Contacts of the helix formed by residues 91 - 108 (chain C) in PDB entry 3OPS
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 91 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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68C TRP* 4.2 19.1 - + - -
72C VAL* 4.5 16.2 - - + -
75C ARG* 3.4 27.8 + - - -
79C ASP* 4.3 5.2 + - - +
80C LEU* 3.3 63.8 - - + +
87C LEU* 3.9 15.2 - - + +
88C ARG* 3.0 30.3 + - + +
90C ALA* 1.3 90.2 - - + +
92C ARG* 1.3 55.8 + - - +
93C LEU 3.6 1.1 - - - -
94C GLN* 4.1 1.6 - - - -
95C LEU* 2.8 41.0 + - + +
96C GLU 3.5 1.7 + - - -
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Residues in contact with ARG 92 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82C ASP* 5.3 2.2 + - - -
86C ARG* 4.2 7.5 - - - +
87C LEU* 2.5 35.3 + - + +
88C ARG* 3.4 9.3 - - - +
89C GLU* 3.4 32.0 + - - +
90C ALA 3.5 0.4 - - - -
91C TYR* 1.3 74.2 - - - +
93C LEU* 1.3 70.2 + - + +
96C GLU* 2.9 53.9 + - - +
289C PRO 4.9 4.3 - - - +
292C THR* 3.4 19.2 - - - +
293C HIS* 4.0 25.3 + - - +
296C GLU* 2.9 33.3 + - - -
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Residues in contact with LEU 93 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60C SER* 4.4 2.8 + - - +
61C SER* 3.6 4.0 - - - -
62C ILE* 3.1 44.3 + - + +
63C HIS* 4.1 20.9 - - + +
89C GLU 4.9 2.2 + - - +
92C ARG* 1.3 80.6 - - + +
94C GLN* 1.3 72.2 + - - +
96C GLU* 4.8 2.7 + - - +
97C TYR* 5.7 2.3 - - - -
287C ILE* 3.4 19.0 - - - +
288C TRP* 4.0 20.6 - - + +
289C PRO* 3.2 33.7 - - + +
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Residues in contact with GLN 94 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61C SER* 2.8 28.6 + - - -
62C ILE 3.4 11.0 - - - +
63C HIS* 2.7 37.9 + - - +
64C MSE 3.4 17.3 - - + +
68C TRP* 3.4 48.4 - - + +
89C GLU 5.3 0.2 - - - +
90C ALA 3.3 18.0 + - - +
91C TYR 4.1 0.5 - - - -
93C LEU* 1.3 91.0 + - - +
95C LEU* 1.3 66.7 + - - +
96C GLU 3.9 0.2 - - - -
98C PRO* 4.0 2.6 - - - +
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Residues in contact with LEU 95 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17C ILE* 4.1 12.1 - - + -
48C ALA* 4.8 1.3 - - + -
50C ILE* 3.7 34.8 - - + -
64C MSE 4.6 7.0 - - - -
68C TRP* 4.0 20.9 - - + -
72C VAL* 3.9 26.7 - - + -
80C LEU* 5.2 5.8 - - + -
87C LEU* 4.6 0.9 - - + -
91C TYR* 2.8 26.0 + - + +
94C GLN* 1.3 81.7 - - - +
96C GLU* 1.3 56.9 + - - +
97C TYR 3.5 1.8 - - - -
98C PRO* 3.4 19.6 - - + +
99C VAL* 2.9 44.6 + - + +
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Residues in contact with GLU 96 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
87C LEU* 3.5 22.4 - - + -
91C TYR 3.5 2.4 + - - -
92C ARG* 2.9 36.2 + - - +
93C LEU* 4.8 1.3 + - - +
94C GLN 3.9 0.4 - - - -
95C LEU* 1.3 75.4 - - - +
97C TYR* 1.3 79.2 - - + +
98C PRO* 4.1 0.2 - - - +
99C VAL* 3.6 1.5 - - - +
100C LEU* 2.8 39.2 + - + +
287C ILE 4.3 3.5 - - - +
289C PRO 4.0 2.8 - - - +
290C GLY* 3.2 13.2 - - - -
291C PHE* 3.0 29.9 + - + -
292C THR* 2.9 32.6 + - - +
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Residues in contact with TYR 97 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59C GLY* 4.0 3.1 - - - -
60C SER* 3.7 25.5 + - - +
93C LEU 5.7 2.2 - - - -
96C GLU* 1.3 92.4 - - + +
98C PRO* 1.4 67.1 - - + +
99C VAL 3.1 0.9 - - - -
100C LEU* 4.8 0.4 - - + -
101C ASP* 2.8 34.0 + - - +
286C ILE* 2.6 29.4 + - - +
287C ILE* 4.3 16.4 - - + -
291C PHE* 3.3 33.5 - + + +
317C TYR* 3.4 26.5 - + + +
321C ALA* 3.5 31.0 - - + +
365C PHE* 3.6 19.5 - + - -
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Residues in contact with PRO 98 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48C ALA* 3.9 19.7 - - + +
50C ILE* 3.5 27.2 - - + +
57C GLY 3.8 3.6 - - - -
58C TYR 3.7 13.2 - - - -
59C GLY* 3.6 14.8 - - - +
60C SER 3.2 19.3 - - - +
94C GLN 4.0 1.8 - - - +
95C LEU* 3.4 31.4 - - + +
97C TYR* 1.4 88.9 - - + +
99C VAL* 1.3 56.7 + - - +
102C TRP* 2.9 27.7 + - - +
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Residues in contact with VAL 99 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50C ILE* 4.4 16.4 - - + -
52C ILE* 5.1 1.6 - - + -
77C LEU* 4.2 20.2 - - + -
80C LEU* 4.8 13.7 - - + -
81C PHE* 4.2 11.4 - - + -
87C LEU* 4.6 10.5 - - + -
95C LEU* 2.9 40.1 + - + +
96C GLU* 3.6 5.4 - - - +
98C PRO* 1.3 74.6 - - - +
100C LEU* 1.3 62.6 + - + +
102C TRP* 3.1 8.8 + - + +
103C LEU* 2.9 42.7 + - + +
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Residues in contact with LEU 100 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4C ASN* 3.4 27.6 - - - +
81C PHE* 6.1 1.8 - - + -
87C LEU* 6.4 0.4 - - + -
96C GLU* 2.8 35.9 + - + +
97C TYR* 4.6 0.9 - - + +
99C VAL* 1.3 71.5 - - + +
101C ASP* 1.3 66.6 + - - +
103C LEU* 3.4 13.6 + - + +
104C GLY 3.2 17.2 + - - -
111C VAL* 3.6 18.0 - - + +
114C LEU* 4.5 3.5 - - + +
115C VAL* 4.3 15.0 - - + -
291C PHE* 3.7 34.8 - - + -
292C THR* 5.0 4.0 - - - +
295C MSE 5.8 0.9 - - - -
365C PHE* 3.6 24.2 - - + -
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Residues in contact with ASP 101 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57C GLY* 3.6 4.5 - - - -
58C TYR* 3.0 49.8 + - - +
97C TYR 2.8 10.4 + - - +
98C PRO 3.9 0.2 - - - +
100C LEU* 1.3 76.5 - - - +
102C TRP* 1.3 61.8 + - - +
104C GLY* 3.1 2.9 + - - -
105C GLN* 2.8 55.5 + - - +
364C GLY* 3.3 2.6 - - - -
365C PHE* 3.2 31.4 + - + +
366C GLY 4.7 1.0 + - - -
367C ILE 5.2 5.9 + - - +
369C PHE* 5.8 1.5 - - - -
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Residues in contact with TRP 102 (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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12C TRP* 3.5 34.1 - + - -
50C ILE* 4.4 4.3 - - + -
52C ILE* 2.9 59.1 + - + +
53C ASP* 4.2 0.9 - - + -
55C GLN* 2.9 28.6 + - + +
56C THR 3.9 9.9 - - - -
57C GLY* 3.9 10.4 - - - -
77C LEU* 4.0 15.0 - - + -
98C PRO 2.9 16.7 + - - +
99C VAL* 3.1 13.2 + - + +
101C ASP* 1.3 74.6 - - - +
103C LEU* 1.3 78.0 + - + +
105C GLN* 3.1 7.1 + - - +
106C ARG* 2.9 67.2 + - + -
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Residues in contact with LEU 103 (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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4C ASN* 4.7 7.6 - - - +
5C ILE 5.8 2.9 - - - +
6C THR* 5.9 1.8 - - + -
8C ILE* 4.1 28.0 - - + -
12C TRP* 5.7 0.7 - - + -
77C LEU* 4.3 2.2 - - + -
81C PHE* 4.1 23.3 - - + -
99C VAL* 2.9 27.1 + - + +
100C LEU* 3.7 18.2 - - + +
101C ASP 3.3 0.2 - - - -
102C TRP* 1.3 98.8 - - + +
104C GLY* 1.3 58.0 + - - +
106C ARG* 3.4 0.7 + - - -
107C GLN* 3.0 57.4 + - - +
114C LEU* 3.7 13.9 - - + -
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Residues in contact with GLY 104 (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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100C LEU 3.2 5.8 + - - -
101C ASP 3.1 4.9 + - - -
103C LEU* 1.3 75.3 - - - +
105C GLN* 1.3 59.0 + - - +
108C GLY* 2.9 9.2 + - - -
109C LYS* 2.6 51.1 + - - +
111C VAL 5.1 0.4 - - - -
114C LEU* 3.9 8.9 - - - +
363C PRO* 3.5 1.4 - - - +
364C GLY* 3.5 13.0 - - - -
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Residues in contact with GLN 105 (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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55C GLN* 3.6 25.2 + - - +
56C THR 4.0 14.8 - - - +
101C ASP* 2.8 56.8 + - - +
102C TRP 3.3 7.0 - - - +
104C GLY* 1.3 75.7 - - - +
106C ARG* 1.3 61.1 + - - +
108C GLY* 3.5 10.0 + - - -
363C PRO* 3.5 31.5 + - - +
364C GLY* 3.7 1.6 - - - -
366C GLY 5.3 0.2 - - - +
367C ILE 5.2 5.5 + - - -
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Residues in contact with ARG 106 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12C TRP* 3.3 38.6 - - + -
53C ASP* 2.5 50.8 + - - -
55C GLN* 2.8 43.4 + - - +
102C TRP* 2.9 50.6 + - + +
103C LEU 4.0 1.3 - - - +
105C GLN* 1.3 77.1 - - - +
107C GLN* 1.3 67.3 + - + +
108C GLY 3.6 0.3 + - - -
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Residues in contact with GLN 107 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
5C ILE 4.9 12.0 + - - +
7C GLY 6.1 1.1 - - - +
8C ILE* 6.0 0.4 - - - +
12C TRP* 6.3 1.3 - - + -
103C LEU* 3.0 47.6 + - - +
106C ARG* 1.3 84.1 - - + +
108C GLY* 1.3 62.7 + - - +
109C LYS* 3.9 30.4 - - + +
114C LEU* 3.7 22.3 - - - +
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Residues in contact with GLY 108 (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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104C GLY 2.9 6.4 + - - -
105C GLN 3.5 7.2 + - - -
106C ARG 3.3 4.4 + - - -
107C GLN* 1.3 79.8 - - - +
109C LYS* 1.3 60.5 + - - +
110C PRO* 4.4 2.3 - - - +
361C ALA 5.7 0.7 - - - +
363C PRO* 4.0 22.3 - - - +
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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