Contacts of the helix formed by residues 137 - 156 (chain A) in PDB entry 3UX9
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 SER 137 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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32A ASP* 4.8 1.6 + - - -
134A LYS* 3.1 18.8 + - - +
135A LYS* 3.1 4.1 + - - -
136A TYR* 1.3 79.8 - - - +
138A PRO* 1.3 77.2 - - - +
139A CYS* 3.7 6.7 + - - +
140A ALA* 2.9 26.1 + - - +
141A TRP* 2.9 20.3 + - - +
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Residues in contact with PRO 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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24A ILE* 3.8 25.1 - - + +
136A TYR 3.9 1.5 - - - +
137A SER* 1.3 87.8 - - - +
139A CYS* 1.3 57.2 + - + +
141A TRP* 3.2 11.8 + - + +
142A GLU* 3.0 33.4 + - - +
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Residues in contact with CYS 139 (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 ILE* 4.5 6.7 - - - +
28A SER* 4.1 5.4 - - - -
29A CYS* 2.0 58.0 - - - -
32A ASP* 3.7 21.8 - - - +
137A SER* 3.2 5.1 - - - +
138A PRO* 1.3 81.5 - - - +
140A ALA* 1.3 61.9 + - - +
142A GLU* 3.3 5.2 + - - +
143A VAL* 3.1 25.3 + - - +
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Residues in contact with ALA 140 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32A ASP* 4.6 1.2 + - - -
130A TYR* 3.6 22.9 - - + +
131A LEU* 4.0 10.8 - - + -
134A LYS* 3.7 25.6 - - + -
137A SER* 2.9 28.2 + - - +
139A CYS* 1.3 76.0 - - - +
141A TRP* 1.3 62.5 + - - +
143A VAL* 3.3 4.7 + - - +
144A VAL* 3.1 26.9 + - - +
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Residues in contact with TRP 141 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67A LEU* 4.4 11.4 - - + -
68A PHE* 4.3 14.6 - + - -
70A THR* 5.0 0.9 - - - -
72A ASP 3.9 5.2 + - - -
73A SER* 3.7 38.8 - - - -
76A ALA* 3.3 27.3 - - + +
77A TRP* 3.3 40.9 - + + -
131A LEU* 4.2 19.1 - - + -
136A TYR* 3.5 56.3 + + - +
137A SER 2.9 10.5 + - - +
138A PRO* 3.4 11.7 - - + +
140A ALA* 1.3 74.5 - - - +
142A GLU* 1.3 60.8 + - - +
144A VAL* 3.2 16.0 + - + +
145A ARG* 2.9 30.3 + - - +
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Residues in contact with GLU 142 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22A SER* 3.0 5.7 + - - -
23A ARG* 2.7 31.8 + - - +
24A ILE* 3.0 35.7 + - + +
26A PRO* 4.9 2.5 - - + +
29A CYS* 4.7 2.7 - - - -
77A TRP* 3.9 7.9 - - - -
138A PRO 3.0 18.3 + - - +
139A CYS* 3.3 8.0 + - - +
141A TRP* 1.3 71.9 - - - +
143A VAL* 1.3 68.1 + - - +
145A ARG* 2.8 39.4 + - - +
146A ALA* 3.1 25.8 + - - +
236B PHE* 3.6 17.1 - - + -
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Residues in contact with VAL 143 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32A ASP* 3.5 9.4 - - + +
33A ARG* 3.3 45.3 + - + +
34A HIS 4.2 2.5 - - - +
36A PHE* 4.0 24.9 - - + -
130A TYR* 3.6 18.8 - - + +
139A CYS 3.1 13.2 + - - +
140A ALA 3.4 7.9 - - - +
141A TRP 3.2 0.2 - - - -
142A GLU* 1.3 76.0 - - - +
144A VAL* 1.3 58.8 - - - +
146A ALA* 3.5 3.5 + - - +
147A GLU* 2.9 25.2 + - + +
236B PHE* 3.7 23.8 - - + -
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Residues in contact with VAL 144 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36A PHE* 4.6 3.8 - - + -
67A LEU* 4.2 18.2 - - + -
68A PHE* 4.7 1.8 - - + -
127A ILE* 4.0 25.4 - - + -
130A TYR* 4.1 12.3 - - + -
131A LEU* 4.0 24.2 - - + -
140A ALA 3.1 13.8 + - - +
141A TRP* 3.5 22.9 - - + +
142A GLU 3.1 0.4 - - - -
143A VAL* 1.3 76.3 - - + +
145A ARG* 1.3 69.3 + - - +
147A GLU* 2.8 8.5 + - - +
148A ILE* 2.8 27.4 + - + +
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Residues in contact with ARG 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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18A LEU* 3.0 45.7 + - + +
19A ALA* 3.7 7.7 + - - +
21A MET* 4.1 4.5 - - + -
22A SER* 3.6 25.8 + - - +
26A PRO* 4.3 17.0 - - - +
68A PHE* 4.5 11.4 - - + -
77A TRP* 3.9 20.4 - - + -
141A TRP 2.9 19.7 + - - +
142A GLU* 2.8 30.8 + - - +
144A VAL* 1.3 74.0 - - - +
146A ALA* 1.3 77.6 + - - +
148A ILE* 3.2 4.9 + - - +
149A MET* 3.0 48.5 + - - +
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Residues in contact with ALA 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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33A ARG* 5.8 4.7 - - - +
142A GLU 3.1 14.5 + - - +
143A VAL 3.7 3.8 - - - +
145A ARG* 1.3 89.9 - - - +
147A GLU* 1.3 64.6 + - - +
149A MET* 3.0 18.2 + - - +
150A ARG* 2.9 21.9 + - - +
235B ASP* 6.1 0.4 - - - +
236B PHE* 3.8 21.3 - - + -
254D LEU* 5.2 1.7 - - + +
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Residues in contact with GLU 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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33A ARG* 4.6 7.5 + - - +
34A HIS 4.0 1.7 - - - +
36A PHE* 3.5 32.2 + - + +
38A PHE* 4.4 4.3 - - - +
123A TYR* 2.9 34.6 + - + +
127A ILE* 4.5 6.5 - - + -
143A VAL* 2.9 15.7 + - + +
144A VAL* 2.8 13.5 + - - +
146A ALA* 1.3 75.8 - - - +
148A ILE* 1.3 62.6 + - + +
150A ARG* 3.1 11.8 + - - +
151A SER* 3.0 25.2 + - - -
35B TYR* 2.9 37.2 + - - -
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Residues in contact with ILE 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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18A LEU* 3.7 20.2 - - + -
64A ILE* 3.7 31.9 - - + -
67A LEU* 4.3 6.3 - - + -
68A PHE* 4.0 22.9 - - + -
123A TYR* 4.6 5.4 - - + +
124A PHE* 4.0 29.6 - - + -
127A ILE* 4.0 19.3 - - + -
144A VAL* 2.8 19.4 + - + +
145A ARG* 3.5 7.2 - - - +
147A GLU* 1.3 70.1 - - - +
149A MET* 1.3 68.5 + - - +
151A SER* 2.9 6.1 + - - +
152A LEU* 2.8 28.0 + - + +
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Residues in contact with MET 149 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15A LEU* 3.4 34.2 - - + +
18A LEU* 3.6 19.5 - - + -
19A ALA* 3.8 29.4 - - + -
145A ARG* 3.0 41.7 + - - +
146A ALA* 3.0 13.8 + - - +
148A ILE* 1.3 74.6 - - - +
150A ARG* 1.3 63.5 - - - +
153A SER* 3.0 22.9 + - - -
250D THR* 5.4 0.7 - - + -
252D SER* 4.1 22.4 - - - +
254D LEU* 4.1 15.2 - - + +
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Residues in contact with ARG 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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33A ARG* 4.4 6.3 - - - +
35A ASP* 5.2 0.4 + - - -
38A PHE* 4.5 17.6 - - - +
40A GLN* 4.3 4.9 + - - -
146A ALA 2.9 10.8 + - - +
147A GLU* 3.3 14.6 - - - +
148A ILE 3.1 0.2 - - - -
149A MET* 1.3 77.2 - - - +
151A SER* 1.3 57.9 + - - +
153A SER* 3.1 9.8 + - - -
154A LEU* 3.0 57.8 + - + +
35B TYR* 3.1 41.1 + - - -
53B ASP* 3.1 47.2 + - - +
54B ASN* 5.1 1.6 - - - +
55B ASN* 3.4 14.1 + - - -
56B GLN* 4.0 7.0 - - + +
254D LEU* 4.3 21.5 - - + +
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Residues in contact with SER 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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38A PHE* 3.6 36.3 - - - -
60A LEU* 4.8 9.9 - - - -
123A TYR* 2.6 33.4 + - - -
147A GLU* 3.0 8.7 + - - -
148A ILE* 2.9 12.8 + - - -
150A ARG* 1.3 76.5 - - - +
152A LEU* 1.3 63.8 + - - +
154A LEU* 3.1 2.6 + - - +
155A SER* 3.0 24.9 + - - -
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Residues in contact with LEU 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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11A ASN* 2.0 39.9 - - - +
14A THR* 3.9 22.9 - - + +
15A LEU* 3.7 11.7 - - + -
18A LEU* 3.8 28.7 - - + -
60A LEU* 4.5 7.8 - - + +
61A ILE* 4.3 13.7 - - + -
64A ILE* 3.8 23.8 - - + -
85A PHE* 5.3 2.0 - - + -
89A LEU* 5.8 0.9 - - + -
92A GLN* 5.5 0.7 - - - +
148A ILE* 2.8 23.3 + - + +
149A MET 3.5 5.2 - - - +
151A SER* 1.3 72.5 - - - +
153A SER* 1.3 61.6 + - - +
155A SER* 2.5 21.8 + - - -
156A THR* 3.7 9.9 + - - +
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Residues in contact with SER 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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15A LEU* 4.2 10.8 - - - -
149A MET 3.0 14.2 + - - -
150A ARG 3.1 12.1 + - - -
152A LEU* 1.3 76.7 - - - +
154A LEU* 1.3 60.3 + - - +
156A THR* 3.5 17.1 + - - +
254D LEU* 3.6 16.1 - - - +
255D GLU* 3.0 63.2 + - - +
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Residues in contact with LEU 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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38A PHE* 3.9 17.9 - - + -
40A GLN* 3.8 33.8 - - + +
43A PHE* 4.1 12.1 - - - +
44A ASP* 5.6 1.7 - - - +
150A ARG* 3.0 55.7 + - + +
151A SER 3.5 4.5 - - - +
152A LEU 3.1 0.2 - - - -
153A SER* 1.3 81.3 - - - +
155A SER* 1.3 59.0 + - - +
156A THR 3.5 3.9 - - - +
56B GLN* 3.9 20.9 - - - +
254D LEU* 6.1 0.2 - - + -
255D GLU* 3.6 19.3 - - + +
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Residues in contact with SER 155 (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 ASN* 4.1 7.4 + - - -
38A PHE* 5.1 0.2 - - - -
43A PHE* 3.8 35.3 - - - +
52A PRO* 4.6 7.1 - - - +
57A LEU* 4.5 12.1 - - - +
60A LEU* 3.6 25.4 - - - +
151A SER 3.0 11.3 + - - -
152A LEU* 2.5 23.2 + - - -
154A LEU* 1.3 78.4 - - - +
156A THR* 1.3 68.4 + - - +
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Residues in contact with THR 156 (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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9A LEU* 3.9 28.5 - - - +
11A ASN* 4.4 15.7 - - + +
15A LEU* 6.5 0.2 - - + -
43A PHE 5.4 4.0 - - - -
52A PRO* 5.7 5.2 - - - -
152A LEU 3.8 14.1 - - - +
153A SER* 3.5 16.6 + - - +
154A LEU 4.5 4.1 - - - +
155A SER* 1.3 85.1 - - - +
255D GLU* 4.1 12.9 + - - +
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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
------------------------------------------------------------
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