Contacts of the helix formed by residues 138 - 155 (chain C) 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 C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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81C THR* 3.7 35.0 + - - +
84C TRP* 3.5 25.6 - - + -
118C ALA* 5.0 5.7 - - - +
136C PRO* 4.0 1.7 - - - +
137C LEU* 1.3 83.6 + - - +
139C VAL* 1.3 58.9 + - - +
140C PHE* 3.4 8.8 + - - +
141C GLY* 2.7 45.4 + - - -
142C TYR* 2.9 11.4 + - - +
268C LEU* 6.3 0.6 - - - +
271C ARG* 3.9 20.3 + - + +
401C ADP 5.4 1.2 + - - -
39D PHE* 3.3 9.8 - - - -
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Residues in contact with VAL 139 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83C GLU 3.4 23.1 - - - +
84C TRP* 3.6 25.3 - - + -
86C GLY* 4.1 18.8 - - - -
89C MET* 3.8 15.2 - - + +
90C MET* 5.0 3.4 - - - -
138C ASN* 1.3 71.7 - - - +
140C PHE* 1.3 68.9 + - - +
142C TYR* 4.0 7.6 - - + -
143C SER* 2.9 23.0 + - - -
33D LEU* 4.2 15.5 - - + -
36D GLY* 3.7 26.7 - - - +
39D PHE* 3.9 7.4 - - + -
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Residues in contact with PHE 140 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78C CYS 3.4 27.4 - - - -
79C SER* 3.9 5.2 - - - -
80C SER 3.7 21.8 - - - +
81C THR* 3.8 21.3 + - + -
83C GLU 4.9 0.6 + - - +
89C MET* 3.9 9.4 - - + -
93C ASN* 4.0 5.4 - - - -
116C SER* 3.9 12.8 - - - -
118C ALA* 4.1 5.4 - - + -
138C ASN* 3.2 9.0 - - - +
139C VAL* 1.3 82.8 - - - +
141C GLY* 1.3 65.7 + - - +
143C SER* 2.6 25.3 + - - -
144C LYS* 3.2 28.9 + - + +
400C NAP 3.3 26.0 - - - -
402C BMA 3.6 32.8 - - - -
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Residues in contact with GLY 141 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
118C ALA* 4.4 14.4 - - - -
119C THR* 3.8 2.6 - - - +
136C PRO* 3.4 16.6 - - - +
138C ASN* 2.7 22.4 + - - -
140C PHE* 1.3 81.5 - - - +
142C TYR* 1.3 57.9 + - - +
144C LYS* 3.2 5.9 + - - +
145C PHE* 2.8 29.5 + - - +
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Residues in contact with TYR 142 (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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90C MET* 4.1 29.2 - - + -
136C PRO* 3.6 10.2 - - + +
138C ASN 2.9 6.9 + - - +
139C VAL* 3.5 7.6 - - + +
140C PHE 3.2 0.2 - - - -
141C GLY* 1.3 77.4 - - - +
143C SER* 1.3 56.7 + - - +
145C PHE* 3.2 24.5 + + - +
146C LEU* 2.9 44.9 + - + +
33D LEU* 4.7 7.2 - - + -
39D PHE* 3.7 46.0 - + + -
42D LEU* 3.5 32.8 + - + +
43D VAL* 4.2 18.6 - - - -
47D ILE* 3.7 21.0 - - - +
50D TYR* 5.7 2.4 - + + +
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Residues in contact with SER 143 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
89C MET* 3.6 16.6 - - - +
90C MET* 3.9 22.2 - - - -
93C ASN* 3.2 33.9 + - - +
94C TYR* 4.1 11.9 + - - +
139C VAL 2.9 12.5 + - - -
140C PHE 2.6 19.9 + - - -
142C TYR* 1.3 77.7 - - - +
144C LYS* 1.3 61.3 + - - +
147C PHE* 3.5 19.4 + - - +
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Residues in contact with LYS 144 (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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76C GLY 5.1 1.0 + - - -
77C ALA* 3.6 15.0 - - - +
93C ASN* 4.6 8.2 - - + +
97C SER* 5.6 3.0 + - - -
114C ALA* 3.0 28.4 + - - +
115C SER* 4.1 11.4 + - - +
116C SER* 4.2 11.2 - - - +
119C THR* 3.9 14.6 - - + -
140C PHE* 3.7 32.5 - - + +
141C GLY* 3.2 7.5 + - - +
142C TYR 3.1 0.4 - - - -
143C SER* 1.3 82.8 + - - +
145C PHE* 1.3 65.0 + - - +
147C PHE* 3.1 7.5 + - + +
148C ASP* 3.0 25.9 + - - +
400C NAP 3.0 36.9 + - - -
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Residues in contact with PHE 145 (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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119C THR* 3.5 12.2 - - + +
131C ARG* 3.5 43.7 - - + -
134C GLU* 3.2 39.0 - - + -
136C PRO* 3.9 18.8 - - + -
141C GLY 2.8 17.5 + - - +
142C TYR* 3.5 28.3 - + - +
144C LYS* 1.3 76.6 - - - +
146C LEU* 1.3 73.3 + - + +
148C ASP* 3.0 8.8 + - - +
149C GLU* 3.0 45.8 + - + +
152C ARG* 4.9 0.2 - - - -
166C ARG* 5.6 0.2 - - - -
42D LEU 5.7 0.2 - - - -
43D VAL 4.5 4.9 - - - -
45D LEU 5.1 3.8 - - - -
46D ASN* 5.6 0.2 - - - -
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Residues in contact with LEU 146 (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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90C MET* 3.7 15.0 - - + -
94C TYR* 3.5 35.6 - - + +
142C TYR* 2.9 42.1 + - + +
143C SER 4.5 0.4 - - - +
145C PHE* 1.3 89.1 - - + +
147C PHE* 1.3 58.5 + - - +
149C GLU* 3.3 11.9 + - + +
150C TYR* 2.9 22.3 + - - +
47D ILE* 4.1 23.6 - - + +
48D ALA 5.8 1.3 - - - +
49D ASP* 5.6 1.8 - - - -
50D TYR* 3.6 27.1 - - + +
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Residues in contact with PHE 147 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93C ASN 6.0 0.4 - - - -
94C TYR* 3.6 17.9 - + + -
97C SER* 3.6 36.3 - - - +
98C LYS* 3.5 34.1 - - + -
101C LEU* 4.0 16.2 - - + -
111C PHE* 4.0 7.9 - + - -
113C TYR* 3.7 39.7 - + - -
143C SER 3.5 12.0 + - - +
144C LYS* 3.1 11.4 + - + +
146C LEU* 1.3 77.1 - - - +
148C ASP* 1.3 59.7 + - - +
150C TYR* 2.9 9.5 + + + +
151C VAL* 2.8 48.3 + - + +
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Residues in contact with ASP 148 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
113C TYR* 2.7 41.7 + - - -
115C SER* 2.6 29.1 + - - -
119C THR* 4.2 3.5 - - - +
144C LYS 3.0 15.3 + - - +
145C PHE* 3.4 8.3 - - - +
147C PHE* 1.3 74.7 - - - +
149C GLU* 1.3 57.9 + - - +
151C VAL* 3.2 2.6 + - - +
152C ARG* 2.8 40.8 + - - +
166C ARG* 2.8 26.9 + - - +
232C ILE* 3.8 13.4 - - + +
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Residues in contact with GLU 149 (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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131C ARG* 3.7 25.6 - - - +
145C PHE* 3.0 39.6 + - + +
146C LEU* 3.4 18.4 - - + +
148C ASP* 1.3 76.4 - - - +
150C TYR* 1.3 61.4 + - - +
152C ARG* 2.9 39.9 + - - +
153C GLN* 3.2 32.2 + - - +
46D ASN* 4.5 8.0 - - - +
47D ILE 5.3 7.3 - - - +
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Residues in contact with TYR 150 (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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94C TYR* 3.7 20.2 - - + +
98C LYS* 3.6 33.5 + - + +
101C LEU* 4.0 22.7 - - + -
102C HIS* 2.6 37.4 + + - -
146C LEU 2.9 13.2 + - - +
147C PHE* 2.9 15.2 + + + +
149C GLU* 1.3 74.5 - - - +
151C VAL* 1.3 67.0 + - - +
153C GLN* 3.1 28.5 + - + +
154C ILE* 3.2 26.4 + - + +
48D ALA 4.2 12.1 - - - -
49D ASP* 4.4 11.2 - - + -
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Residues in contact with VAL 151 (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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101C LEU* 4.3 9.4 - - + -
113C TYR* 3.5 28.9 - - + +
147C PHE* 2.8 45.1 + - + +
148C ASP 3.5 7.0 - - - +
150C TYR* 1.3 73.2 - - - +
152C ARG* 1.3 58.1 + - - +
154C ILE* 2.9 10.2 + - - +
155C LEU* 2.8 44.0 + - + +
162C ILE* 3.7 24.9 - - + -
231C GLY 5.8 0.9 - - - +
232C ILE* 4.4 8.3 - - + -
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Residues in contact with ARG 152 (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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129C GLU* 3.5 24.5 + - - +
130C SER* 3.8 1.8 - - - +
131C ARG* 3.9 10.9 - - - +
134C GLU* 2.5 44.9 + - - -
145C PHE* 4.6 0.6 - - - -
148C ASP* 2.8 22.8 + - - +
149C GLU* 2.9 34.5 + - - +
150C TYR 3.2 0.4 - - - -
151C VAL* 1.3 78.0 - - - +
153C GLN* 1.3 61.1 + - + +
155C LEU* 4.1 12.3 - - + +
156C PRO* 3.4 19.2 - - - +
166C ARG* 4.0 6.3 - - - +
232C ILE* 3.9 27.0 - - + +
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Residues in contact with GLN 153 (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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149C GLU* 3.2 23.2 + - - +
150C TYR* 3.1 24.0 + - + +
152C ARG* 1.3 77.4 - - - +
154C ILE* 1.3 63.6 + - + +
156C PRO* 3.7 8.7 - - - +
157C GLU* 5.3 2.4 + - - +
47D ILE 4.5 4.2 + - - -
48D ALA* 3.1 43.9 + - - +
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Residues in contact with ILE 154 (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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101C LEU* 4.3 6.5 - - + -
102C HIS* 4.5 15.9 - - + -
105C LEU* 3.5 27.8 - - + -
150C TYR* 3.2 37.9 + - + +
151C VAL* 2.9 10.2 + - - +
153C GLN* 1.3 83.0 - - + +
155C LEU* 1.3 66.1 + - - +
156C PRO 3.4 0.2 - - - -
157C GLU* 3.0 19.5 + - + +
158C ALA* 3.2 10.8 + - + +
162C ILE* 3.9 16.4 - - + -
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Residues in contact with LEU 155 (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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151C VAL* 2.8 32.5 + - + +
152C ARG* 4.1 15.0 - - + +
154C ILE* 1.3 76.2 - - - +
156C PRO* 1.4 70.9 - - + +
157C GLU 3.0 1.4 + - - -
158C ALA* 3.2 20.1 + - + +
162C ILE* 4.0 30.1 - - + +
230C SER* 4.1 21.3 - - - +
231C GLY* 4.3 19.1 - - - +
232C ILE* 5.1 2.5 - - + +
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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
------------------------------------------------------------
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