Contacts of the helix formed by residues 301 - 326 (chain C) in PDB entry 6E7P
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 PHE 301 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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75C VAL* 4.0 40.8 - - + -
78C VAL* 4.2 19.7 - - + -
79C GLN* 3.9 26.5 - - - +
297C PHE 4.0 13.0 + - - +
298C ARG* 3.1 16.9 + - + +
300C LEU* 1.3 77.9 - - - +
302C ASP* 1.3 60.7 + - - +
303C VAL 3.1 1.8 - - - -
304C VAL* 3.0 37.8 + - + +
305C VAL* 3.5 4.4 + - + -
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Residues in contact with ASP 302 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79C GLN* 3.9 18.8 + - - +
298C ARG 4.0 4.4 + - - -
299C LEU* 2.9 28.4 - - - +
301C PHE* 1.3 73.3 - - - +
303C VAL* 1.3 60.3 + - - +
304C VAL 3.1 0.2 - - - -
305C VAL* 3.0 13.9 + - - +
306C ILE* 2.7 40.3 + - + +
369C THR* 4.6 14.6 + - - +
372C LYS* 4.8 13.0 + - + +
373C ILE* 3.6 26.2 - - - +
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Residues in contact with VAL 303 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
299C LEU 4.6 0.9 - - - +
300C LEU* 3.3 50.0 - - + +
302C ASP* 1.3 88.8 + - - +
304C VAL* 1.3 64.4 + - + +
306C ILE* 3.4 21.7 - - + +
307C LEU* 2.8 34.7 + - + +
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Residues in contact with VAL 304 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75C VAL* 4.5 15.9 - - + -
300C LEU 4.2 13.2 - - - +
301C PHE* 3.0 27.1 + - + +
303C VAL* 1.3 78.2 - - + +
305C VAL* 1.3 58.8 + - - +
307C LEU* 4.3 12.6 - - + -
308C THR* 2.8 46.8 + - + -
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Residues in contact with VAL 305 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75C VAL* 3.7 21.8 - - + -
76C VAL* 4.7 7.0 - - + -
79C GLN* 3.9 25.6 - - + +
301C PHE* 3.9 12.6 - - + +
302C ASP* 3.0 14.5 + - - +
304C VAL* 1.3 75.7 - - - +
306C ILE* 1.3 63.3 + - - +
308C THR* 4.0 5.8 - - - -
309C CYS* 3.4 29.8 + - - +
365C THR* 4.0 19.7 - - + -
366C ILE* 4.9 1.8 - - - +
369C THR* 3.8 27.1 - - + +
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Residues in contact with ILE 306 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
302C ASP* 2.7 26.1 + - + +
303C VAL* 3.4 26.5 - - + +
304C VAL 3.2 0.2 - - - -
305C VAL* 1.3 74.4 - - - +
307C LEU* 1.3 54.0 + - + +
310C SER* 2.6 33.1 + - - -
366C ILE* 3.5 25.2 - - + +
369C THR* 4.4 13.9 - - - +
370C ILE* 5.8 7.2 - - + +
373C ILE* 4.5 21.3 - - + -
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Residues in contact with LEU 307 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
303C VAL* 2.8 23.2 + - + +
304C VAL* 3.1 15.4 + - + +
306C ILE* 1.3 80.4 - - + +
308C THR* 1.3 58.3 + - + +
310C SER* 2.6 21.3 + - - +
311C LEU* 2.7 40.9 + - + +
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Residues in contact with THR 308 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68C LEU* 4.5 18.6 - - + +
71C VAL* 4.6 21.8 - - + -
72C LYS* 4.8 9.8 - - - +
75C VAL* 4.5 9.6 - - + +
76C VAL* 5.9 0.2 - - - +
304C VAL* 2.8 39.4 + - + +
305C VAL* 3.9 6.8 + - - -
307C LEU* 1.3 75.9 - - + +
309C CYS* 1.3 66.3 + - - +
311C LEU* 3.9 7.8 - - + +
312C SER* 3.0 29.1 + - - -
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Residues in contact with CYS 309 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72C LYS* 4.5 9.2 - - - +
76C VAL* 4.0 18.4 - - - -
305C VAL* 3.4 19.5 + - - +
308C THR* 1.3 86.5 + - - +
310C SER* 1.3 57.7 + - - +
312C SER* 3.5 2.6 + - - -
313C PHE* 2.8 27.4 + - - +
362C ASP* 3.4 32.4 - - + +
365C THR* 3.7 29.4 - - + -
366C ILE* 5.1 8.7 - - + -
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Residues in contact with SER 310 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
306C ILE* 2.6 19.1 + - - -
307C LEU* 2.6 23.2 + - - +
309C CYS* 1.3 77.2 - - - +
311C LEU* 1.3 62.5 + - - +
313C PHE* 3.0 11.5 + - - +
314C LEU* 2.9 28.1 + - - +
366C ILE* 4.0 15.5 - - - +
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Residues in contact with LEU 311 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68C LEU* 4.3 17.8 - - + +
307C LEU* 2.7 42.5 + - + +
308C THR* 4.1 7.0 - - + +
310C SER* 1.3 76.3 + - - +
312C SER* 1.3 57.4 + - - +
314C LEU* 3.6 13.4 + - + +
315C LEU* 3.2 23.7 + - - +
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Residues in contact with SER 312 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68C LEU* 4.2 15.8 - - - +
69C GLN* 3.7 5.2 + - - +
72C LYS* 3.4 33.4 + - - -
308C THR 3.0 19.4 + - - -
309C CYS 3.8 1.3 - - - -
311C LEU* 1.3 74.6 - - - +
313C PHE* 1.3 58.3 + - - +
314C LEU 3.2 1.8 - - - -
315C LEU* 3.7 6.3 - - - +
316C CYS* 3.1 41.9 + - - +
362C ASP* 3.7 2.2 + - - +
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Residues in contact with PHE 313 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
309C CYS 2.8 20.4 + - - +
310C SER* 3.0 11.0 + - - +
312C SER* 1.3 73.6 - - - +
314C LEU* 1.3 64.7 + - - +
316C CYS* 5.4 1.6 - - - -
317C ALA* 3.5 27.7 + - + +
359C VAL* 3.6 34.9 - - + +
362C ASP* 3.9 23.5 + - + +
363C VAL* 4.1 17.5 - - + -
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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
----------------------------------------------------------
310C SER 2.9 14.5 + - - +
311C LEU* 3.7 15.5 - - + +
313C PHE* 1.3 79.7 - - - +
315C LEU* 1.3 69.0 + - + +
317C ALA* 4.4 1.5 - - - +
318C ARG* 3.6 24.2 + - + +
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Residues in contact with LEU 315 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65C LYS* 3.5 61.2 - - + +
68C LEU* 5.5 7.0 - - + -
311C LEU 3.2 14.3 + - - +
312C SER* 3.4 6.7 + - - +
314C LEU* 1.3 86.2 - - + +
316C CYS* 1.3 76.1 + - - +
318C ARG* 3.3 26.9 + - + +
319C SER* 3.8 4.5 + - - -
355C TYR* 6.1 1.8 - - + -
801C HZ7 4.2 15.7 - - - +
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Residues in contact with CYS 316 (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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65C LYS 5.8 1.1 - - - -
69C GLN* 4.4 13.5 - - - -
312C SER* 3.1 32.4 + - - +
313C PHE* 5.2 0.4 - - - +
315C LEU* 1.3 89.3 - - - +
317C ALA* 1.3 61.2 + - - +
319C SER* 3.2 16.5 + - - -
320C LEU* 3.3 13.8 + - - +
355C TYR* 3.9 34.3 - - + +
358C LEU* 4.7 10.1 - - + -
359C VAL* 4.6 13.9 - - + -
362C ASP* 5.6 0.7 - - - +
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Residues in contact with ALA 317 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
313C PHE* 3.5 28.1 + - + +
314C LEU 4.4 2.0 - - - +
315C LEU 3.3 0.4 - - - -
316C CYS* 1.3 75.4 - - - +
318C ARG* 1.3 54.8 + - - +
319C SER 3.2 0.2 - - - -
320C LEU* 3.1 22.4 + - + +
321C LEU* 2.7 41.9 + - + +
359C VAL* 4.8 6.9 - - + +
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Residues in contact with ARG 318 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
314C LEU* 3.6 17.8 + - + +
315C LEU* 3.3 21.4 + - + +
316C CYS 3.2 0.4 - - - -
317C ALA* 1.3 79.1 - - - +
319C SER* 1.3 56.7 + - - +
321C LEU* 3.2 18.7 + - + +
322C ARG* 2.8 31.3 + - - +
801C HZ7 3.8 32.3 + - - -
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Residues in contact with SER 319 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48C PHE* 4.6 14.2 - - - -
315C LEU 3.8 4.4 + - - -
316C CYS 3.2 12.2 + - - -
317C ALA 3.2 0.4 - - - -
318C ARG* 1.3 77.2 - - - +
320C LEU* 1.3 60.3 + - - +
322C ARG* 3.1 9.7 + - - +
323C GLY* 2.8 26.0 + - - -
352C ASN* 4.9 1.6 + - - -
355C TYR* 4.6 16.5 - - - -
801C HZ7 3.6 33.5 + - - -
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Residues in contact with LEU 320 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
316C CYS 3.3 8.5 + - - +
317C ALA* 3.1 17.7 + - + +
319C SER* 1.3 76.9 - - - +
321C LEU* 1.3 63.0 + - + +
323C GLY* 4.0 0.8 - - - +
324C PHE* 3.2 25.5 + - - +
351C VAL* 3.8 31.1 - - + +
352C ASN 5.0 1.6 - - - +
355C TYR* 4.3 19.5 - - + +
356C ILE* 4.6 18.8 - - + +
359C VAL* 3.7 31.0 - - + -
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Residues in contact with LEU 321 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
317C ALA* 2.7 23.9 + - + +
318C ARG* 3.4 21.8 - - + +
320C LEU* 1.3 73.2 - - + +
322C ARG* 1.3 60.8 + - - +
324C PHE* 4.6 2.7 - - - +
325C LEU* 3.2 28.0 + - + +
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Residues in contact with ARG 322 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44C ARG* 4.7 22.8 + - - +
47C TYR* 6.1 3.4 - - - +
48C PHE* 5.2 16.7 - - + +
318C ARG* 2.8 21.5 + - - +
319C SER* 3.1 11.4 + - - +
321C LEU* 1.3 76.3 - - - +
323C GLY* 1.3 63.8 + - - +
325C LEU* 3.4 5.6 + - + +
326C LEU* 3.1 41.8 + - + +
801C HZ7 2.9 64.7 + - - -
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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
----------------------------------------------------------
48C PHE* 4.5 21.1 - - - -
319C SER 2.8 15.8 + - - -
320C LEU* 3.4 2.6 + - - -
322C ARG* 1.3 78.6 - - - +
324C PHE* 1.3 60.8 + - - +
326C LEU* 3.5 11.9 + - - +
327C GLN* 3.3 20.6 + - - +
350C PHE* 4.8 7.5 - - - +
351C VAL* 5.3 7.6 - - - -
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Residues in contact with PHE 324 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
320C LEU 3.2 15.1 + - - +
321C LEU* 4.7 2.7 - - - +
323C GLY* 1.3 74.9 - - - +
325C LEU* 1.3 66.0 + - - +
327C GLN* 3.2 46.3 + - + +
328C ASN* 4.2 2.6 + - - +
351C VAL* 5.2 6.8 - - + +
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Residues in contact with LEU 325 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44C ARG* 5.7 1.8 - - - +
321C LEU 3.2 21.2 + - - +
322C ARG* 3.4 7.2 + - + +
323C GLY 3.3 0.6 - - - -
324C PHE* 1.3 82.3 - - - +
326C LEU* 1.3 72.5 + - + +
327C GLN 3.3 1.9 + - - -
328C ASN* 3.7 8.5 + - - +
329C GLU* 3.0 24.0 - - - +
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Residues in contact with LEU 326 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41C LEU* 6.2 0.2 - - + -
44C ARG* 3.4 41.3 - - + +
45C LEU* 4.5 26.3 - - + +
48C PHE* 6.3 6.1 - - + -
322C ARG* 3.1 44.9 + - + +
323C GLY* 3.9 7.9 - - - +
324C PHE 3.3 0.6 - - - -
325C LEU* 1.3 92.9 - - + +
327C GLN* 1.3 61.1 + - - +
328C ASN 3.5 0.4 - - - -
329C GLU* 3.4 21.5 + - + +
330C PHE* 4.3 9.9 + - - +
350C PHE* 5.5 2.8 - - - -
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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) + - + + + + + -
------------------------------------------------------------
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