Contacts of the helix formed by residues 366 - 384 (chain C) in PDB entry 2CEA
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 VAL 366 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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203C PRO 3.9 6.3 - - - +
204C GLY 3.1 23.3 - - - +
205C THR* 3.8 18.6 - - + -
330C PRO* 4.6 7.6 - - + -
331C PRO* 4.1 7.4 - - - -
364C GLY 4.1 5.8 - - - +
365C PHE* 1.3 75.3 - - - +
367C GLY* 1.3 65.4 + - - +
368C ALA* 3.6 8.3 - - + +
369C ASP* 3.0 28.3 + - - +
370C LEU* 3.0 27.7 + - - +
448C ARG* 3.2 31.4 - - - +
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Residues in contact with GLY 367 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
204C GLY 3.1 6.1 + - - -
205C THR* 4.8 1.4 - - - +
331C PRO* 4.7 1.8 - - - +
339C ILE* 3.8 26.4 - - - +
366C VAL* 1.3 74.3 - - - +
368C ALA* 1.3 64.4 + - - +
370C LEU* 2.9 4.0 + - - +
371C GLU* 2.8 23.7 + - - +
1608C ADP 3.6 26.5 + - - -
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Residues in contact with ALA 368 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
204C GLY* 2.9 32.9 + - - +
366C VAL* 4.0 3.4 - - + -
367C GLY* 1.3 74.1 - - - +
369C ASP* 1.3 66.2 + - - +
371C GLU* 3.4 6.5 + - - +
372C ASN* 3.1 22.3 + - - +
1608C ADP 3.1 22.1 + - - +
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Residues in contact with ASP 369 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
364C GLY 4.7 1.6 - - - +
365C PHE* 3.7 28.0 - - + -
366C VAL* 3.0 36.4 + - - +
367C GLY 3.1 0.4 - - - -
368C ALA* 1.3 80.1 - - - +
370C LEU* 1.3 58.4 + - - +
372C ASN* 3.1 8.2 + - - +
373C LEU* 2.8 27.4 + - - +
401C VAL* 5.1 10.6 - - + +
448C ARG* 5.7 0.2 + - - -
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Residues in contact with LEU 370 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
331C PRO* 5.5 0.2 - - + -
336C ARG* 3.6 47.6 - - + +
339C ILE* 4.1 20.0 - - + -
340C LEU* 4.4 20.4 - - + +
343C HIS* 5.4 0.9 - - - -
362C THR* 4.1 16.2 - - + +
365C PHE* 3.6 31.0 - - + +
366C VAL 3.0 18.3 + - - +
367C GLY 2.9 7.2 + - - +
369C ASP* 1.3 74.0 - - - +
371C GLU* 1.3 66.1 + - - +
372C ASN 2.9 1.3 - - - -
373C LEU* 3.2 7.6 + - + +
374C VAL* 2.9 28.1 + - - +
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Residues in contact with GLU 371 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
192B ARG* 4.9 16.7 + - - +
343C HIS* 3.6 37.2 + - + +
367C GLY 2.8 15.1 + - - +
368C ALA* 3.6 9.8 - - - +
370C LEU* 1.3 72.3 - - - +
372C ASN* 1.3 60.6 + - - +
374C VAL* 3.4 6.4 + - - +
375C ASN* 3.2 20.8 + - - +
1608C ADP 3.0 35.4 + - - +
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Residues in contact with ASN 372 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
192B ARG* 5.1 10.9 + - - +
368C ALA 3.1 14.2 + - - +
369C ASP* 3.3 11.9 - - - +
370C LEU 2.9 0.8 - - - -
371C GLU* 1.3 74.2 - - - +
373C LEU* 1.3 66.2 + - - +
374C VAL 3.1 1.1 - - - -
375C ASN* 3.1 9.1 + - - +
376C GLU* 2.9 40.1 + - - +
401C VAL* 4.3 13.5 - - + +
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Residues in contact with LEU 373 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
340C LEU* 4.3 7.0 - - + -
358C ILE* 4.2 9.2 - - + -
362C THR* 4.0 15.9 - - + -
365C PHE* 4.6 7.4 - - + -
369C ASP 2.8 14.1 + - - +
370C LEU* 3.6 12.6 - - + +
372C ASN* 1.3 74.9 - - - +
374C VAL* 1.3 71.5 + - + +
376C GLU* 3.1 5.2 + - - +
377C ALA 2.9 19.1 + - - -
394C PHE* 3.4 32.8 - - + +
397C ALA* 3.7 12.8 - - + +
398C ILE* 3.4 34.3 - - + +
401C VAL* 4.3 16.1 - - + +
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Residues in contact with VAL 374 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
340C LEU* 3.9 29.2 - - + +
343C HIS* 3.6 34.3 - - + +
344C THR* 5.1 3.6 - - - -
347C LYS* 3.7 21.3 - - + +
370C LEU 2.9 14.7 + - - +
371C GLU* 3.5 12.1 - - - +
372C ASN 3.1 0.2 - - - -
373C LEU* 1.3 80.9 - - - +
375C ASN* 1.3 63.3 + - - +
377C ALA* 3.2 7.9 + - - +
378C ALA* 3.1 19.4 + - - +
389C ILE* 4.9 3.4 - - + +
394C PHE* 4.0 15.9 - - + -
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Residues in contact with ASN 375 (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 GLY 3.4 10.4 - - - +
191B ALA* 3.6 0.7 - - - -
192B ARG* 2.7 79.6 + - - +
347C LYS* 4.8 3.0 + - - +
371C GLU 3.2 8.0 + - - +
372C ASN* 3.1 11.7 + - - +
374C VAL* 1.3 81.5 - - + +
376C GLU* 1.3 60.7 + - - +
378C ALA* 3.2 7.5 + - - +
379C LEU* 3.0 37.1 + - - +
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Residues in contact with GLU 376 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
175B GLU* 4.6 0.5 - - - +
372C ASN* 2.9 30.4 + - - +
373C LEU* 3.1 10.3 + - - +
375C ASN* 1.3 75.8 + - + +
377C ALA* 1.3 63.5 + - - +
379C LEU* 3.6 23.7 + - - +
380C LEU* 3.3 26.9 + - - +
397C ALA* 3.9 16.2 - - + -
400C ARG* 4.1 37.0 + - + -
401C VAL* 4.3 12.6 - - + -
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Residues in contact with ALA 377 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
373C LEU 2.9 12.4 + - - +
374C VAL 3.2 8.9 + - - +
376C GLU* 1.3 74.2 - - - +
378C ALA* 1.3 66.2 + - - +
380C LEU* 3.0 15.0 + - - +
381C ALA* 3.2 11.8 + - - +
389C ILE* 3.8 20.6 - - + -
393C ASP* 3.9 26.0 - - - +
394C PHE* 4.0 22.7 - - + -
397C ALA* 3.8 0.8 - - + +
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Residues in contact with ALA 378 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
189B ILE* 3.5 19.7 - - + +
191B ALA* 3.8 21.3 - - + -
347C LYS* 4.4 7.9 - - - +
374C VAL 3.1 11.8 + - - +
375C ASN* 3.4 10.1 - - - +
377C ALA* 1.3 75.5 - - - +
379C LEU* 1.3 57.6 + - - +
381C ALA* 3.1 4.7 + - - +
382C ALA* 2.9 25.8 + - - +
389C ILE* 3.7 24.6 - - + +
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Residues in contact with LEU 379 (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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175B GLU* 4.0 22.3 - - - +
186B PHE* 3.7 19.0 - - + -
191B ALA* 4.0 9.9 - - + -
192B ARG 3.9 13.0 - - - +
193B MET* 3.4 34.8 - - + -
194B PRO* 5.9 2.5 - - + -
375C ASN* 3.0 35.0 + - - +
376C GLU* 3.7 31.6 - - - +
377C ALA 3.2 0.2 - - - -
378C ALA* 1.3 75.8 - - - +
380C LEU* 1.3 58.8 + - - +
382C ALA* 3.8 1.6 - - - +
383C ARG* 2.8 31.0 + - - +
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Residues in contact with LEU 380 (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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175B GLU* 4.0 2.0 - - - +
376C GLU 3.3 14.1 + - - +
377C ALA 3.0 8.3 + - - +
379C LEU* 1.3 79.9 - - - +
381C ALA* 1.3 63.4 + - - +
383C ARG* 3.7 19.4 + - - +
384C GLU* 3.6 17.0 + - - +
386C ARG* 3.6 10.1 + - - -
393C ASP* 3.6 23.3 - - - +
396C GLU* 3.3 45.5 - - + +
397C ALA* 4.1 6.7 - - - +
400C ARG* 3.2 35.2 - - - +
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Residues in contact with ALA 381 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
189B ILE* 4.0 12.6 - - + -
377C ALA 3.2 8.7 + - - +
378C ALA 3.1 9.3 + - - +
380C LEU* 1.3 75.5 - - - +
382C ALA* 1.3 65.8 + - - +
384C GLU* 3.0 6.2 + - - +
385C GLY 3.0 4.5 + - - -
386C ARG* 3.0 51.9 + - - +
388C LYS 4.2 5.2 - - - +
389C ILE* 4.2 12.8 - - + -
393C ASP* 3.8 6.6 + - - +
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Residues in contact with ALA 382 (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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178B GLU* 4.9 1.0 - - - +
185B LYS* 4.0 10.5 - - - +
186B PHE* 3.3 57.8 - - + -
189B ILE* 4.1 5.7 - - + +
191B ALA* 4.2 3.4 - - + -
378C ALA 2.9 18.8 + - - +
379C LEU 3.8 1.1 - - - +
381C ALA* 1.3 69.2 - - - +
383C ARG* 1.3 69.1 + - - +
385C GLY* 2.8 17.6 + - - +
386C ARG 4.6 2.2 - - - +
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Residues in contact with ARG 383 (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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171B GLU* 3.3 45.4 + - - -
174B LYS* 3.9 13.9 - - - +
175B GLU* 4.0 32.5 + - + +
178B GLU* 3.4 29.7 - - + +
186B PHE* 3.9 9.3 - - - -
379C LEU 2.8 18.2 + - - +
380C LEU* 3.8 17.4 + - - +
382C ALA* 1.3 78.3 - - - +
384C GLU* 1.3 69.0 + - - +
385C GLY 3.3 0.2 + - - -
400C ARG* 3.7 25.3 - - - +
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Residues in contact with GLU 384 (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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380C LEU 3.6 8.9 + - - +
381C ALA 3.0 8.5 + - - +
383C ARG* 1.3 89.6 - - - +
385C GLY* 1.3 61.2 + - - +
386C ARG* 2.8 42.0 + - + +
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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