Contacts of the helix formed by residues 138 - 155 (chain Q) 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 Q).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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81Q THR* 3.7 34.4 + - - +
84Q TRP* 3.5 20.0 - - + -
118Q ALA* 5.0 5.7 - - - +
136Q PRO* 4.0 0.3 - - - +
137Q LEU* 1.3 81.4 - - - +
139Q VAL* 1.3 59.8 - - - +
140Q PHE* 3.4 9.4 + - - +
141Q GLY* 2.7 35.9 + - - -
142Q TYR* 2.9 22.0 + - - +
268Q LEU* 6.2 1.0 - - - +
271Q ARG* 3.9 20.5 + - + +
401Q ADP 5.3 1.4 + - - -
39R PHE* 3.2 15.7 - - - -
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Residues in contact with VAL 139 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83Q GLU 3.4 24.2 - - - +
84Q TRP* 3.6 23.5 - - + -
86Q GLY* 4.1 10.8 - - - -
89Q MET* 3.8 14.9 - - + +
90Q MET* 5.0 3.4 - - - -
138Q ASN* 1.3 71.3 - - + +
140Q PHE* 1.3 68.9 + - - +
142Q TYR* 3.2 7.8 + - + -
143Q SER* 2.9 23.0 + - - -
33R LEU* 4.1 24.0 - - + -
36R GLY* 3.7 24.7 - - - +
39R PHE* 3.7 8.2 - - + -
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Residues in contact with PHE 140 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78Q CYS 3.4 26.9 - - - -
79Q SER* 3.9 5.8 - - - -
80Q SER 3.7 22.2 - - - +
81Q THR* 3.8 20.4 - - + -
83Q GLU 4.9 0.4 + - - -
89Q MET* 3.9 10.1 - - + -
93Q ASN* 4.0 5.4 - - - -
116Q SER* 3.9 12.8 - - - -
118Q ALA* 4.1 6.1 - - + -
138Q ASN* 3.2 8.6 - - - +
139Q VAL* 1.3 81.6 - - - +
141Q GLY* 1.3 65.4 + - - +
143Q SER* 2.6 25.1 + - - -
144Q LYS* 3.2 28.6 + - + +
400Q NAP 2.9 28.7 - - - -
402Q BMA 3.6 29.8 - - - -
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Residues in contact with GLY 141 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
118Q ALA* 4.4 14.1 - - - -
119Q THR* 3.9 2.4 - - - +
136Q PRO* 3.4 17.2 - - - +
138Q ASN* 2.7 21.7 + - - -
140Q PHE* 1.3 82.5 - - - +
142Q TYR* 1.3 56.8 + - - +
144Q LYS* 3.2 6.3 + - - +
145Q PHE* 2.8 29.6 + - - +
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Residues in contact with TYR 142 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
90Q MET* 4.1 30.5 - - + -
136Q PRO* 3.6 9.1 - - + +
138Q ASN 2.9 6.6 + - - +
139Q VAL* 3.5 9.9 - - - +
140Q PHE 3.2 0.2 - - - -
141Q GLY* 1.3 78.0 - - - +
143Q SER* 1.3 57.4 + - - +
145Q PHE* 3.2 26.0 + + - +
146Q LEU* 2.9 44.9 + - + +
33R LEU* 4.8 7.4 - - + -
39R PHE* 3.8 37.9 - + + -
42R LEU* 3.5 28.8 + - + +
43R VAL* 4.2 19.7 - - - -
47R ILE* 3.4 28.8 - - - +
50R TYR* 5.7 2.0 - + + -
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Residues in contact with SER 143 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
89Q MET* 3.6 16.3 - - - +
90Q MET* 3.9 22.0 - - - -
93Q ASN* 3.2 33.9 + - - +
94Q TYR* 4.1 12.4 + - - +
139Q VAL 2.9 12.2 + - - -
140Q PHE 2.6 19.6 + - - -
142Q TYR* 1.3 77.9 - - - +
144Q LYS* 1.3 61.3 + - - +
147Q PHE* 3.5 19.4 + - - +
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Residues in contact with LYS 144 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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74Q HIS 5.9 0.4 + - - -
76Q GLY 5.0 1.0 + - - -
77Q ALA* 3.6 15.0 - - - +
93Q ASN* 4.6 8.0 - - + +
97Q SER* 5.6 3.8 + - - -
113Q TYR* 6.4 0.2 - - + -
114Q ALA* 3.0 26.0 + - - +
115Q SER* 4.1 11.0 - - - +
116Q SER* 4.2 10.5 - - - +
119Q THR* 3.9 14.8 - - + -
140Q PHE* 3.2 30.9 + - + +
141Q GLY 3.2 7.3 + - - +
142Q TYR 3.1 0.2 - - - -
143Q SER* 1.3 82.5 + - - +
145Q PHE* 1.3 66.5 + - - +
147Q PHE* 3.1 7.8 + - + +
148Q ASP* 3.0 25.3 + - - +
400Q NAP 2.6 42.2 + - - -
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Residues in contact with PHE 145 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
119Q THR* 3.5 12.9 - - + +
131Q ARG* 3.5 43.3 - - + -
134Q GLU* 3.2 40.4 - - + -
136Q PRO* 3.9 17.9 - - + -
141Q GLY 2.8 17.6 + - - +
142Q TYR* 3.5 28.0 - + - +
144Q LYS* 1.3 77.6 - - - +
146Q LEU* 1.3 73.3 + - + +
148Q ASP* 3.0 9.4 + - - +
149Q GLU* 3.0 45.6 + - + +
152Q ARG* 4.9 0.4 - - - -
166Q ARG* 5.6 0.7 - - - -
42R LEU 5.7 0.2 - - - -
43R VAL 4.6 4.9 - - - -
45R LEU 4.9 3.8 - - - -
46R ASN* 5.4 0.4 - - - -
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Residues in contact with LEU 146 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
90Q MET* 3.7 13.2 - - + -
94Q TYR* 3.5 30.5 - - + +
142Q TYR* 2.9 44.1 + - + +
143Q SER 4.5 0.7 - - - +
145Q PHE* 1.3 88.6 - - + +
147Q PHE* 1.3 58.2 + - - +
149Q GLU* 3.3 10.8 + - + +
150Q TYR* 2.9 22.7 + - - +
47R ILE* 4.0 24.5 - - + +
48R ALA 5.6 1.3 - - - +
49R ASP* 4.6 2.5 - - - +
50R TYR* 3.6 33.0 - - + +
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Residues in contact with PHE 147 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94Q TYR* 3.6 18.3 - + + -
97Q SER* 3.6 35.9 - - - -
98Q LYS* 3.5 32.8 - - + -
101Q LEU* 4.0 17.5 - - + -
111Q PHE* 4.0 7.6 - + - -
113Q TYR* 3.7 39.0 - + - -
114Q ALA 5.8 0.2 - - - -
143Q SER 3.5 12.6 + - - +
144Q LYS* 3.1 11.0 + - + +
146Q LEU* 1.3 77.6 - - - +
148Q ASP* 1.3 60.3 + - - +
150Q TYR* 2.9 9.7 + + + +
151Q VAL* 2.8 47.7 + - + +
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Residues in contact with ASP 148 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
113Q TYR* 2.7 41.5 + - - -
115Q SER* 2.6 28.4 + - - -
119Q THR* 4.2 3.6 - - - +
134Q GLU* 5.5 0.2 - - - +
144Q LYS 3.0 15.5 + - - +
145Q PHE* 3.0 7.2 + - - +
147Q PHE* 1.3 75.2 - - - +
149Q GLU* 1.3 57.7 + - - +
151Q VAL* 3.2 2.8 + - - +
152Q ARG* 2.8 40.2 + - - +
166Q ARG* 2.8 26.6 + - - +
232Q ILE* 3.8 14.0 - - + +
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Residues in contact with GLU 149 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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131Q ARG* 3.7 24.9 - - - +
145Q PHE* 3.0 38.8 + - + +
146Q LEU* 3.4 17.7 - - + +
147Q PHE 3.1 0.2 - - - -
148Q ASP* 1.3 76.6 - - - +
150Q TYR* 1.3 62.7 + - - +
152Q ARG* 2.9 40.9 + - - +
153Q GLN* 3.2 32.5 + - - +
46R ASN* 4.6 6.4 - - - +
47R ILE 5.1 8.2 - - - +
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Residues in contact with TYR 150 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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94Q TYR* 3.7 19.7 - - + +
98Q LYS* 3.6 32.3 + - + +
101Q LEU* 4.0 23.1 - - + -
102Q HIS* 2.6 37.7 + + - -
146Q LEU 2.9 13.9 + - - +
147Q PHE* 3.2 14.6 - + + +
149Q GLU* 1.3 75.7 - - - +
151Q VAL* 1.3 66.3 + - - +
153Q GLN* 3.1 29.0 + - + +
154Q ILE* 3.2 27.0 + - + +
48R ALA 4.2 12.1 - - - +
49R ASP* 4.4 10.8 - - + -
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Residues in contact with VAL 151 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101Q LEU* 4.3 8.7 - - + -
113Q TYR* 3.5 28.7 - - + +
147Q PHE* 2.8 44.4 + - + +
148Q ASP 3.5 7.0 - - - +
150Q TYR* 1.3 72.7 - - - +
152Q ARG* 1.3 57.9 + - - +
154Q ILE* 2.9 10.0 + - - +
155Q LEU* 2.8 45.1 + - + +
162Q ILE* 3.7 25.4 - - + -
231Q GLY 5.8 0.7 - - - +
232Q ILE* 4.4 8.3 - - + -
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Residues in contact with ARG 152 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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129Q GLU* 3.5 24.4 + - - +
130Q SER* 3.8 2.0 - - - +
131Q ARG* 3.9 9.8 - - - +
134Q GLU* 2.5 44.9 + - - -
145Q PHE* 4.6 0.6 - - - -
148Q ASP* 2.8 21.8 + - - +
149Q GLU* 2.9 33.5 + - - +
150Q TYR 3.2 0.4 - - - -
151Q VAL* 1.3 77.1 - - - +
153Q GLN* 1.3 60.5 + - + +
155Q LEU* 4.1 12.0 - - + +
156Q PRO* 3.4 19.8 - - - +
166Q ARG* 3.9 7.1 - - - +
232Q ILE* 3.9 27.0 - - + +
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Residues in contact with GLN 153 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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149Q GLU* 3.2 22.9 + - - +
150Q TYR* 3.1 24.7 + - + +
152Q ARG* 1.3 77.5 - - - +
154Q ILE* 1.3 64.8 + - + +
156Q PRO* 3.7 8.5 - - - +
157Q GLU* 5.3 2.6 + - - +
47R ILE 4.7 3.2 + - - -
48R ALA* 3.0 44.3 + - - +
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Residues in contact with ILE 154 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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101Q LEU* 4.3 7.0 - - + -
102Q HIS* 4.5 15.5 - - + -
105Q LEU* 3.5 27.4 - - + -
150Q TYR* 3.5 37.5 - - + +
151Q VAL* 2.9 10.0 + - - +
153Q GLN* 1.3 82.7 - - + +
155Q LEU* 1.3 66.1 + - - +
156Q PRO 3.4 0.2 - - - -
157Q GLU* 3.0 18.4 + - + +
158Q ALA* 3.2 10.7 + - + -
162Q ILE* 3.9 16.6 - - + -
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Residues in contact with LEU 155 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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151Q VAL* 2.8 32.3 + - + +
152Q ARG* 4.1 15.3 - - + +
154Q ILE* 1.3 76.6 - - - +
156Q PRO* 1.4 70.3 - - + +
157Q GLU 3.0 1.2 + - - -
158Q ALA* 3.2 20.8 + - + +
162Q ILE* 4.0 30.3 - - + +
230Q SER* 4.1 21.8 - - - -
231Q GLY* 4.2 19.1 - - - -
232Q ILE* 5.1 2.7 - - + +
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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
------------------------------------------------------------
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