Contacts of the strand formed by residues 286 - 297 (chain 3) in PDB entry 1G6Q
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 GLN 286 (chain 3).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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1363 TYR 5.5 2.0 - - - -
2063 ILE 3.5 0.9 - - - +
2073 VAL* 3.3 4.2 - - - -
2083 ASP 2.9 36.6 + - - +
2093 THR* 3.4 8.2 + - - -
2103 VAL* 2.7 34.1 + - + +
2553 VAL* 3.7 25.1 - - + -
2563 THR 3.3 14.8 - - - +
2573 TRP* 4.2 6.5 - - + +
2753 THR 2.5 31.3 + - - -
2763 GLY 3.5 2.2 + - - -
2773 PRO* 3.5 20.4 - - + +
2843 TRP 3.3 3.3 + - - -
2853 LYS* 1.3 87.4 + - - +
2873 THR* 1.3 62.5 + - - +
2883 ILE* 3.8 0.9 + - - +
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Residues in contact with THR 287 (chain 3).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1363 TYR* 3.8 20.1 + - - +
1373 PHE* 4.0 10.2 - - - +
2053 PRO* 3.7 19.3 - - + -
2063 ILE 3.6 7.2 - - - +
2073 VAL* 4.0 14.7 - - + +
2563 THR* 2.9 51.4 + - - +
2863 GLN* 1.3 69.6 - - - +
2883 ILE* 1.3 62.7 + - - +
2893 PHE* 3.5 25.6 - - + -
3473 MET* 4.4 9.9 - - + -
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Residues in contact with ILE 288 (chain 3).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1733 LEU* 3.3 28.0 - - + -
1753 ASP* 5.0 6.5 - - - +
1783 TYR* 6.1 2.5 - - + -
2053 PRO* 3.7 8.1 - - - +
2063 ILE* 2.8 54.2 + - + +
2083 ASP* 4.1 18.4 - - + +
2103 VAL* 3.5 33.9 - - + -
2543 ILE 3.8 2.9 - - - -
2553 VAL* 4.3 2.7 - - + +
2863 GLN 4.8 2.2 - - - +
2873 THR* 1.3 71.7 - - - +
2893 PHE* 1.3 65.0 + - - +
2903 TYR* 3.7 31.8 + - + +
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Residues in contact with PHE 289 (chain 3).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1373 PHE* 4.2 7.2 - + - -
2053 PRO* 3.4 24.7 - - + -
2533 GLY* 2.9 3.3 - - - -
2543 ILE* 2.7 71.2 + - + +
2563 THR* 3.2 24.0 - - + -
2873 THR* 3.5 26.9 - - + -
2883 ILE* 1.3 72.9 - - - +
2903 TYR* 1.3 62.4 + - - +
2913 PHE* 3.6 2.3 + - - -
3073 LEU* 5.8 1.1 - - + -
3213 ILE* 4.3 15.3 - - + -
3233 ILE* 3.9 11.7 - - + -
3453 TYR* 3.8 37.5 - + + -
3473 MET* 3.8 17.0 - - + -
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Residues in contact with TYR 290 (chain 3).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1733 LEU* 4.9 0.9 - - + -
1753 ASP* 2.8 41.3 + - + -
1783 TYR* 3.6 8.3 - - - -
1793 LYS* 3.9 30.3 - - + +
1823 LYS* 3.6 36.8 + - + +
2013 VAL* 4.7 6.5 - - + -
2023 LEU* 3.6 39.0 + - + +
2033 HIS* 5.2 0.7 - - - -
2043 GLU 6.1 0.4 - - - -
2063 ILE* 4.1 17.7 - - + +
2523 ASN 3.7 8.3 - - - -
2533 GLY* 4.8 0.9 - - - -
2883 ILE* 3.7 23.6 + - + +
2893 PHE* 1.3 71.6 - - - +
2913 PHE* 1.3 61.3 + - - +
2923 PRO* 4.0 0.7 - - - +
3453 TYR* 2.9 28.0 + - - -
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Residues in contact with PHE 291 (chain 3).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1793 LYS* 2.8 25.6 + - - -
2023 LEU* 3.5 6.2 - - - +
2413 PHE* 5.8 0.2 - + - -
2513 ILE* 3.0 31.0 - - + -
2523 ASN 2.7 14.0 + - - +
2533 GLY* 3.4 9.6 - - - -
2543 ILE* 3.6 41.1 - - + -
2893 PHE 4.2 2.2 - - - -
2903 TYR* 1.3 72.3 - - - +
2923 PRO* 1.3 67.8 - - - +
2933 ASP 3.4 8.4 + - - +
2943 ASP* 4.3 0.2 - - - +
2953 LEU* 3.7 14.4 - - + -
3033 ILE* 3.6 28.0 - - + -
3233 ILE* 4.5 8.1 - - + -
3253 TYR* 3.5 40.6 - + + +
3453 TYR* 4.4 6.1 - - - -
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Residues in contact with PRO 292 (chain 3).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2023 LEU* 4.0 22.6 - - + +
2033 HIS* 5.5 7.6 - - + +
2903 TYR 4.3 3.4 - - - +
2913 PHE* 1.3 85.2 - - - +
2933 ASP* 1.3 66.6 + - - +
2943 ASP* 3.8 8.1 - - - +
3253 TYR* 3.2 20.6 - - + +
3413 ASN* 3.2 30.5 - - - +
3423 GLU 4.1 7.9 - - - +
3433 GLY* 5.7 0.4 - - - -
3453 TYR* 4.6 5.4 - - - +
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Residues in contact with ASP 293 (chain 3).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2913 PHE* 3.6 10.8 - - - +
2923 PRO* 1.3 82.0 - - - +
2943 ASP* 1.3 53.7 + - - +
2953 LEU* 2.7 37.1 + - + +
3253 TYR* 3.0 19.9 + - + +
3393 ARG* 4.3 29.5 + - - +
3413 ASN* 3.2 30.4 - - - +
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Residues in contact with ASP 294 (chain 3).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1763 SER* 5.8 0.9 - - - -
1793 LYS* 3.5 32.1 + - - +
1803 ASP* 4.8 8.7 - - - +
1833 LEU* 5.3 6.3 - - - +
2503 MET* 3.1 28.8 - - + +
2513 ILE 4.5 0.7 - - - -
2523 ASN* 3.1 30.9 + - - +
2923 PRO 3.8 9.4 - - - +
2933 ASP* 1.3 65.8 - - - +
2953 LEU* 1.3 64.6 + - - +
2963 ASP 3.2 1.0 + - - -
3373 ARG* 4.2 4.4 + - - -
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Residues in contact with LEU 295 (chain 3).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2503 MET* 3.1 4.0 - - - -
2513 ILE* 2.7 43.1 + - + +
2913 PHE* 3.7 19.3 - - + -
2933 ASP* 2.7 29.0 + - + +
2943 ASP* 1.3 69.7 - - - +
2963 ASP* 1.3 60.9 + - - +
2973 ALA 3.4 0.3 + - - -
3033 ILE* 4.0 10.8 - - + -
3253 TYR* 3.7 29.2 - - + -
3273 PHE* 3.6 46.9 - - + -
3373 ARG* 5.1 3.4 - - - +
3393 ARG* 4.4 15.7 - - + -
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Residues in contact with ASP 296 (chain 3).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2483 GLN* 5.8 0.9 - - - +
2493 ASP* 4.8 4.8 + - - -
2503 MET* 3.0 30.5 - - - +
2943 ASP 3.2 4.4 + - - -
2953 LEU* 1.3 68.2 - - - +
2973 ALA* 1.3 68.3 + - - +
3013 ASP* 4.3 0.7 - - - +
3273 PHE* 3.3 15.4 - - - -
3293 SER* 4.3 0.5 + - - -
3323 ILE* 5.8 2.3 - - - +
3333 ASP* 4.0 20.3 - - - +
3373 ARG* 3.4 42.0 + - - +
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Residues in contact with ALA 297 (chain 3).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2453 ALA* 4.1 6.7 - - + -
2473 ARG 3.9 3.8 - - - +
2483 GLN* 3.0 23.4 - - - +
2493 ASP 2.9 23.8 + - - +
2513 ILE* 3.5 28.9 - - + -
2953 LEU 3.4 0.4 + - - -
2963 ASP* 1.3 81.2 + - - +
2983 GLU* 1.3 61.7 + - - +
3013 ASP* 3.4 17.7 - - - +
3273 PHE* 3.6 2.7 - - + -
3323 ILE* 5.9 0.4 - - - +
3333 ASP* 5.6 0.2 - - - -
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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
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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