Contacts of the helix formed by residues 137 - 156 (chain C) 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 C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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32C ASP* 4.8 3.5 + - - -
134C LYS* 3.2 17.2 + - - +
135C LYS* 3.1 3.7 + - - -
136C TYR* 1.3 80.5 - - - +
138C PRO* 1.3 77.2 - - - +
139C CYS* 3.7 6.5 + - - +
140C ALA* 2.8 33.7 + - - +
141C TRP* 2.9 11.4 + - - +
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Residues in contact with PRO 138 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24C ILE* 3.8 24.4 - - + +
136C TYR 3.9 1.5 - - - +
137C SER* 1.3 89.1 - - - +
139C CYS* 1.3 57.8 + - + +
141C TRP* 3.2 11.7 + - + +
142C GLU* 3.0 34.3 + - - +
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Residues in contact with CYS 139 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24C ILE* 4.5 6.7 - - - -
28C SER* 4.1 6.3 - - - -
29C CYS* 2.0 58.2 - - - -
32C ASP* 3.7 22.8 - - - +
137C SER* 3.2 4.9 - - - +
138C PRO* 1.3 82.4 - - + +
140C ALA* 1.3 60.4 + - - +
142C GLU* 3.3 4.8 + - - +
143C VAL* 3.1 24.8 + - - +
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Residues in contact with ALA 140 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32C ASP* 4.6 0.8 + - - -
130C TYR* 3.7 22.2 - - + +
131C LEU* 4.0 10.8 - - + -
134C LYS* 3.7 26.2 - - + -
137C SER* 2.8 32.4 + - - +
139C CYS* 1.3 72.0 - - - +
141C TRP* 1.3 62.5 + - - +
143C VAL* 3.2 4.3 + - - +
144C VAL* 3.1 26.9 + - - +
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Residues in contact with TRP 141 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67C LEU* 4.4 12.8 - - + -
68C PHE* 4.3 13.7 - + - -
70C THR* 5.0 0.9 - - - -
72C ASP* 4.2 3.2 + - + -
73C SER* 3.7 37.9 - - - -
76C ALA* 3.3 27.6 - - + +
77C TRP* 3.3 40.8 - + + -
131C LEU* 4.1 19.7 - - + -
136C TYR* 3.6 56.7 + + - +
137C SER 2.9 10.8 + - - +
138C PRO* 3.4 12.6 - - + +
140C ALA* 1.3 72.7 - - - +
142C GLU* 1.3 60.6 + - - +
144C VAL* 3.3 17.1 + - + +
145C ARG* 2.9 30.0 + - - +
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Residues in contact with GLU 142 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22C SER* 3.0 5.5 + - - -
23C ARG* 2.7 31.5 + - - +
24C ILE* 2.9 36.3 + - + +
26C PRO* 4.9 2.2 - - + +
29C CYS* 4.8 2.7 - - - -
77C TRP* 3.9 8.1 - - + -
138C PRO 3.0 18.4 + - - +
139C CYS* 3.6 8.7 - - - +
141C TRP* 1.3 73.5 - - - +
143C VAL* 1.3 67.5 + - - +
144C VAL 3.1 0.2 + - - -
145C ARG* 2.8 39.8 + - - +
146C ALA* 3.0 25.5 + - - +
236D PHE* 3.7 15.8 - - + -
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Residues in contact with VAL 143 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32C ASP* 3.6 8.1 - - + -
33C ARG* 3.4 45.2 + - + +
34C HIS 4.2 2.7 - - - +
36C PHE* 4.0 20.2 - - + -
130C TYR* 3.6 23.1 - - + +
139C CYS 3.1 15.7 + - - +
140C ALA 3.2 8.5 + - - +
142C GLU* 1.3 77.8 - - - +
144C VAL* 1.3 52.2 + - - +
146C ALA* 3.5 3.6 + - - +
147C GLU* 2.8 31.0 + - + +
236D PHE* 3.7 21.0 - - + -
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Residues in contact with VAL 144 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36C PHE* 4.7 3.4 - - + -
67C LEU* 4.2 17.3 - - + -
68C PHE* 4.7 1.6 - - + -
127C ILE* 4.1 24.0 - - + -
130C TYR* 4.1 13.9 - - + -
131C LEU* 4.0 25.4 - - + -
140C ALA 3.1 13.8 + - - +
141C TRP* 3.6 24.0 - - + +
142C GLU 3.1 0.6 - - - -
143C VAL* 1.3 75.6 - - + +
145C ARG* 1.3 69.3 + - - +
147C GLU* 2.8 8.0 + - - +
148C ILE* 2.8 27.1 + - + +
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Residues in contact with ARG 145 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18C LEU* 3.0 40.0 + - + +
19C ALA* 3.7 7.5 - - - +
21C MET* 4.1 4.5 - - + -
22C SER* 3.6 28.1 + - - +
26C PRO* 4.3 17.2 - - - +
68C PHE* 4.5 12.3 - - + -
77C TRP* 4.0 17.5 - - + -
141C TRP 2.9 20.6 + - - +
142C GLU* 2.8 36.7 + - - +
144C VAL* 1.3 74.1 - - - +
146C ALA* 1.3 72.8 + - - +
148C ILE* 3.2 4.7 + - - +
149C MET* 3.1 53.2 + - - +
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Residues in contact with ALA 146 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33C ARG* 5.7 4.3 - - - +
142C GLU 3.0 14.1 + - - +
143C VAL 3.6 4.0 - - - +
145C ARG* 1.3 88.5 - - - +
147C GLU* 1.3 63.8 + - - +
149C MET* 3.1 17.3 + - - +
150C ARG* 3.0 22.2 + - - +
236D PHE* 3.7 23.8 - - + -
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Residues in contact with GLU 147 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33C ARG* 4.6 8.0 + - - +
34C HIS 3.9 1.6 - - - +
36C PHE* 3.4 33.8 + - + +
38C PHE* 4.4 5.0 - - - +
123C TYR* 2.9 32.1 + - + +
127C ILE* 4.5 5.6 - - + -
143C VAL* 2.8 16.7 + - + +
144C VAL* 2.8 14.3 + - - +
146C ALA* 1.3 76.9 - - - +
148C ILE* 1.3 61.5 + - + +
150C ARG* 3.2 12.1 + - - +
151C SER* 3.0 25.7 + - - -
35D TYR* 3.0 35.5 + - - -
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Residues in contact with ILE 148 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18C LEU* 3.7 20.4 - - + -
64C ILE* 3.7 33.7 - - + -
67C LEU* 4.3 5.6 - - + -
68C PHE* 4.0 23.1 - - + -
123C TYR* 4.5 4.7 - - + +
124C PHE* 4.0 29.2 - - + -
127C ILE* 4.0 19.3 - - + -
144C VAL* 2.8 20.6 + - + +
145C ARG* 3.6 7.2 - - - +
147C GLU* 1.3 72.9 - - - +
149C MET* 1.3 65.1 + - - +
151C SER* 2.9 6.5 + - - +
152C LEU* 2.7 27.3 + - + +
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Residues in contact with MET 149 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15C LEU* 3.4 34.1 - - + +
18C LEU* 3.6 17.9 - - + -
19C ALA* 3.7 30.7 - - + -
145C ARG* 3.1 43.5 + - - +
146C ALA* 3.3 11.9 - - - +
148C ILE* 1.3 73.6 - - - +
150C ARG* 1.3 57.5 + - - +
153C SER* 2.9 29.3 + - - -
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Residues in contact with ARG 150 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33C ARG* 4.4 9.0 - - - +
35C ASP* 5.2 0.4 + - - -
38C PHE* 4.5 17.7 + - - +
40C GLN* 4.4 4.8 + - - -
146C ALA 3.0 12.5 + - - +
147C GLU* 3.3 15.0 + - - +
149C MET* 1.3 76.1 - - - +
151C SER* 1.3 57.5 + - - +
153C SER* 3.1 10.7 + - - +
154C LEU* 2.9 55.4 + - + +
35D TYR* 3.3 37.1 + - - -
53D ASP* 3.3 46.0 + - - +
54D ASN* 5.3 1.4 - - - +
55D ASN* 3.6 13.7 + - - -
56D GLN* 3.8 9.3 - - - +
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Residues in contact with SER 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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38C PHE* 3.6 38.2 - - - +
60C LEU* 4.8 11.7 - - - -
64C ILE* 6.0 0.7 - - - -
123C TYR* 2.7 29.4 + - - -
147C GLU* 3.0 9.5 + - - -
148C ILE* 2.9 12.0 + - - -
150C ARG* 1.3 73.0 - - - +
152C LEU* 1.3 67.2 + - - +
154C LEU* 3.1 3.3 + - - +
155C SER* 3.0 24.2 + - - -
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Residues in contact with LEU 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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11C ASN* 3.3 38.7 + - + +
14C THR* 4.1 20.4 - - + +
15C LEU* 3.7 11.4 - - + -
18C LEU* 3.8 17.7 - - + -
60C LEU* 4.2 12.3 - - + -
61C ILE* 4.3 9.0 - - + -
64C ILE* 3.7 24.7 - - + -
85C PHE* 5.3 1.8 - - + -
89C LEU* 5.8 1.3 - - + -
92C GLN* 5.7 0.2 - - - +
148C ILE* 2.7 37.9 + - + +
149C MET 3.5 4.5 - - - +
151C SER* 1.3 72.1 - - - +
153C SER* 1.3 61.3 + - - +
155C SER* 2.5 22.3 + - - -
156C THR* 3.7 2.6 + - - +
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Residues in contact with SER 153 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15C LEU* 4.2 17.5 - - - +
149C MET 2.9 18.5 + - - -
150C ARG* 3.1 12.1 + - - +
152C LEU* 1.3 73.3 - - - +
154C LEU* 1.3 70.3 + - - +
155C SER 3.6 0.2 + - - -
156C THR* 3.6 19.5 + - - +
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Residues in contact with LEU 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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38C PHE* 3.9 18.0 - - + -
40C GLN* 3.9 34.4 - - + +
43C PHE* 4.1 11.6 - - - +
150C ARG* 2.9 56.9 + - + +
151C SER 3.5 4.7 - - - +
152C LEU 3.1 0.4 - - - -
153C SER* 1.3 85.8 - - - +
155C SER* 1.3 61.3 + - - +
156C THR 3.5 4.0 - - - +
56D GLN* 4.0 24.9 - - - +
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Residues in contact with SER 155 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9C LEU* 5.4 2.5 - - - +
11C ASN* 3.5 11.3 + - - -
38C PHE* 5.1 0.2 - - - -
43C PHE* 3.9 35.4 - - - +
52C PRO* 4.7 6.8 - - - +
57C LEU* 4.6 12.5 - - - +
60C LEU* 3.6 25.2 - - - +
151C SER 3.0 11.3 + - - -
152C LEU* 2.5 22.9 + - - -
154C LEU* 1.3 79.0 - - - +
156C THR* 1.3 65.9 + - - +
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Residues in contact with THR 156 (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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9C LEU* 4.0 18.8 - - + +
11C ASN* 3.4 31.2 - - + +
43C PHE 5.4 3.1 - - - -
52C PRO* 5.7 4.9 - - - -
152C LEU 3.8 4.9 - - - +
153C SER* 3.6 16.3 + - - +
154C LEU 4.5 4.2 - - - +
155C SER* 1.3 82.0 + - - +
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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