Contacts of the helix formed by residues 138 - 155 (chain E) in PDB entry 2X86
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 138 (chain E).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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39A PHE* 3.3 8.9 - - - -
81E THR* 3.7 34.8 + - - +
84E TRP* 3.5 24.7 - - + -
118E ALA* 5.0 6.1 - - - +
136E PRO* 4.0 1.9 - - - +
137E LEU* 1.3 84.1 - - - +
139E VAL* 1.3 59.2 + - + +
140E PHE* 3.4 8.6 + - - +
141E GLY* 2.7 45.2 + - - -
142E TYR* 2.9 11.6 + - - +
268E LEU* 6.3 0.8 - - - +
271E ARG* 3.9 20.7 + - + +
401E ADP 5.6 1.4 + - - -
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Residues in contact with VAL 139 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33A LEU* 4.1 15.5 - - + -
36A GLY* 3.8 25.6 - - - +
39A PHE* 3.9 8.4 - - + -
83E GLU 3.4 24.0 - - - +
84E TRP* 3.6 25.4 - - + -
86E GLY* 4.1 18.2 - - - -
89E MET* 3.8 16.0 - - + +
90E MET* 5.0 3.4 - - - -
138E ASN* 1.3 72.5 - - - +
140E PHE* 1.3 69.7 + - - +
142E TYR* 4.0 8.1 - - + -
143E SER* 2.9 23.0 + - - -
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Residues in contact with PHE 140 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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78E CYS 3.4 26.9 - - - -
79E SER* 3.9 5.6 - - - -
80E SER 3.7 20.9 - - - +
81E THR* 3.8 21.5 + - + -
83E GLU 4.9 0.2 + - - -
89E MET* 3.9 10.8 - - + -
93E ASN* 4.0 4.9 - - - -
116E SER* 3.9 23.3 - - - -
118E ALA* 4.1 8.1 - - + -
138E ASN* 3.2 9.3 - - - +
139E VAL* 1.3 81.8 - - - +
141E GLY* 1.3 66.1 + - - +
143E SER* 2.6 24.4 + - - -
144E LYS* 3.2 29.2 + - + +
400E NAP 3.2 26.7 - - - -
402E BMA 3.4 18.4 - - - -
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Residues in contact with GLY 141 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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118E ALA* 4.4 14.4 - - - -
119E THR* 3.8 2.9 - - - +
136E PRO* 3.4 17.6 - - - +
138E ASN* 2.7 22.4 + - - -
140E PHE* 1.3 82.3 - - - +
142E TYR* 1.3 57.7 + - - +
144E LYS* 3.2 6.1 + - - +
145E PHE* 2.8 28.9 + - - +
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Residues in contact with TYR 142 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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33A LEU* 4.8 6.3 - - + -
39A PHE* 3.7 42.0 - + + -
42A LEU* 3.4 34.4 + - + +
43A VAL* 4.1 20.4 - - - -
47A ILE* 3.6 21.3 - - - +
50A TYR* 5.8 1.8 - + + -
90E MET* 4.1 29.6 - - + -
136E PRO* 3.6 10.4 - - + +
138E ASN 2.9 6.9 + - - +
139E VAL* 3.5 7.4 - - + +
140E PHE 3.2 0.2 - - - -
141E GLY* 1.3 77.6 - - - +
143E SER* 1.3 58.2 + - - +
145E PHE* 3.2 25.4 + + - +
146E LEU* 2.9 44.7 + - + +
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Residues in contact with SER 143 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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89E MET* 3.6 16.6 - - - +
90E MET* 3.9 22.0 - - - -
93E ASN* 3.2 33.4 + - - +
94E TYR* 4.1 12.0 + - - +
139E VAL 2.9 12.2 + - - -
140E PHE 2.6 20.2 + - - -
142E TYR* 1.3 77.9 - - - +
144E LYS* 1.3 62.3 + - - +
147E PHE* 3.5 19.8 + - - +
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Residues in contact with LYS 144 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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74E HIS 5.9 0.2 + - - -
76E GLY 5.0 1.2 + - - -
77E ALA* 3.6 13.4 - - - +
93E ASN* 4.6 7.8 - - + +
114E ALA* 3.0 28.9 + - - +
115E SER* 4.1 10.7 - - - +
116E SER* 4.2 10.8 - - - +
119E THR* 3.9 13.9 - - + -
140E PHE* 3.7 32.5 - - + +
141E GLY* 3.2 8.2 + - - +
142E TYR 3.1 0.4 - - - -
143E SER* 1.3 82.5 + - - +
145E PHE* 1.3 65.6 + - - +
147E PHE* 3.1 7.7 + - + +
148E ASP* 3.0 25.7 + - - +
400E NAP 3.1 37.3 + - - -
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Residues in contact with PHE 145 (chain E).
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 5.6 0.2 - - - -
43A VAL 4.4 4.7 - - - -
45A LEU 4.9 4.7 - - - -
46A ASN* 5.5 0.2 - - - -
119E THR* 3.5 12.9 - - + +
131E ARG* 3.5 43.3 - - + -
134E GLU* 3.2 39.9 - - + -
136E PRO* 3.9 16.6 - - + -
141E GLY 2.8 16.8 + - - +
142E TYR* 3.5 29.6 - + - +
144E LYS* 1.3 76.4 - - - +
146E LEU* 1.3 73.6 + - + +
148E ASP* 3.0 8.3 + - - +
149E GLU* 3.0 45.9 + - + +
152E ARG* 4.9 0.2 - - - -
166E ARG* 5.6 0.2 - - - -
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Residues in contact with LEU 146 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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47A ILE* 4.0 23.6 - - + +
48A ALA 5.8 1.1 - - - +
49A ASP* 4.8 2.0 - - - +
50A TYR* 3.7 19.1 - - + +
90E MET* 3.7 22.9 - - + -
94E TYR* 3.5 36.8 - - + +
142E TYR* 2.9 42.5 + - + +
143E SER 4.5 0.2 - - - +
145E PHE* 1.3 87.0 - - + +
147E PHE* 1.3 57.5 + - - +
149E GLU* 3.3 13.4 + - + +
150E TYR* 2.9 23.6 + - - +
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Residues in contact with PHE 147 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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94E TYR* 3.6 18.5 - + + -
97E SER* 3.6 35.9 - - - -
98E LYS* 3.5 34.1 - - + -
101E LEU* 4.0 16.2 - - + -
111E PHE* 4.0 8.1 - + - -
113E TYR* 3.7 39.5 - + - -
143E SER 3.5 12.8 + - - +
144E LYS* 3.1 11.2 + - + +
146E LEU* 1.3 76.7 - - - +
148E ASP* 1.3 59.4 + - - +
150E TYR* 2.9 11.2 + + + +
151E VAL* 2.8 47.9 + - + +
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Residues in contact with ASP 148 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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113E TYR* 2.7 41.6 + - - -
115E SER* 2.6 29.0 + - - -
119E THR* 4.2 4.2 - - - +
144E LYS 3.0 15.3 + - - +
145E PHE* 3.0 8.0 + - - +
147E PHE* 1.3 75.0 - - - +
149E GLU* 1.3 57.3 + - - +
151E VAL* 3.2 2.6 + - - +
152E ARG* 2.8 40.4 + - - +
166E ARG* 2.8 26.0 + - - +
232E ILE* 3.8 14.5 - - + +
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Residues in contact with GLU 149 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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46A ASN* 4.4 8.5 - - - +
47A ILE 5.3 7.1 - - - +
131E ARG* 3.7 25.7 - - - +
145E PHE* 3.0 38.6 + - + +
146E LEU* 3.4 18.2 - - + +
147E PHE 3.1 0.2 - - - -
148E ASP* 1.3 77.0 - - - +
150E TYR* 1.3 62.8 + - - +
152E ARG* 2.9 40.5 + - - +
153E GLN* 3.2 32.0 + - - +
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Residues in contact with TYR 150 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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48A ALA 4.1 12.8 - - - +
49A ASP* 4.4 10.5 - - + -
94E TYR* 3.7 18.8 - - + +
98E LYS* 3.6 33.5 + - + +
101E LEU* 4.0 23.6 - - + -
102E HIS* 2.6 37.5 + + - -
146E LEU 2.9 13.4 + - - +
147E PHE* 2.9 15.9 + + + +
149E GLU* 1.3 74.8 - - - +
151E VAL* 1.3 67.1 + - - +
153E GLN* 3.1 27.7 + - + +
154E ILE* 3.2 27.7 + - + +
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Residues in contact with VAL 151 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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101E LEU* 4.3 9.0 - - + -
113E TYR* 3.5 27.8 - - + +
147E PHE* 2.8 45.5 + - + +
148E ASP 3.5 7.4 - - - +
150E TYR* 1.3 73.2 - - - +
152E ARG* 1.3 59.9 + - - +
154E ILE* 2.9 9.2 + - - +
155E LEU* 2.8 45.1 + - + +
162E ILE* 3.7 25.6 - - + +
231E GLY 5.8 0.9 - - - +
232E ILE* 4.4 8.5 - - + -
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Residues in contact with ARG 152 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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129E GLU* 3.5 24.9 + - - +
130E SER* 3.8 2.2 - - - +
131E ARG* 3.9 10.7 - - - +
134E GLU* 2.5 45.1 + - - -
145E PHE* 4.6 0.4 - - - -
148E ASP* 2.8 23.4 + - - +
149E GLU* 2.9 33.4 + - - +
150E TYR 3.2 0.2 - - - -
151E VAL* 1.3 76.1 - - - +
153E GLN* 1.3 60.8 + - + +
155E LEU* 3.8 12.2 + - + +
156E PRO* 3.4 19.2 - - - +
166E ARG* 3.9 6.3 - - - +
232E ILE* 3.9 27.6 - - + +
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Residues in contact with GLN 153 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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47A ILE 4.4 4.6 + - - -
48A ALA* 3.1 44.3 + - - +
149E GLU* 3.2 22.2 + - - +
150E TYR* 3.1 24.7 + - + +
152E ARG* 1.3 77.5 - - - +
154E ILE* 1.3 65.7 + - + +
156E PRO* 3.7 8.7 - - - +
157E GLU* 5.2 2.4 + - - +
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Residues in contact with ILE 154 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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101E LEU* 4.3 6.5 - - + -
102E HIS* 4.5 15.7 - - + -
105E LEU* 3.6 27.1 - - + -
150E TYR* 3.5 38.1 - - + +
151E VAL* 2.9 10.4 + - - +
153E GLN* 1.3 83.1 - - + +
155E LEU* 1.3 66.5 + - - +
156E PRO 3.4 0.2 - - - -
157E GLU* 3.0 18.3 + - + +
158E ALA* 3.2 10.1 + - + -
162E ILE* 3.9 17.3 - - + -
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Residues in contact with LEU 155 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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151E VAL* 2.8 32.3 + - + +
152E ARG* 4.1 14.4 - - + +
154E ILE* 1.3 75.8 - - - +
156E PRO* 1.4 71.4 - - + +
157E GLU 3.0 1.2 + - - -
158E ALA* 3.2 20.6 + - + +
162E ILE* 4.0 29.8 - - + +
230E SER* 4.1 21.5 - - - -
231E GLY* 4.2 19.1 - - - +
232E ILE* 5.1 2.9 - - + +
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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