Contacts of the strand formed by residues 777 - 786 (chain C) in PDB entry 2BRQ
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 LEU 777 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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2276A GLU* 3.9 28.9 - - + +
2277A GLY* 3.8 30.5 - - - +
2278A PRO* 4.8 0.7 - - + -
776C PRO* 1.3 73.9 - - - +
778C TYR* 1.3 59.8 + - - +
779C LYS 4.2 0.3 + - - -
781D ALA 4.0 0.3 - - - +
782D ILE* 3.5 3.1 - - - +
783D THR* 2.8 59.1 + - + +
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Residues in contact with TYR 778 (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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2275A VAL 3.8 0.7 - - - +
2276A GLU* 3.1 6.8 - - - +
2277A GLY 2.9 36.9 + - - +
2278A PRO 3.3 29.2 - - - -
2279A SER* 3.6 19.4 - - - +
2280A LYS* 3.4 43.7 - - + +
2281A ALA 5.5 0.2 - - - +
776C PRO* 3.7 34.8 - - + +
777C LEU* 1.3 73.4 - - - +
779C LYS* 1.3 61.4 + - - +
780C SER* 5.9 0.2 - - - +
781D ALA 3.5 6.5 - - - +
782D ILE* 3.4 35.7 - - + +
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Residues in contact with LYS 779 (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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2274A ALA* 3.9 22.1 - - + +
2275A VAL 3.3 9.2 - - - +
2276A GLU* 4.1 31.9 + - + +
2308A SER* 4.8 6.1 + - - -
2310A LYS* 5.7 4.9 - - - +
777C LEU 4.2 0.2 + - - -
778C TYR* 1.3 76.5 - - - +
780C SER* 1.3 72.5 + - - +
781C ALA* 5.4 3.6 - - + -
779D LYS* 5.4 5.4 - - + -
780D SER* 3.5 2.3 - - - -
781D ALA* 2.8 49.8 + - + +
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Residues in contact with SER 780 (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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2274A ALA* 3.1 2.9 - - - +
2275A VAL 2.7 33.9 + - - -
2280A LYS* 4.9 2.6 - - - +
2281A ALA* 2.8 42.2 + - - -
2283A ILE* 3.2 14.2 - - - +
778C TYR* 5.9 0.2 - - - +
779C LYS* 1.3 77.0 + - - +
781C ALA* 1.3 60.4 + - - +
779D LYS 3.4 9.0 - - - -
780D SER* 4.6 7.6 + - - -
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Residues in contact with ALA 781 (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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2272A ALA* 5.9 2.2 - - + -
2273A ILE 3.1 13.0 - - - +
2274A ALA* 3.9 11.4 - - + -
2283A ILE* 4.0 3.1 - - - -
779C LYS* 5.4 4.7 - - + -
780C SER* 1.3 75.5 - - - +
782C ILE* 1.3 64.5 + - - +
783C THR* 5.2 4.7 - - - +
777D LEU 4.5 0.7 - - - -
778D TYR* 3.5 6.9 - - - +
779D LYS* 2.9 47.1 + - + +
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Residues in contact with ILE 782 (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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2271A LEU 3.9 1.0 - - - +
2272A ALA* 3.4 1.4 - - - -
2273A ILE* 2.8 37.6 + - + +
2283A ILE* 3.7 45.3 - - + +
2284A SER* 4.5 6.1 - - - +
2285A PHE* 3.7 38.8 - - + +
781C ALA* 1.3 76.0 - - - +
783C THR* 1.3 64.9 + - - +
784C THR 4.3 0.2 - - - -
776D PRO* 4.0 11.7 - - + -
777D LEU 3.3 4.5 - - - +
778D TYR* 3.4 39.5 - - + +
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Residues in contact with THR 783 (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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2270A GLY* 4.3 8.1 - - - -
2271A LEU 3.4 16.8 - - - +
2272A ALA* 3.3 25.1 - - + +
2285A PHE* 4.3 2.0 - - - -
781C ALA* 5.2 4.5 - - - +
782C ILE* 1.3 74.5 + - - +
784C THR* 1.3 67.5 + - - +
776D PRO* 3.3 5.5 - - - +
777D LEU* 2.8 55.9 + - + +
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Residues in contact with THR 784 (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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2270A GLY* 3.5 2.9 - - - -
2271A LEU* 2.7 44.5 + - + +
2285A PHE* 3.4 42.0 - - + -
3330A GSH 3.3 25.8 + - - +
783C THR* 1.3 75.6 - - - +
785C THR* 1.3 67.2 + - - +
786C ILE* 3.9 14.3 + - + -
776D PRO* 4.8 11.0 - - - +
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Residues in contact with THR 785 (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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2268A ALA* 6.2 0.2 - - + -
2269A GLY 3.5 11.7 - - - +
2270A GLY* 4.6 2.6 - - - -
3330A GSH 3.9 13.3 + - - +
784C THR* 1.3 81.4 + - - +
786C ILE* 1.3 72.8 + - - +
787C ASN* 3.8 27.7 + - - +
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Residues in contact with ILE 786 (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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2263A THR* 4.4 24.2 - - + +
2267A GLY 3.9 16.6 - - - +
2268A ALA* 3.2 6.6 - - - +
2269A GLY 2.8 33.0 + - - +
2271A LEU* 3.9 26.7 - - + -
2311A PHE* 4.1 9.2 - - + -
3330A GSH 3.4 51.6 - - + +
784C THR* 3.9 11.7 - - + -
785C THR* 1.3 76.5 - - - +
787C ASN* 1.3 69.6 + - - +
788C PRO* 5.1 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