Contacts of the helix formed by residues 137 - 154 (chain A) in PDB entry 1X9H
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 ALA 137 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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88A TYR* 3.6 35.9 - - + -
131A ALA* 3.9 4.7 - - + -
133A ALA 3.3 2.1 + - - +
134A PRO 2.9 13.2 + - - +
136A ALA* 1.3 76.9 - - - +
138A LEU* 1.3 63.8 + - - +
139A PRO 3.3 0.2 - - - -
140A GLN* 3.1 28.7 - - + +
141A LEU* 3.1 24.8 + - + +
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Residues in contact with LEU 138 (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 TRP* 3.7 22.0 - - + -
47A GLY 5.0 0.7 - - - +
50A VAL* 3.6 33.2 - - + -
51A VAL* 4.5 6.5 - - + -
54A LEU* 4.3 7.9 - - + -
134A PRO 3.8 2.4 + - - -
135A ARG 3.6 2.0 + - - +
136A ALA 3.4 1.2 - - - -
137A ALA* 1.3 76.2 - - - +
139A PRO* 1.4 71.2 - - + +
141A LEU* 4.6 3.6 - - + -
142A LEU* 2.8 40.1 + - + +
196A ARG* 3.8 19.3 - - - +
267A LEU* 3.8 23.1 - - + -
270A LEU* 3.8 27.1 - - + -
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Residues in contact with PRO 139 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11A TRP* 3.4 65.7 - - + +
14A TYR* 3.8 12.8 - - + -
15A ILE* 4.2 10.1 - - + +
136A ALA 4.1 0.2 - - - +
137A ALA 3.4 4.9 - - - -
138A LEU* 1.4 91.8 - - + +
140A GLN* 1.3 56.1 + - - +
142A LEU* 4.8 0.2 - - + -
143A THR* 2.6 42.2 + - - +
163A LEU* 5.6 0.2 - - + -
267A LEU* 4.1 18.4 - - + -
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Residues in contact with GLN 140 (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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14A TYR* 3.2 46.1 + - - +
16A LEU* 3.7 6.4 - - + +
128A VAL* 4.0 12.5 - - + +
129A PRO* 2.9 52.4 + - + +
130A LYS 3.4 16.2 + - - -
131A ALA* 4.1 0.2 - - - +
137A ALA* 3.1 35.5 - - + +
139A PRO* 1.3 71.3 - - - +
141A LEU* 1.3 68.5 + - - +
143A THR* 3.8 3.6 - - - -
144A ALA* 2.9 27.0 + - - +
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Residues in contact with LEU 141 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47A GLY 3.7 22.4 - - - +
48A SER* 4.4 5.4 - - - +
51A VAL* 3.8 18.9 - - + +
86A VAL* 3.9 18.3 - - + +
88A TYR* 4.3 27.8 - - + +
112A ILE* 4.2 15.3 - - + +
128A VAL* 4.0 20.9 - - + -
134A PRO 3.9 13.5 - - - +
137A ALA* 3.1 30.0 + - + +
138A LEU* 3.9 2.9 - - - +
140A GLN* 1.3 78.8 - - + +
142A LEU* 1.3 60.8 + - - +
144A ALA* 3.8 2.8 - - - +
145A ALA* 3.2 22.2 + - - +
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Residues in contact with LEU 142 (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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51A VAL* 3.9 15.5 - - + +
54A LEU* 4.2 32.3 - - + -
55A ILE* 4.0 25.4 - - + -
58A PHE* 4.4 16.8 - - + -
138A LEU* 2.8 28.9 + - + +
139A PRO* 4.1 1.8 - - + +
141A LEU* 1.3 72.0 - - - +
143A THR* 1.3 61.7 + - + +
145A ALA* 3.2 2.9 + - - +
146A LEU* 2.9 40.2 + - + +
263A PRO* 5.1 2.7 - - + -
266A VAL* 5.1 2.2 - - + -
267A LEU* 4.0 29.4 - - + -
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Residues in contact with THR 143 (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 ILE* 4.2 19.1 - - + -
16A LEU* 3.0 33.9 + - - +
139A PRO 2.6 28.5 + - - +
140A GLN* 3.7 1.2 + - - -
142A LEU* 1.3 72.8 - - + +
144A ALA* 1.3 67.2 + - - +
146A LEU* 3.8 11.1 - - + +
147A HIS* 3.0 31.9 + - - -
159A ILE* 4.3 8.1 - - + -
160A PRO* 4.2 18.4 - - + -
267A LEU* 4.6 12.6 - - + -
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Residues in contact with ALA 144 (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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16A LEU* 3.9 8.0 - - + +
19A VAL* 4.0 12.2 - - - +
112A ILE* 3.8 13.9 - - + -
126A VAL* 4.1 10.5 - - + -
128A VAL* 3.8 20.6 - - + -
140A GLN 2.9 22.0 + - - +
141A LEU 3.8 3.8 - - - +
143A THR* 1.3 77.9 + - - +
145A ALA* 1.3 64.1 + - - +
147A HIS* 3.2 3.1 + - - +
148A VAL* 3.1 24.8 + - - +
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Residues in contact with ALA 145 (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 ILE* 5.7 0.2 - - + -
51A VAL* 3.5 20.0 - - + -
55A ILE* 3.5 24.7 - - + -
84A ILE* 4.4 10.2 - - + +
112A ILE* 3.5 19.0 - - + +
141A LEU 3.2 5.3 + - - +
142A LEU 3.2 4.5 + - - +
144A ALA* 1.3 79.6 - - - +
146A LEU* 1.3 62.4 + - - +
148A VAL* 3.2 6.3 + - - +
149A VAL* 3.0 25.8 + - - +
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Residues in contact with LEU 146 (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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55A ILE* 3.9 22.2 - - + -
58A PHE* 4.2 15.0 - - + -
64A TRP* 4.3 11.9 - - + -
142A LEU* 2.9 37.6 + - + +
143A THR* 3.8 11.4 - - + +
144A ALA 3.3 0.2 - - - -
145A ALA* 1.3 75.6 - - - +
147A HIS* 1.3 57.5 + - - +
149A VAL* 3.2 5.8 + - + +
150A ALA* 2.8 25.3 + - - +
157A VAL* 3.5 36.4 - - + +
159A ILE* 3.9 9.4 - - + -
263A PRO* 3.8 29.6 - - + -
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Residues in contact with HIS 147 (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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16A LEU* 2.8 30.0 + - + -
17A ARG 3.2 23.6 - - - -
18A ARG* 3.9 10.5 - - - -
19A VAL* 3.7 24.5 - - + -
143A THR 3.0 26.3 + - - -
144A ALA 3.5 7.0 - - - +
146A LEU* 1.3 74.5 - - - +
148A VAL* 1.3 65.1 + - - +
150A ALA* 4.3 1.5 - - - +
151A LYS* 2.9 60.9 + - - +
157A VAL* 5.0 0.2 - - - -
159A ILE* 3.5 29.7 - - + +
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Residues in contact with VAL 148 (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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19A VAL* 4.6 1.3 - - + -
21A PHE* 4.0 33.7 - - + -
82A LEU* 5.8 2.5 - - + -
84A ILE* 3.9 24.9 - - + -
110A VAL* 4.2 24.2 - - + -
112A ILE* 4.4 11.0 - - + -
126A VAL* 4.4 8.7 - - + -
144A ALA 3.1 17.6 + - - +
145A ALA 3.2 6.9 + - - +
147A HIS* 1.3 74.1 - - - +
149A VAL* 1.3 64.6 + - - +
151A LYS* 3.3 1.4 + - - +
152A VAL* 3.0 37.5 + - + +
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Residues in contact with VAL 149 (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 LEU* 3.9 25.6 - - + -
55A ILE* 4.6 14.4 - - + -
64A TRP* 4.0 23.1 - - + -
66A VAL* 5.8 0.7 - - + -
84A ILE* 4.1 10.3 - - + -
145A ALA 3.0 19.9 + - - +
146A LEU* 3.5 9.0 - - - +
148A VAL* 1.3 76.7 - - - +
150A ALA* 1.3 56.9 + - - +
152A VAL* 4.9 0.4 - - - -
153A TYR* 2.8 44.6 + - + +
155A ILE* 4.1 15.7 + - + -
157A VAL* 4.1 11.0 - - + -
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Residues in contact with ALA 150 (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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146A LEU 2.8 18.2 + - - +
147A HIS 3.7 4.5 - - - +
149A VAL* 1.3 76.0 - - - +
151A LYS* 1.3 75.7 + - - +
154A GLY* 2.9 29.1 + - - -
155A ILE 3.5 24.2 - - - +
157A VAL* 3.9 13.9 - - + +
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Residues in contact with LYS 151 (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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18A ARG* 5.5 2.9 - - - +
19A VAL* 4.9 14.4 - - + +
21A PHE* 4.5 20.9 - - + -
147A HIS* 2.9 55.7 + - - +
148A VAL 3.7 4.0 - - - +
150A ALA* 1.3 94.6 - - + +
152A VAL* 1.3 60.3 + - - +
154A GLY* 4.4 1.7 + - - -
157A VAL* 5.8 0.4 - - - +
159A ILE* 5.8 0.2 - - - +
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Residues in contact with VAL 152 (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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21A PHE* 4.4 8.3 - - + -
23A THR* 6.4 0.2 - - + -
34A ILE* 3.8 24.5 - - + +
35A GLU* 3.7 8.7 - - - -
36A ALA* 3.4 41.1 + - - +
82A LEU* 3.9 15.9 - - + -
148A VAL* 3.0 30.1 + - + +
151A LYS* 1.3 80.3 - - - +
153A TYR* 1.3 69.3 + - + +
154A GLY 3.6 0.2 - - - -
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Residues in contact with TYR 153 (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 ALA* 3.7 12.3 - - + -
37A MET* 2.6 49.4 + - - +
39A ARG 4.3 0.3 + - - -
40A LEU* 3.8 24.3 - - + +
65A GLU 5.0 3.8 - - - -
66A VAL* 3.6 28.7 - - + +
82A LEU* 3.9 25.4 - - + +
149A VAL* 2.8 33.5 + - + +
152A VAL* 1.3 79.2 - - + +
154A GLY* 1.3 62.9 - - - +
155A ILE* 3.4 23.7 + - + +
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Residues in contact with GLY 154 (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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150A ALA 2.9 17.2 + - - -
151A LYS 4.4 1.5 + - - -
152A VAL 3.6 1.6 - - - -
153A TYR* 1.3 78.3 - - - +
155A ILE* 1.3 61.5 + - - +
156A ASP 4.0 0.5 + - - -
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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
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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