Contacts of the helix formed by residues 311 - 329 (chain C) in PDB entry 7CE1
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 311 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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176C HIS* 5.1 1.7 + - - -
178C PHE* 5.4 0.4 - - - -
294C SER 5.3 0.7 - - - -
309C ASN* 3.7 8.6 + - + +
310C GLU* 1.3 71.0 - - - +
312C ILE* 1.3 65.3 + - - +
313C LYS* 3.2 17.5 + - - +
314C LEU* 3.2 32.0 + - + +
315C ALA* 3.3 18.4 + - - +
317C ARG* 4.8 5.2 + - - -
339C SER* 5.5 7.3 + - - +
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Residues in contact with ILE 312 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
92C GLY 4.3 8.5 - - - +
93C PHE 3.9 10.3 - - - +
94C THR* 5.0 1.3 - - - -
96C GLN* 4.4 8.3 - - + -
97C MET* 3.5 39.0 - - + +
164C HIS* 4.6 15.7 - - + +
294C SER* 3.7 34.5 + - - +
310C GLU* 3.1 34.9 + - + +
311C ASP* 1.3 71.5 + - - +
313C LYS* 1.3 60.0 + - - +
314C LEU 3.2 0.7 - - - -
315C ALA* 3.2 6.9 + - + +
316C GLY 2.9 22.5 + - - -
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Residues in contact with LYS 313 (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 GLN* 3.4 48.9 + - + +
99C PHE* 4.4 12.6 - - + -
100C GLY* 3.4 10.4 - - - -
103C GLU* 2.6 40.3 + - - -
311C ASP* 3.2 7.7 + - - +
312C ILE* 1.3 76.4 - - - +
314C LEU* 1.3 60.8 + - - +
316C GLY 3.4 1.0 + - - +
317C ARG* 3.1 42.5 + - - +
86D VAL* 4.5 9.9 - - - -
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Residues in contact with LEU 314 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
176C HIS* 4.5 7.6 - - + +
311C ASP* 3.2 34.3 + - + +
312C ILE 3.2 0.4 - - - -
313C LYS* 1.3 75.9 - - - +
315C ALA* 1.3 59.1 + - - +
317C ARG* 3.1 27.7 + - - +
318C GLU* 2.8 54.3 + - + +
321C LYS* 5.7 0.2 - - - +
339C SER* 4.1 27.1 - - - +
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Residues in contact with ALA 315 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
97C MET* 5.3 0.9 - - - -
164C HIS* 4.0 24.5 - - + +
176C HIS* 3.6 28.2 + - + +
311C ASP 3.3 11.3 + - - +
312C ILE* 3.2 14.1 + - + +
314C LEU* 1.3 80.1 - - - +
316C GLY* 1.3 56.8 + - - +
318C GLU* 4.0 0.2 - - - +
319C LEU* 2.8 42.3 + - + +
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Residues in contact with GLY 316 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
97C MET* 3.6 28.0 - - - +
100C GLY* 3.4 6.5 - - - -
101C ILE* 3.3 22.9 - - - +
312C ILE 2.9 12.5 + - - -
313C LYS 3.4 3.6 + - - -
314C LEU 3.2 0.4 - - - -
315C ALA* 1.3 76.7 - - - +
317C ARG* 1.3 60.7 + - - +
319C LEU* 4.7 1.1 - - - -
320C ALA 3.3 16.1 + - - -
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Residues in contact with ARG 317 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100C GLY* 3.2 21.5 - - - +
103C GLU* 3.9 16.3 + - + +
104C VAL* 3.3 16.3 - - + +
311C ASP* 4.8 4.6 + - - -
313C LYS* 3.1 50.6 + - - +
314C LEU* 3.1 34.9 + - + +
316C GLY* 1.3 76.2 - - - +
318C GLU* 1.3 58.9 + - - +
319C LEU 3.5 0.2 - - - -
321C LYS* 3.0 48.4 + - - +
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Residues in contact with GLU 318 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
175C TYR 5.7 0.2 - - - +
176C HIS* 4.0 28.7 - - + +
314C LEU* 2.8 41.7 + - + +
315C ALA 4.0 1.8 - - - +
317C ARG* 1.3 75.4 - - - +
319C LEU* 1.3 60.8 + - - +
321C LYS* 3.1 34.1 + - - +
322C ALA* 3.0 28.6 + - - +
337C SER* 4.6 10.3 + - - +
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Residues in contact with LEU 319 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
97C MET* 4.2 16.8 - - + -
101C ILE* 5.2 0.9 - - + -
140C ILE* 4.3 18.4 - - + -
162C VAL* 3.6 31.0 - - + +
163C THR 3.4 30.5 - - - +
164C HIS* 4.0 26.2 - - + +
176C HIS* 4.0 15.9 - - + -
315C ALA* 2.8 27.4 + - + +
316C GLY* 4.2 4.0 - - - +
318C GLU* 1.3 73.0 - - - +
320C ALA* 1.3 60.7 + - - +
322C ALA* 3.3 2.3 + - - +
323C LEU* 2.8 32.4 + - - +
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Residues in contact with ALA 320 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101C ILE* 3.7 23.1 - - + +
104C VAL* 3.5 27.4 - - + -
105C LEU* 4.9 4.3 - - + -
140C ILE* 5.0 3.5 - - - +
316C GLY 3.3 18.5 + - - +
317C ARG 3.7 0.4 - - - +
319C LEU* 1.3 77.0 - - - +
321C LYS* 1.3 65.3 + - - +
323C LEU* 3.3 2.6 + - - -
324C LEU* 3.2 34.8 + - + +
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Residues in contact with LYS 321 (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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104C VAL* 3.8 21.8 - - + -
314C LEU* 5.7 0.4 - - - +
317C ARG* 3.0 45.4 + - - +
318C GLU* 3.1 37.2 + - - +
319C LEU 3.4 0.2 - - - -
320C ALA* 1.3 75.2 - - - +
322C ALA* 1.3 63.2 + - - +
324C LEU* 4.4 3.0 - - - +
325C ALA* 3.5 19.9 + - - +
335C LEU* 5.1 0.2 - - - +
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Residues in contact with ALA 322 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
162C VAL* 4.0 17.7 - - + -
174C ALA* 4.3 0.4 - - + -
175C TYR 5.3 1.6 - - - +
318C GLU 3.0 20.4 + - - +
319C LEU 3.5 4.0 - - - +
321C LYS* 1.3 77.9 - - - +
323C LEU* 1.3 57.9 + - - +
325C ALA* 3.2 2.8 + - - +
326C ARG* 2.9 23.3 + - - -
335C LEU* 3.2 45.3 - - + +
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Residues in contact with LEU 323 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80C ILE* 3.5 32.8 - - + -
138C GLY* 4.0 9.9 - - - -
139C VAL 3.8 12.8 - - - +
140C ILE* 3.6 29.6 - - + -
160C PRO* 4.0 4.0 - - + -
161C PHE* 3.6 39.3 - - - +
162C VAL* 3.8 6.3 - - + -
319C LEU 2.8 20.7 + - - +
320C ALA* 3.9 3.8 - - - +
322C ALA* 1.3 70.9 - - - +
324C LEU* 1.3 62.4 + - + +
326C ARG* 3.1 7.4 + - + +
327C ILE* 3.0 32.5 + - + +
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Residues in contact with LEU 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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80C ILE* 4.2 17.5 - - + -
104C VAL* 4.6 12.8 - - + -
105C LEU* 3.7 27.1 - - + -
108C THR* 3.6 30.7 - - + -
110C TYR* 4.0 20.4 - - + -
320C ALA* 3.2 21.0 + - - +
321C LYS* 4.4 3.4 - - - +
323C LEU* 1.3 75.2 - - + +
325C ALA* 1.3 66.0 + - - +
327C ILE* 3.2 8.8 + - - +
328C ASN* 3.1 32.6 + - - +
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Residues in contact with ALA 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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321C LYS 3.5 13.6 + - - +
322C ALA 3.2 10.2 + - - +
324C LEU* 1.3 78.6 - - - +
326C ARG* 1.3 59.1 + - - +
328C ASN* 3.4 11.4 + - - +
329C GLY 3.2 5.9 + - - -
330C ALA* 3.1 29.8 + - + +
335C LEU* 3.6 19.5 - - + -
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Residues in contact with ARG 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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160C PRO* 4.2 23.7 - - + +
161C PHE* 4.3 13.9 + - - +
172C GLU 5.8 0.6 + - - -
173C HIS* 5.7 1.4 - - - +
174C ALA* 4.8 9.2 - - + +
322C ALA 2.9 7.2 + - - +
323C LEU* 3.4 14.6 - - + +
324C LEU 3.1 0.4 - - - -
325C ALA* 1.3 76.3 - - - +
327C ILE* 1.3 64.2 + - - +
329C GLY* 3.1 19.7 + - - -
330C ALA 2.9 28.2 + - - -
331C PRO* 4.6 0.4 - - - +
332C PRO* 4.3 29.5 - - - +
335C LEU* 3.5 20.8 - - + +
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Residues in contact with ILE 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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76C LYS* 4.2 12.8 - - - +
80C ILE* 4.0 22.7 - - + -
110C TYR* 3.8 25.8 - - + +
137C ASP* 3.4 40.8 - - + +
138C GLY* 4.0 2.0 - - - +
160C PRO* 3.9 18.2 - - + +
323C LEU 3.0 19.1 + - - +
324C LEU* 3.2 9.8 + - - +
326C ARG* 1.3 76.4 - - - +
328C ASN* 1.3 66.2 + - - +
329C GLY* 3.4 1.4 + - - -
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Residues in contact with ASN 328 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
110C TYR* 4.7 5.4 + - - -
324C LEU* 3.1 18.7 + - - +
325C ALA* 3.7 11.8 - - - +
327C ILE* 1.3 84.7 - - - +
329C GLY* 1.3 57.2 + - - +
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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
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325C ALA 3.2 0.4 + - - -
326C ARG* 3.1 18.3 + - - -
327C ILE 3.2 1.5 - - - -
328C ASN* 1.3 80.0 - - - +
330C ALA* 1.3 67.0 + - - +
331C PRO* 3.7 4.9 - - - +
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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
------------------------------------------------------------
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