Contacts of the helix formed by residues 82 - 101 (chain A) in PDB entry 4OG6
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 ASP 82 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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11A PHE* 4.2 1.3 - - - -
12A PRO* 3.7 19.7 - - - +
14A ARG* 5.7 0.7 + - - -
43A PHE* 5.3 0.2 - - - -
80A VAL* 3.6 18.5 + - - +
81A ALA* 1.3 75.7 - - - +
83A LEU* 1.3 66.4 + - - +
84A SER* 4.2 15.0 - - - +
85A ILE* 3.2 19.0 + - + +
86A ILE* 3.1 21.3 + - - +
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Residues in contact with LEU 83 (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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3A LEU* 4.5 7.2 - - + -
8A LYS* 3.9 48.9 - - + +
11A PHE* 3.8 42.2 - - + +
12A PRO* 4.9 0.6 - - - +
81A ALA 3.9 1.8 + - - -
82A ASP* 1.3 72.4 - - - +
84A SER* 1.3 55.0 + - - +
86A ILE* 4.6 0.9 - - + +
87A ALA* 2.7 52.6 + - + +
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Residues in contact with SER 84 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82A ASP* 4.2 8.0 - - - +
83A LEU* 1.3 77.8 - - - +
85A ILE* 1.3 68.7 + - - +
87A ALA* 4.0 4.1 - - - +
88A ALA* 3.0 30.7 + - - +
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Residues in contact with ILE 85 (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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43A PHE* 3.9 32.3 - - + -
80A VAL 6.1 0.2 - - - +
82A ASP* 3.2 26.2 + - + +
83A LEU 3.2 0.4 - - - -
84A SER* 1.3 87.3 - - - +
86A ILE* 1.3 64.6 + - + +
88A ALA* 3.3 5.4 + - - +
89A LEU* 3.1 31.1 + - + +
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Residues in contact with ILE 86 (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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3A LEU* 5.4 1.6 - - + -
11A PHE* 3.9 21.3 - - + -
36A LEU* 3.7 30.7 - - + -
39A LEU* 4.5 9.5 - - + +
40A VAL* 4.0 21.1 - - + +
43A PHE* 4.1 33.9 - - + -
81A ALA* 4.2 10.8 - - + -
82A ASP 3.1 15.9 + - - +
83A LEU* 4.1 2.2 - - + +
85A ILE* 1.3 77.2 - - + +
87A ALA* 1.3 58.9 + - - +
89A LEU* 3.3 16.7 + - + +
90A TYR* 2.9 28.8 + - + +
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Residues in contact with ALA 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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3A LEU* 4.3 13.2 - - + -
8A LYS* 5.9 2.7 - - - +
83A LEU* 2.7 37.3 + - + +
84A SER* 4.0 4.3 - - - +
86A ILE* 1.3 74.9 - - - +
88A ALA* 1.3 55.8 + - - +
90A TYR* 3.4 8.4 + - - +
91A ALA* 2.9 28.9 + - - +
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Residues in contact with ALA 88 (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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84A SER 3.0 19.2 + - - +
85A ILE* 3.3 6.3 + - - +
86A ILE 3.3 0.2 - - - -
87A ALA* 1.3 74.7 - - - +
89A LEU* 1.3 59.7 + - - +
91A ALA* 3.3 6.3 + - - +
92A ARG* 2.9 35.0 + - + +
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Residues in contact with LEU 89 (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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39A LEU* 3.8 20.3 - - + +
43A PHE* 4.8 0.7 - - + -
85A ILE* 3.1 28.3 + - + +
86A ILE* 3.6 25.1 - - + +
88A ALA* 1.3 75.7 - - - +
90A TYR* 1.3 62.8 + - - +
92A ARG* 3.2 12.4 + - - +
93A PHE* 3.1 22.0 + - - +
144A PHE* 3.8 27.6 - - + -
147A ILE* 4.0 18.4 - - + +
148A THR* 3.9 27.6 - - + -
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Residues in contact with TYR 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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2A GLY 3.5 17.2 + - - -
3A LEU* 3.7 44.0 - - + -
33A ASP* 2.6 40.0 + - - -
35A VAL* 3.6 17.6 - - + +
36A LEU* 3.7 18.6 - - + -
39A LEU* 3.5 12.7 - - + +
86A ILE* 2.9 17.1 + - + +
87A ALA* 3.6 8.3 - - - +
88A ALA 3.3 0.2 - - - -
89A LEU* 1.3 74.2 - - - +
91A ALA* 1.3 58.6 + - - +
93A PHE* 3.2 4.1 + - - +
94A THR* 2.9 53.9 + - + +
98A ARG* 5.7 3.2 + - - -
167A ALA* 6.0 1.4 - - - +
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Residues in contact with ALA 91 (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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87A ALA 2.9 18.3 + - - +
88A ALA* 3.6 7.6 - - - +
89A LEU 3.3 0.2 - - - -
90A TYR* 1.3 76.0 - - - +
92A ARG* 1.3 59.9 + - - +
94A THR* 3.5 7.4 + - - -
95A ALA* 2.9 34.2 + - - +
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Residues in contact with ARG 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 ALA* 2.9 18.9 + - + +
89A LEU* 3.3 15.4 - - - +
91A ALA* 1.3 75.3 - - - +
93A PHE* 1.3 62.8 + - - +
95A ALA* 4.0 3.6 - - - +
96A GLN* 3.1 43.8 + - - +
147A ILE* 3.7 46.0 + - + +
148A THR* 4.9 6.5 - - - +
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Residues in contact with PHE 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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35A VAL* 3.6 40.4 - - + -
39A LEU* 5.0 2.0 - - + -
89A LEU 3.1 11.8 + - - +
90A TYR 3.5 7.4 - - - +
92A ARG* 1.3 75.4 - - - +
94A THR* 1.3 73.3 + - + +
96A GLN* 3.2 4.4 + - - +
97A ILE* 3.0 51.0 + - + +
125A ILE* 4.4 3.4 - - + -
143A LEU* 3.8 26.2 - - + -
146A PHE* 3.8 35.2 - + - -
147A ILE* 3.7 15.0 - - + +
160A ALA 4.1 5.6 - - - -
164A ALA* 3.9 26.7 - - + -
167A ALA* 4.8 2.5 - - + -
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Residues in contact with THR 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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35A VAL* 5.0 2.0 - - + -
90A TYR* 2.9 46.8 + - + +
91A ALA* 3.5 9.4 + - - -
93A PHE* 1.3 88.2 - - + +
95A ALA* 1.3 58.9 + - - +
97A ILE* 3.3 3.8 + - - +
98A ARG* 2.9 72.0 + - - +
167A ALA* 4.5 9.4 - - + -
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Residues in contact with ALA 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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91A ALA 2.9 20.3 + - - +
92A ARG* 4.0 4.5 - - - +
94A THR* 1.3 74.0 + - - +
96A GLN* 1.3 60.2 + - + +
98A ARG* 4.9 2.7 - - - -
99A GLY* 3.0 28.1 + - - -
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Residues in contact with GLN 96 (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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92A ARG* 3.1 45.9 + - - +
93A PHE* 3.2 5.4 + - - +
95A ALA* 1.3 80.1 - - + +
97A ILE* 1.3 66.4 + - + +
99A GLY* 4.2 0.2 - - - -
100A ALA* 3.4 26.2 + - - +
124A VAL* 4.6 3.0 - - + +
128A SER* 4.7 7.3 + - - +
146A PHE* 3.7 26.6 - - + +
147A ILE* 3.7 19.2 + - - +
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Residues in contact with ILE 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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93A PHE* 3.0 42.1 + - + +
94A THR* 4.0 3.8 - - - +
96A GLN* 1.3 79.4 - - + +
98A ARG* 1.3 62.0 + - + +
100A ALA 3.3 0.2 + - - -
101A VAL* 2.9 37.1 + - + +
121A VAL* 5.4 1.3 - - + -
124A VAL* 4.2 15.7 - - + -
125A ILE* 3.8 29.8 - - + -
146A PHE* 5.2 2.0 - - + -
164A ALA* 3.9 17.7 - - + +
167A ALA* 5.3 3.8 - - + -
168A LEU* 3.6 34.8 - - + -
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Residues in contact with ARG 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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2A GLY* 5.0 10.5 + - - -
90A TYR* 5.7 2.6 + - - -
94A THR* 2.9 44.5 + - - +
95A ALA* 4.4 2.2 - - - +
97A ILE* 1.3 77.0 - - + +
99A GLY* 1.3 63.0 + - - +
101A VAL 3.3 18.8 - - - +
102A ASP* 5.0 1.2 - - - -
167A ALA* 2.8 42.6 + - - +
168A LEU* 4.2 15.8 - - + +
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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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95A ALA 3.0 19.0 + - - -
96A GLN 4.2 0.4 - - - -
98A ARG* 1.3 77.3 - - - +
100A ALA* 1.3 59.1 + - - +
101A VAL 5.0 0.7 - - - -
102A ASP* 5.4 1.4 + - - +
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Residues in contact with ALA 100 (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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96A GLN 3.4 18.1 + - - +
97A ILE 3.3 1.6 + - - +
98A ARG 3.3 0.2 - - - -
99A GLY* 1.3 76.8 - - - +
101A VAL* 1.3 62.0 + - - +
102A ASP* 3.9 2.2 + - - +
120A LYS* 3.3 23.1 + - - +
124A VAL* 3.7 27.1 - - + -
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Residues in contact with VAL 101 (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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97A ILE* 2.9 25.9 + - + +
98A ARG* 3.3 15.0 - - - +
99A GLY 5.0 0.2 - - - -
100A ALA* 1.3 78.0 - - - +
102A ASP* 1.3 60.0 + - - +
103A LEU* 3.4 11.3 + - + +
106A TYR* 4.8 1.1 - - + -
117A LEU* 3.8 29.6 - - + -
120A LYS* 4.4 12.8 - - + +
121A VAL* 4.2 18.4 - - + -
124A VAL* 3.9 22.7 - - + -
168A LEU* 3.9 23.7 - - + +
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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