Contacts of the helix formed by residues 91 - 103 (chain C) in PDB entry 2EHO
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
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Residue Dist Surf HB Arom Phob DC
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174A ARG* 5.3 5.5 + - - -
6C VAL* 4.2 10.1 - - + -
9C LEU* 3.4 46.2 + - + +
10C ALA* 3.6 24.7 - - + -
13C GLU* 3.0 31.9 - - + -
89C SER* 2.7 5.8 + - - +
90C PRO* 1.3 100.4 - - + +
92C TYR* 1.3 70.3 + - - +
93C MSE 2.9 3.4 - - - -
94C GLU* 2.7 46.7 + - - +
95C LEU* 3.2 14.1 + - + -
149C THR* 5.0 3.4 - - - -
150C LEU* 4.6 16.3 - - + +
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Residues in contact with TYR 92 (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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65C TRP* 3.9 20.0 - + + -
87C MSE 3.4 46.0 - - + -
88C PRO* 4.6 5.8 - - + -
89C SER* 2.7 25.4 + - - +
91C TYR* 1.3 76.9 - - - +
93C MSE 1.3 77.7 + - + +
95C LEU* 5.0 0.4 - - - -
96C THR* 2.6 33.6 + - - -
117C VAL* 4.0 26.2 - - + -
120C MSE 3.8 11.2 + - + -
121C TRP* 3.4 27.0 - - + +
124C ARG* 4.0 0.5 - - - -
149C THR* 3.8 14.1 - - + -
152C GLU* 3.3 24.4 + - - -
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Residues in contact with MSE 93 (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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91C TYR 2.7 4.8 + - - -
92C TYR* 1.3 97.3 - - + +
94C GLU* 1.3 74.0 + - - +
96C THR* 3.5 5.5 + - - -
97C LYS* 3.2 20.3 + - + +
117C VAL* 4.6 10.1 - - - -
118C LYS* 5.1 6.3 - - - -
121C TRP* 3.1 50.0 - - + -
149C THR* 5.6 1.3 - - - +
151C MSE 4.6 2.2 - - + -
186D PHE* 3.9 17.3 - - + -
189D TRP* 3.3 32.1 - - + -
190D GLU* 4.2 10.5 - - + +
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Residues in contact with GLU 94 (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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6C VAL* 3.8 4.3 - - + +
7C GLU* 4.1 21.3 - - + +
10C ALA* 3.2 26.9 - - + -
90C PRO 4.3 0.3 - - - +
91C TYR* 2.7 43.8 + - - +
93C MSE 1.3 79.9 + - - +
95C LEU* 1.3 58.2 + - - +
96C THR 3.0 1.1 - - - -
97C LYS* 2.6 25.5 + - - +
98C LEU* 2.7 17.3 + - + +
149C THR* 5.5 0.3 + - - -
151C MSE 3.6 25.9 + - + +
189D TRP* 3.8 21.9 - - + -
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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
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10C ALA* 3.7 27.4 - - + +
13C GLU* 4.0 15.5 - - + -
14C LEU 5.8 2.7 - - - +
15C VAL* 6.5 0.9 - - + -
46C LEU* 3.7 32.5 - - + -
63C PRO* 5.1 8.3 - - + -
65C TRP* 4.2 15.9 - - + +
66C MSE 4.4 5.6 - - + -
89C SER* 3.2 27.6 - - - +
91C TYR* 3.2 14.7 + - + +
92C TYR 4.4 3.1 - - - +
94C GLU* 1.3 78.2 - - - +
96C THR* 1.3 57.0 + - - +
98C LEU 4.5 0.2 - - - +
99C LEU* 2.9 40.9 + - + +
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Residues in contact with THR 96 (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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65C TRP* 4.1 11.4 - - - -
66C MSE 4.5 10.2 - - - +
92C TYR 2.6 23.2 + - - -
93C MSE 3.6 5.8 - - - -
94C GLU 3.0 1.0 - - - -
95C LEU* 1.3 79.0 - - - +
97C LYS* 1.3 58.5 - - - +
100C LEU* 3.0 58.0 + - + +
113C ILE* 5.5 0.4 - - + -
114C ARG* 4.9 2.7 - - + +
117C VAL* 3.6 40.2 - - + +
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Residues in contact with LYS 97 (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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144B LYS* 5.9 5.3 - - - +
7C GLU* 2.6 38.6 + - - +
93C MSE 3.2 13.3 + - + +
94C GLU 2.6 12.1 + - - +
96C THR* 1.3 73.6 - - - +
98C LEU* 1.3 78.0 + - + +
100C LEU* 5.0 0.7 - - - -
101C ASN* 3.2 51.8 + - - +
102C HIS* 6.1 0.2 + - - -
189D TRP* 3.7 46.8 - - + +
190D GLU* 5.1 7.0 - - - +
191D LYS 4.5 3.4 - - - -
192D GLY 5.6 3.9 + - - -
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Residues in contact with LEU 98 (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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144B LYS* 6.5 0.9 - - + -
7C GLU* 3.9 26.2 - - + +
10C ALA* 5.2 0.2 - - + -
11C GLU* 3.7 32.8 - - + +
46C LEU* 3.7 23.1 - - + -
50C ILE* 3.4 25.3 - - + +
94C GLU* 2.7 22.3 + - + +
95C LEU 4.2 0.2 - - - +
97C LYS* 1.3 93.5 - - + +
99C LEU* 1.3 58.3 + - - +
102C HIS* 3.1 50.0 + - + +
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Residues in contact with LEU 99 (chain C).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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15C VAL* 4.8 8.1 - - + -
46C LEU* 4.0 25.4 - - + -
50C ILE* 5.1 1.1 - - + -
60C LEU* 4.1 29.8 - - + -
61C LEU 5.3 0.7 - - - +
62C PRO* 5.0 1.8 - - + -
63C PRO* 3.6 19.5 - - + -
66C MSE 3.4 28.9 - - + -
95C LEU* 2.9 28.2 + - + +
98C LEU* 1.3 76.7 - - - +
100C LEU* 1.3 67.3 + - + +
101C ASN 3.2 0.4 - - - -
103C ALA* 2.8 37.6 + - + +
107C ILE* 3.9 11.3 - - + +
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Residues in contact with LEU 100 (chain C).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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66C MSE 3.9 17.7 - - - -
96C THR* 3.0 35.3 + - + +
97C LYS* 5.0 0.7 - - - -
99C LEU* 1.3 81.0 - - + +
101C ASN* 1.3 66.4 + - - +
104C SER* 3.8 16.4 + - - +
107C ILE* 3.9 25.6 - - + -
110C ALA* 4.4 14.4 - - + -
113C ILE* 4.2 5.4 - - + -
114C ARG* 3.5 66.5 + - + +
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Residues in contact with ASN 101 (chain C).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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97C LYS* 3.2 39.6 + - - +
98C LEU* 4.3 2.0 - - - +
100C LEU* 1.3 88.3 + - - +
102C HIS* 1.3 71.9 + - + +
103C ALA 3.8 0.2 - - - -
104C SER* 5.1 1.7 + - - -
114C ARG* 5.0 7.3 - - - +
190D GLU 5.0 2.4 - - - +
191D LYS 4.3 11.1 - - - +
192D GLY* 5.0 4.0 - - - -
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Residues in contact with HIS 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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144B LYS* 5.6 12.0 + - + +
50C ILE* 3.5 29.9 - - + +
53C LYS* 3.6 19.6 - - + +
54C GLN* 3.0 30.6 + - + +
60C LEU* 5.8 0.7 - - + -
98C LEU* 3.1 42.4 + - + +
99C LEU* 5.0 0.2 - - - -
101C ASN* 1.3 87.1 + - + +
103C ALA* 1.3 61.0 + - + +
104C SER 3.9 0.7 - - - -
105C ASP* 5.7 0.5 - - - +
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Residues in contact with ALA 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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53C LYS* 3.6 17.5 - - - +
60C LEU* 3.5 38.1 - - + -
99C LEU* 2.8 22.2 + - + +
102C HIS* 1.3 76.6 - - + +
104C SER* 1.3 65.9 + - - +
105C ASP* 3.0 5.2 - - - +
106C ASN* 3.0 7.4 + - - +
107C ILE* 2.8 19.1 - - + +
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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