Contacts of the helix formed by residues 101 - 120 (chain A) 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 A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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99A LYS 2.9 15.8 + - - +
100A ILE* 1.3 75.4 - - - +
102A GLU* 1.3 63.8 + - - +
103A THR* 2.7 33.8 + - - -
104A ILE* 3.0 21.4 + - - +
105A ILE* 3.0 24.7 + - - +
19C U 3.6 12.7 + - - -
20C G 3.2 28.0 + - - -
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Residues in contact with GLU 102 (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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77A GLU* 3.3 16.0 - - - +
78A GLU* 4.4 13.7 - - - +
81A ASN* 2.9 55.6 + - - +
101A ASN* 1.3 75.8 - - - +
103A THR* 1.3 57.0 + - - +
105A ILE* 4.8 3.1 - - + -
106A GLY 3.0 14.9 + - - -
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Residues in contact with THR 103 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
77A GLU* 3.1 28.3 + - - +
101A ASN* 2.7 17.1 + - - -
102A GLU* 1.3 70.7 - - - +
104A ILE* 1.3 68.5 + - + +
106A GLY 4.1 0.3 - - - -
107A ASP* 3.2 36.1 + - - +
20C G 4.2 14.4 + - - +
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Residues in contact with ILE 104 (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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27A HIS* 3.6 22.0 - - + +
36A TYR* 3.3 24.5 - - + +
93A ILE* 4.0 32.5 - - + -
95A ILE* 4.7 9.2 - - + -
99A LYS 4.4 4.9 - - - +
100A ILE* 4.2 7.2 - - + -
101A ASN* 3.0 35.5 + - - +
103A THR* 1.3 80.8 - - + +
105A ILE* 1.3 60.5 + - - +
107A ASP* 3.0 4.9 + - - +
108A VAL* 2.9 31.6 + - + +
19C U 4.6 9.9 - - - +
20C G 5.8 0.7 - - - +
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Residues in contact with ILE 105 (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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81A ASN* 3.2 30.5 - - - +
84A ALA* 3.8 25.8 - - + -
89A LEU* 4.2 8.7 - - + +
90A HIS* 5.3 11.0 - - + +
93A ILE* 4.3 11.7 - - + -
100A ILE* 3.6 25.4 - - + +
101A ASN 3.0 20.9 + - - +
102A GLU* 4.2 3.4 - - + -
104A ILE* 1.3 76.5 - - - +
106A GLY* 1.3 56.0 + - - +
108A VAL* 3.3 1.8 + - - +
109A PHE* 2.9 28.6 + - - +
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Residues in contact with GLY 106 (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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77A GLU* 4.8 7.2 - - - -
80A PHE* 4.1 18.7 - - - -
81A ASN* 4.4 4.3 - - - -
102A GLU 3.0 17.4 + - - -
103A THR 4.1 0.7 - - - -
105A ILE* 1.3 77.8 - - - +
107A ASP* 1.3 63.5 + - - +
109A PHE* 3.5 7.3 + - - +
110A GLU* 3.3 29.4 + - - +
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Residues in contact with ASP 107 (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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36A TYR* 3.7 25.5 + - + +
40A GLU* 3.3 22.6 - - - +
103A THR* 3.2 30.6 + - - +
104A ILE* 3.0 5.0 + - - +
106A GLY* 1.3 74.4 - - - +
108A VAL* 1.3 61.6 + - - +
110A GLU* 3.4 4.1 + - - -
111A ALA* 3.0 27.9 + - - +
501A MG 2.3 31.7 - - - -
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Residues in contact with VAL 108 (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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24A ALA 3.5 18.2 - - - +
25A LEU* 3.9 24.7 - - + -
36A TYR* 3.6 29.8 - - + -
89A LEU* 4.1 12.3 - - + -
93A ILE* 3.7 30.7 - - + -
104A ILE* 2.9 21.1 + - + +
105A ILE 3.8 3.6 - - - +
107A ASP* 1.3 73.9 - - - +
109A PHE* 1.3 67.6 + - - +
111A ALA* 4.3 1.1 - - - -
112A LEU* 2.8 24.4 + - + +
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Residues in contact with PHE 109 (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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47A VAL* 4.7 3.1 - - + -
80A PHE* 3.7 43.3 - + + -
83A LEU* 3.9 20.6 - - + -
84A ALA* 3.8 20.4 - - + -
87A LEU* 4.2 10.8 - - + -
89A LEU* 4.0 9.4 - - + +
105A ILE 2.9 17.1 + - - +
106A GLY* 3.5 7.9 - - - +
108A VAL* 1.3 79.6 - - - +
110A GLU* 1.3 65.9 + - - +
112A LEU* 3.4 3.2 + - - +
113A TRP* 3.1 42.5 + + - -
131A PHE* 3.9 16.8 - + - -
135A PHE* 3.7 38.6 - + - -
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Residues in contact with GLU 110 (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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40A GLU* 3.1 15.8 - - - +
43A GLY* 3.2 15.6 - - - +
44A ASN* 3.2 49.5 + - - +
47A VAL* 4.9 4.7 - - + -
75A ILE 5.1 1.2 - - - +
80A PHE* 3.6 27.1 - - + -
106A GLY 3.3 12.6 + - - +
107A ASP* 3.3 6.7 - - - +
108A VAL 3.2 0.2 - - - -
109A PHE* 1.3 78.1 - - + +
111A ALA* 1.3 63.2 + - - +
113A TRP* 3.2 12.5 + - - +
114A ALA 3.2 8.8 + - - -
501A MG 2.3 29.6 - - - -
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Residues in contact with ALA 111 (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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24A ALA* 3.9 9.4 - - + +
36A TYR* 3.7 29.4 - - + +
39A LEU* 3.7 27.1 - - + +
40A GLU* 3.8 4.9 - - - +
107A ASP 3.0 17.9 + - - +
108A VAL 3.3 3.6 + - - +
110A GLU* 1.3 75.3 - - - +
112A LEU* 1.3 52.5 + - - +
114A ALA* 3.1 4.0 + - - +
115A ALA* 2.8 34.3 + - - +
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Residues in contact with LEU 112 (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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7A LEU* 4.3 7.2 - - + -
11A LEU* 3.8 39.5 - - + -
15A PHE* 4.9 2.2 - - + -
21A LEU* 3.4 32.8 - - + -
24A ALA* 3.9 13.6 - - + +
25A LEU* 4.7 4.5 - - + -
87A LEU* 4.2 8.1 - - + -
89A LEU* 4.0 26.9 - - + -
108A VAL* 2.8 19.6 + - + +
109A PHE* 3.4 6.1 - - - +
110A GLU 3.2 0.2 - - - -
111A ALA* 1.3 76.9 - - - +
113A TRP* 1.3 62.1 + - + +
115A ALA* 3.1 3.3 + - - +
116A VAL* 2.9 33.6 + - + +
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Residues in contact with TRP 113 (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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11A LEU* 4.1 17.5 - - + -
43A GLY* 5.2 0.2 - - - -
46A LEU* 3.4 12.1 - - + +
47A VAL* 4.0 15.7 - - + -
50A PHE* 5.0 1.6 - + + -
87A LEU* 5.0 0.6 - - + +
109A PHE* 3.1 57.3 + + - -
110A GLU 3.2 7.6 + - - +
112A LEU* 1.3 81.2 - - + +
114A ALA* 1.3 61.3 + - - +
116A VAL* 3.8 12.1 - - + +
117A TYR* 2.9 28.6 + - - +
127A THR* 3.7 26.1 - - + +
130A LEU* 4.0 21.5 - - + -
131A PHE* 3.8 42.6 - + - -
134A LEU* 3.8 28.5 - - + -
135A PHE* 3.8 9.6 - + - -
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Residues in contact with ALA 114 (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* 3.1 37.0 - - + +
42A LEU* 3.9 15.7 - - + -
43A GLY* 3.4 14.0 - - - +
46A LEU* 4.3 4.9 - - - -
110A GLU 3.2 4.4 + - - -
111A ALA 3.1 7.7 + - - +
113A TRP* 1.3 76.0 - - - +
115A ALA* 1.3 58.8 + - - +
117A TYR* 3.2 7.6 + - - +
118A ILE* 2.9 34.6 + - - +
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Residues in contact with ALA 115 (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 PHE* 3.7 20.6 - - + -
20A LEU* 3.8 25.7 - - + +
21A LEU* 4.7 0.2 - - - -
24A ALA* 4.0 18.4 - - + -
39A LEU* 4.4 2.4 - - + +
111A ALA 2.8 13.6 + - - +
112A LEU* 3.3 9.2 - - - +
114A ALA* 1.3 74.0 - - - +
116A VAL* 1.3 60.9 + - - +
118A ILE* 3.3 1.3 + - - -
119A ASP* 2.8 32.7 + - - +
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Residues in contact with VAL 116 (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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11A LEU* 4.2 17.7 - - + -
13A TYR* 4.2 15.2 + - + -
15A PHE* 3.8 25.1 - - + -
112A LEU* 2.9 20.9 + - + +
113A TRP* 3.8 19.1 - - + +
115A ALA* 1.3 75.1 - - - +
117A TYR* 1.3 65.3 + - - +
119A ASP* 3.9 0.5 - - - +
120A SER* 3.0 25.8 + - - -
126A PHE* 4.6 5.2 - - + -
127A THR* 4.0 16.2 - - + +
130A LEU* 3.9 25.4 - - + -
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Residues in contact with TYR 117 (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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42A LEU* 4.1 17.3 - - + -
46A LEU* 3.4 21.8 - - + -
113A TRP 2.9 20.2 + - - +
114A ALA 3.4 2.5 - - - +
116A VAL* 1.3 76.7 - - - +
118A ILE* 1.3 61.3 + - + +
120A SER* 2.9 11.1 + - - -
122A ARG* 2.8 60.4 + - + +
123A ASP 3.9 9.6 - - - -
124A ALA* 3.6 14.1 - - + -
127A THR* 3.3 11.6 + - - +
49B PHE* 3.3 25.7 - + - -
53B ASP* 2.6 42.7 + - - -
128B ARG* 2.9 18.2 + - - -
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Residues in contact with ILE 118 (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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20A LEU* 3.6 18.6 - - + -
39A LEU* 4.0 20.6 - - + -
42A LEU* 3.9 20.6 - - + -
114A ALA 2.9 21.0 + - - +
115A ALA 3.9 2.5 - - - +
117A TYR* 1.3 74.3 - - + +
119A ASP* 1.3 59.6 + - - +
121A GLY* 2.9 21.0 + - - -
122A ARG* 3.6 45.6 + - - +
56B VAL* 5.4 4.7 - - + -
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Residues in contact with ASP 119 (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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13A TYR* 2.4 26.2 + - - +
15A PHE* 3.4 25.0 - - + -
16A LYS* 2.9 30.4 + - - +
17A ASP* 2.9 35.9 + - - +
20A LEU* 3.8 8.0 - - + +
115A ALA 2.8 21.4 + - - +
116A VAL 4.0 1.3 - - - +
118A ILE* 1.3 69.7 - - - +
120A SER* 1.3 57.8 + - - +
121A GLY* 3.0 8.9 + - - -
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Residues in contact with SER 120 (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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13A TYR* 3.4 13.0 + - - -
116A VAL 3.0 13.3 + - - -
117A TYR 2.9 17.0 + - - -
119A ASP* 1.3 75.5 - - - +
121A GLY* 1.3 58.6 + - - +
123A ASP* 3.4 25.5 + - - +
126A PHE* 3.9 25.1 - - - -
127A THR* 3.8 5.9 + - - -
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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