Contacts of the helix formed by residues 86 - 99 (chain A) in PDB entry 1AST
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 TYR 86 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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83A GLY* 3.5 38.2 + - - -
84A CYS* 2.9 9.9 + - - -
85A VAL* 1.3 82.8 - - - +
87A HIS* 1.3 67.8 + - - +
89A THR* 3.1 5.2 + - - +
90A ILE* 2.9 25.7 + - - +
177A TYR* 3.8 45.3 - + + +
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Residues in contact with HIS 87 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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29A ALA* 5.0 2.0 + - - +
32A SER* 3.5 30.4 - - - -
33A GLY* 3.8 17.4 + - - -
36A GLU* 2.8 26.0 + - + -
86A TYR* 1.3 72.0 - - - +
88A GLY* 1.3 64.1 + - - +
90A ILE* 3.3 10.7 + - - +
91A ILE* 3.1 39.2 + - + +
179A LYS 5.1 2.2 - - - +
180A ALA* 3.1 28.4 + - - +
181A HIS* 4.3 3.0 + + - -
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Residues in contact with GLY 88 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
86A TYR* 3.3 2.0 - - - +
87A HIS* 1.3 83.4 - - - +
89A THR* 1.3 57.3 + - - +
91A ILE* 3.4 3.2 + - - -
92A HIS* 3.0 27.5 + - - +
146A ILE* 3.5 20.4 - - - +
176A PRO* 3.4 23.0 + - - +
177A TYR* 4.8 1.4 + - - +
179A LYS 4.0 10.4 + - - -
180A ALA 5.8 0.2 - - - -
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Residues in contact with THR 89 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64A CYS* 3.8 34.8 - - + -
79A LEU* 4.3 3.1 - - + -
83A GLY 5.3 0.5 + - - -
84A CYS* 3.4 24.1 - - + +
86A TYR* 3.1 7.6 + - - +
88A GLY* 1.3 72.9 - - - +
90A ILE* 1.3 65.7 + - - +
92A HIS* 3.2 8.5 + - + +
93A GLU* 3.0 27.8 + - - +
176A PRO* 4.0 8.0 + - + +
177A TYR* 3.3 31.8 + - - +
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Residues in contact with ILE 90 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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29A ALA* 3.7 35.7 - - + +
30A ILE* 4.0 29.2 - - + +
33A GLY* 4.0 9.2 - - - +
79A LEU* 4.2 24.6 - - + +
84A CYS 4.2 6.7 - - - +
85A VAL* 4.2 3.6 - - + -
86A TYR 2.9 32.7 + - - +
87A HIS* 3.5 10.5 - - - +
89A THR* 1.3 76.5 - - - +
91A ILE* 1.3 62.0 + - - +
93A GLU* 3.5 1.6 + - - +
94A LEU* 3.1 43.5 + - + +
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Residues in contact with ILE 91 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33A GLY* 3.8 20.4 - - - +
36A GLU* 3.8 24.2 - - + +
37A LEU* 4.3 17.8 - - + +
87A HIS* 3.1 48.2 + - + +
88A GLY* 3.8 6.3 - - - +
90A ILE* 1.3 73.8 - - - +
92A HIS* 1.3 58.3 + - - +
94A LEU* 3.3 1.7 + - - +
95A MET* 2.8 30.5 + - + +
146A ILE* 4.1 17.3 - - + -
181A HIS* 5.0 0.4 - - - -
182A MET* 4.1 30.1 - - + +
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Residues in contact with HIS 92 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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88A GLY 3.0 18.4 + - - +
89A THR* 3.2 6.7 + - + +
91A ILE* 1.3 76.7 - - - +
93A GLU* 1.3 80.6 + - - +
95A MET 3.3 0.3 + - - -
96A HIS* 3.1 18.4 + - - -
102A HIS* 3.5 12.8 - + - -
146A ILE* 2.7 29.5 + - - +
147A MET* 3.6 30.6 - - + +
149A TYR* 3.4 22.1 + + - -
176A PRO* 3.5 12.6 - - + +
999A ZN 2.0 37.2 - - - -
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Residues in contact with GLU 93 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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64A CYS* 3.4 22.8 - - + +
65A TRP* 3.3 31.8 - - - +
66A SER* 3.3 9.8 + - - -
77A VAL* 4.1 20.4 - - + +
79A LEU* 3.6 20.9 - - + -
89A THR* 3.0 18.3 + - - +
90A ILE 4.2 1.1 - - - +
92A HIS* 1.3 91.5 + - - +
94A LEU* 1.3 66.8 + - - +
96A HIS* 3.2 30.6 + - - +
97A ALA* 3.2 9.2 + - - +
149A TYR* 4.6 2.3 + - - -
999A ZN 4.2 3.5 - - - -
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Residues in contact with LEU 94 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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15A ILE* 5.3 0.3 - - - +
30A ILE* 5.0 2.5 - - + +
33A GLY 4.9 0.2 - - - -
34A MET* 3.8 29.8 - - + +
37A LEU* 4.0 21.1 - - + -
45A PHE* 4.1 20.6 - - + -
55A VAL* 4.8 4.9 - - + -
57A ILE* 4.4 20.4 - - + -
77A VAL* 4.7 19.1 - - + -
79A LEU* 5.9 2.9 - - + -
90A ILE* 3.1 37.2 + - + +
91A ILE 3.9 2.5 - - - +
93A GLU* 1.3 76.3 - - - +
95A MET* 1.3 57.4 + - - +
97A ALA* 3.1 10.2 + - + +
98A ILE* 2.9 33.2 + - - +
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Residues in contact with MET 95 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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37A LEU* 5.0 1.3 - - + +
91A ILE* 2.8 20.6 + - + +
92A HIS 3.6 5.4 - - - +
94A LEU* 1.3 73.5 - - - +
96A HIS* 1.3 63.4 - - - +
98A ILE* 3.4 12.3 + - + +
99A GLY 3.3 6.8 + - - -
100A PHE* 3.1 52.6 + - + +
146A ILE* 3.6 24.0 - - - -
147A MET* 3.7 21.8 - - + -
182A MET* 4.3 4.3 - - - -
186A ASP* 3.9 36.3 - - + +
189A GLN* 4.5 5.2 - - - +
190A ILE* 4.0 17.5 - - + -
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Residues in contact with HIS 96 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65A TRP* 5.8 0.2 - - - -
66A SER* 3.8 11.4 - - - +
67A TYR 3.5 11.7 - - - +
68A VAL* 3.2 16.7 - - + +
69A GLY 3.0 12.5 + - - -
92A HIS* 3.1 17.7 + - - -
93A GLU* 3.2 26.2 - - - +
95A MET* 1.3 76.4 - - - +
97A ALA* 1.3 64.0 + - - +
99A GLY 2.9 11.6 + - - -
100A PHE 2.8 28.0 + - - -
101A TYR* 4.1 1.6 - - - -
102A HIS* 3.0 22.8 + + - -
147A MET* 3.4 16.0 - - + +
999A ZN 2.2 35.9 - - - -
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Residues in contact with ALA 97 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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10A TRP* 2.9 23.8 + - - +
15A ILE* 5.4 3.8 - - + -
45A PHE* 6.5 0.4 - - + -
55A VAL* 4.3 24.0 - - + -
66A SER* 3.6 12.6 - - - +
67A TYR 3.4 9.8 + - - +
69A GLY* 3.1 14.9 - - - +
75A GLN* 4.5 5.4 - - - +
77A VAL* 4.6 3.4 - - + -
93A GLU 3.2 3.9 + - - +
94A LEU* 3.1 15.8 + - + +
96A HIS* 1.3 79.1 - - - +
98A ILE* 1.3 60.4 + - + +
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Residues in contact with ILE 98 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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8A TYR 4.8 0.2 - - - +
9A LEU* 4.3 4.0 - - - +
10A TRP* 4.2 3.4 - - - -
15A ILE* 3.7 20.2 - - + -
37A LEU* 4.0 30.7 - - + -
43A ILE* 4.2 20.2 - - + -
45A PHE* 4.5 2.2 - - + -
69A GLY* 4.3 1.8 - - - -
94A LEU 2.9 20.3 + - - +
95A MET* 3.5 13.5 - - - +
97A ALA* 1.3 77.1 - - - +
99A GLY* 1.3 55.9 + - - +
100A PHE* 4.1 12.1 - - + -
190A ILE* 4.0 22.7 - - + -
194A TYR* 2.7 51.2 + - + +
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Residues in contact with GLY 99 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2A ALA* 3.4 5.7 - - - +
3A ILE* 2.9 38.3 + - - +
68A VAL* 3.7 6.9 - - - +
69A GLY* 3.7 15.0 - - - -
95A MET 3.3 1.4 + - - -
96A HIS 2.9 7.4 + - - -
97A ALA 3.2 0.2 - - - -
98A ILE* 1.3 78.9 - - - +
100A PHE* 1.3 68.2 + - - +
193A LEU* 4.6 3.4 - - - -
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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