Contacts of the helix formed by residues 101 - 120 (chain B) in PDB entry 2EZ6
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 ASN 101 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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99B LYS* 2.6 19.0 + - + +
100B ILE* 1.3 71.3 - - - +
102B GLU* 1.3 63.5 + - - +
103B THR* 2.6 30.2 + - - -
104B ILE* 2.9 19.3 + - - +
105B ILE* 3.0 27.8 + - - +
19D U 3.6 10.3 + - - -
20D G 2.8 34.2 + - - -
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Residues in contact with GLU 102 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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77B GLU* 3.3 21.9 - - - +
78B GLU* 5.4 7.6 - - - +
81B ASN* 2.7 53.5 + - - +
101B ASN* 1.3 76.4 - - + +
103B THR* 1.3 62.9 + - - +
105B ILE* 3.9 3.3 - - + +
106B GLY 3.1 8.7 + - - -
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Residues in contact with THR 103 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
77B GLU* 3.1 24.0 + - - +
101B ASN* 2.6 18.8 + - - -
102B GLU* 1.3 71.3 - - - +
104B ILE* 1.3 69.3 + - + +
106B GLY* 3.4 1.4 + - - -
107B ASP* 3.1 42.2 + - - +
20D G 4.0 14.9 + - - +
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Residues in contact with ILE 104 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27B HIS* 3.6 24.0 - - + +
36B TYR* 3.4 25.8 - - + +
93B ILE* 4.1 28.7 - - + -
95B ILE* 4.5 9.4 - - + -
99B LYS 4.1 15.3 - - - +
100B ILE* 4.4 5.8 - - + -
101B ASN* 2.9 26.9 + - - +
103B THR* 1.3 81.9 - - + +
105B ILE* 1.3 57.9 + - - +
107B ASP* 3.3 3.1 + - - +
108B VAL* 2.9 33.6 + - + +
19D U 4.7 12.1 - - - +
20D G 6.1 0.2 - - - +
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Residues in contact with ILE 105 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
81B ASN* 3.2 28.7 - - - +
84B ALA* 3.8 26.5 - - + -
89B LEU* 3.8 11.8 - - + +
90B HIS* 5.2 11.0 - - + +
93B ILE* 4.4 10.8 - - + -
100B ILE* 3.7 27.1 - - + +
101B ASN 3.0 21.2 + - - +
102B GLU* 3.9 2.5 - - + +
103B THR 3.3 0.2 - - - -
104B ILE* 1.3 76.7 - - - +
106B GLY* 1.3 57.1 + - - +
108B VAL 3.4 0.7 + - - -
109B PHE* 2.8 27.7 + - - +
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Residues in contact with GLY 106 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
77B GLU* 5.1 5.6 - - - -
80B PHE* 4.2 16.1 - - - -
81B ASN* 4.0 7.4 - - - +
102B GLU 3.1 13.4 + - - -
103B THR 3.9 2.2 - - - -
105B ILE* 1.3 79.0 - - - +
107B ASP* 1.3 63.8 + - - +
109B PHE* 3.2 9.1 + - - +
110B GLU* 3.0 31.1 + - - +
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Residues in contact with ASP 107 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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36B TYR* 3.8 20.8 + - + +
40B GLU* 3.5 25.7 - - + +
103B THR* 3.1 32.2 + - - +
104B ILE* 3.8 3.8 - - - +
106B GLY* 1.3 74.2 - - - +
108B VAL* 1.3 60.1 + - - +
110B GLU* 3.0 6.2 + - - +
111B ALA* 2.9 30.2 + - - +
502B MG 2.1 34.5 - - - -
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Residues in contact with VAL 108 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24B ALA 3.8 15.0 - - - +
25B LEU* 3.9 25.1 - - + +
36B TYR* 3.4 30.7 - - + -
89B LEU* 4.0 12.8 - - + -
93B ILE* 3.7 29.6 - - + -
104B ILE* 2.9 22.9 + - + +
105B ILE 3.8 3.6 - - - +
107B ASP* 1.3 73.4 - - - +
109B PHE* 1.3 62.2 + - - +
111B ALA* 4.0 1.5 - - - +
112B LEU* 2.8 34.3 + - + +
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Residues in contact with PHE 109 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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47B VAL* 4.7 3.6 - - + -
80B PHE* 3.8 45.1 - + + -
83B LEU* 4.2 16.6 - - + -
84B ALA* 4.2 18.4 - - + -
87B LEU* 4.2 12.1 - - + -
89B LEU* 4.0 8.9 - - + +
105B ILE 2.8 14.5 + - - +
106B GLY* 3.3 11.7 - - - +
107B ASP 3.1 0.2 - - - -
108B VAL* 1.3 80.4 - - - +
110B GLU* 1.3 63.3 + - - +
112B LEU* 3.4 3.7 - - + +
113B TRP* 3.0 57.8 + + - -
131B PHE* 3.9 13.0 - + - -
135B PHE* 3.5 33.2 - + - -
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Residues in contact with GLU 110 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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40B GLU* 3.2 11.2 - - + +
43B GLY* 3.1 25.2 - - - +
44B ASN* 3.3 45.7 + - - +
47B VAL* 4.8 4.5 - - + -
80B PHE* 3.6 30.8 - - + -
106B GLY 3.0 10.7 + - - +
107B ASP* 3.0 15.1 + - - +
109B PHE* 1.3 76.4 - - - +
111B ALA* 1.3 63.7 + - - +
113B TRP* 3.2 11.3 + - - +
114B ALA 3.2 0.9 + - - -
502B MG 2.3 29.9 - - - -
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Residues in contact with ALA 111 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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24B ALA* 3.8 9.2 - - - +
36B TYR* 3.6 30.1 - - + +
39B LEU* 3.7 19.3 - - + +
40B GLU* 3.6 13.6 - - - +
107B ASP 2.9 20.2 + - - +
108B VAL 4.0 2.9 - - - +
110B GLU* 1.3 74.1 - - - +
112B LEU* 1.3 56.3 + - - +
114B ALA* 3.1 3.1 + - - +
115B ALA* 2.9 29.5 + - - +
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Residues in contact with LEU 112 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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7B LEU* 4.4 8.5 - - + -
11B LEU* 3.4 43.1 - - + -
15B PHE* 4.7 1.8 - - + -
21B LEU* 4.3 19.3 - - + -
24B ALA* 3.9 12.5 - - + +
25B LEU* 5.0 2.0 - - + -
87B LEU* 4.4 7.0 - - + -
89B LEU* 3.4 33.9 - - + -
108B VAL* 2.8 21.0 + - + +
109B PHE* 3.4 7.2 - - - +
111B ALA* 1.3 77.8 - - - +
113B TRP* 1.3 66.2 + - + +
115B ALA* 3.4 1.8 + - + +
116B VAL* 3.2 22.6 + - + +
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Residues in contact with TRP 113 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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11B LEU* 4.7 14.1 - - + -
43B GLY* 5.1 0.2 - - - -
46B LEU* 3.4 17.9 - - + +
47B VAL* 3.9 21.5 - - + -
50B PHE* 5.0 1.1 - + + -
87B LEU* 5.0 2.4 - - + +
109B PHE* 3.0 59.1 + + - -
110B GLU 3.2 8.3 + - - +
112B LEU* 1.3 78.2 - - + +
114B ALA* 1.3 64.8 + - - +
116B VAL* 3.5 12.1 + - + +
117B TYR 3.1 17.3 + - - -
127B THR* 3.7 25.2 - - + +
130B LEU* 4.0 22.0 - - + -
131B PHE* 3.6 35.2 - + - -
134B LEU* 3.7 24.0 - - + -
135B PHE* 3.6 20.6 - + - -
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Residues in contact with ALA 114 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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39B LEU* 3.1 35.2 - - + +
42B LEU* 3.8 17.0 - - + -
43B GLY* 3.4 13.8 - - - +
46B LEU* 4.3 5.4 - - - -
110B GLU 3.2 4.4 + - - -
111B ALA 3.1 6.0 + - - +
113B TRP* 1.3 76.4 - - - +
115B ALA* 1.3 57.9 + - - +
117B TYR* 3.3 8.2 + - - +
118B ILE* 2.9 34.4 + - - +
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Residues in contact with ALA 115 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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15B PHE* 3.7 20.6 - - + -
20B LEU* 3.4 28.7 - - + +
24B ALA* 4.0 10.1 - - + -
39B LEU* 4.5 8.0 - - + +
111B ALA 2.9 13.2 + - - +
112B LEU* 3.5 9.4 - - - +
113B TRP 3.3 0.2 - - - -
114B ALA* 1.3 73.9 - - - +
116B VAL* 1.3 56.5 + - - +
118B ILE* 3.2 1.8 + - - +
119B ASP* 2.8 37.4 + - - +
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Residues in contact with VAL 116 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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11B LEU* 4.3 14.8 - - + -
13B TYR* 4.3 18.1 + - + -
15B PHE* 3.8 25.1 - - + -
112B LEU* 3.2 15.1 + - + +
113B TRP* 3.8 20.0 - - + +
114B ALA 3.4 0.2 - - - -
115B ALA* 1.3 75.7 - - - +
117B TYR* 1.3 64.6 + - - +
119B ASP* 3.8 2.3 - - - +
120B SER* 3.0 23.4 + - - -
126B PHE* 4.7 6.1 - - + -
127B THR* 4.0 18.8 - - + +
130B LEU* 4.2 20.0 - - + -
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Residues in contact with TYR 117 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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49A PHE* 3.4 21.5 - + - -
53A ASP* 2.4 43.2 + - - -
128A ARG* 3.0 18.4 + - - -
42B LEU* 4.0 20.9 - - + -
46B LEU* 3.6 19.7 - - + -
113B TRP 3.1 11.9 + - - +
114B ALA 3.3 6.3 - - - +
116B VAL* 1.3 77.7 - - - +
118B ILE* 1.3 61.7 + - + +
120B SER* 2.8 17.8 + - - -
122B ARG* 2.8 53.1 + - + -
123B ASP 3.8 4.0 - - - -
124B ALA* 3.6 21.8 - - - -
127B THR* 3.3 12.5 + - - +
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Residues in contact with ILE 118 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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56A VAL* 6.0 0.4 - - + -
20B LEU* 3.7 19.3 - - + -
39B LEU* 4.0 21.1 - - + -
42B LEU* 3.8 20.0 - - + -
114B ALA 2.9 18.1 + - - +
115B ALA 3.8 2.7 - - - +
117B TYR* 1.3 83.6 - - + +
119B ASP* 1.3 58.3 + - - +
121B GLY* 2.9 20.1 + - - -
122B ARG* 3.5 42.1 + - - +
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Residues in contact with ASP 119 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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13B TYR* 2.7 23.2 + - + +
15B PHE* 3.2 27.3 - - + -
16B LYS* 2.8 39.1 + - - +
17B ASP* 3.0 34.1 + - - +
20B LEU* 3.5 7.5 - - + +
115B ALA 2.8 22.3 + - - +
116B VAL 3.8 2.2 - - - +
118B ILE* 1.3 73.9 - - - +
120B SER* 1.3 56.8 + - - +
121B GLY 3.1 4.0 + - - -
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Residues in contact with SER 120 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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13B TYR* 3.5 13.9 - - - -
16B LYS* 5.6 1.8 - - - -
116B VAL 3.0 13.3 + - - -
117B TYR 2.8 16.8 + - - -
119B ASP* 1.3 75.4 - - - +
121B GLY* 1.3 59.2 + - - +
123B ASP* 3.3 26.2 + - - +
126B PHE* 4.1 22.2 - - - -
127B THR* 3.8 6.2 + - - -
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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
------------------------------------------------------------
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