4 - - - +
335C ALA* 1.3 63.6 + - - +
337C LEU* 3.4 2.9 + - - +
338C GLU* 3.1 47.0 + - - +
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Residues in contact with ALA 335 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
96C LYS* 4.0 11.0 - - + +
97C ILE* 4.0 18.6 - - + -
100C ALA* 3.7 21.3 - - + -
331C ARG 3.1 11.2 + - - +
332C VAL 3.5 6.7 - - - +
334C ILE* 1.3 80.3 - - - +
336C ALA* 1.3 61.6 + - - +
338C GLU* 3.2 14.6 + - - +
339C VAL* 3.0 27.0 + - - +
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Residues in contact with ALA 336 (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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90C GLN* 2.9 34.6 + - - +
97C ILE* 3.7 13.2 - - + +
294C LEU* 3.4 22.2 - - - +
295C SER 3.7 16.6 - - - -
332C VAL 2.7 21.4 + - - +
335C ALA* 1.3 72.7 - - - +
337C LEU* 1.3 61.6 + - - +
339C VAL* 3.7 1.8 + - - +
340C LEU* 3.4 16.1 + - - +
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Residues in contact with LEU 337 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
123C TYR* 4.4 7.0 - - + -
126C TYR* 3.6 36.5 + - + +
127C ILE* 4.3 17.5 - - + -
130C LEU* 4.1 18.4 - - + -
131C PHE* 4.4 4.0 - - + -
269C LEU* 3.9 23.1 - - + -
275C TRP* 3.8 8.2 - - + -
294C LEU* 3.9 29.4 - - + +
333C ALA 2.9 23.3 + - - +
336C ALA* 1.3 74.3 - - - +
338C GLU* 1.3 65.5 + - - +
340C LEU* 3.3 9.7 + - + +
341C GLU* 3.2 21.1 + - - +
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Residues in contact with GLU 338 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
96C LYS* 3.1 34.6 + - - +
126C TYR* 3.6 19.0 - - + +
334C ILE* 3.1 32.2 + - - +
335C ALA* 3.2 11.8 + - - +
337C LEU* 1.3 73.8 - - - +
339C VAL* 1.3 58.5 + - - +
341C GLU* 3.1 5.0 + - - -
342C GLU* 2.8 46.3 + - + +
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Residues in contact with VAL 339 (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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90C GLN* 3.7 21.3 - - + -
94C HIS* 3.5 48.2 - - + +
96C LYS* 3.9 15.5 - - + -
97C ILE* 4.0 9.6 - - + -
335C ALA 3.0 15.2 + - - +
336C ALA 3.8 7.4 - - - +
338C GLU* 1.3 76.6 - - - +
340C LEU* 1.3 61.9 + - - +
342C GLU* 4.5 5.8 - - - -
343C GLU* 3.1 37.9 + - - +
345C LEU* 4.2 4.6 - - + +
419C VAL* 5.6 0.2 - - + -
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Residues in contact with LEU 340 (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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89C ASN* 4.4 8.1 - - + -
90C GLN* 3.6 22.0 - - + +
269C LEU* 3.7 48.2 - - + +
270C ALA* 4.3 10.7 - - + +
275C TRP* 3.8 22.2 - - + -
293C ALA* 4.8 0.9 - - + +
336C ALA 3.4 16.2 - - - +
337C LEU* 3.3 11.6 + - + +
338C GLU 3.2 0.6 - - - -
339C VAL* 1.3 76.7 - - - +
341C GLU* 1.3 61.1 - - - +
344C ASN* 3.8 1.2 - - - -
345C LEU* 3.3 48.8 + - + +
346C ALA 4.7 2.1 + - - -
418C LEU* 4.5 0.2 - - + -
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Residues in contact with GLU 341 (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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126C TYR* 3.7 18.9 + - - -
130C LEU* 4.1 17.5 - - - +
275C TRP* 3.9 23.2 + - + +
337C LEU 3.2 8.5 + - - +
338C GLU* 3.1 8.2 + - - +
340C LEU* 1.3 77.1 - - - +
342C GLU* 1.3 71.1 + - + +
344C ASN* 3.0 23.7 + - - -
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Residues in contact with GLU 342 (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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96C LYS* 2.9 39.4 + - - +
338C GLU* 2.8 31.7 + - + +
339C VAL* 4.4 2.6 + - - +
341C GLU* 1.3 78.1 - - + +
343C GLU* 1.3 63.6 + - + +
344C ASN* 3.2 14.2 + - - +
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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
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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