Contacts of the strand formed by residues 51 - 68 (chain A) in PDB entry 1UXU
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 ILE 51 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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44A ASP 3.6 1.9 - - - +
45A MET* 4.0 4.0 - - - -
46A ASP* 2.9 37.8 + - + +
49A ASN* 3.5 24.7 - - + +
50A GLN* 1.3 80.7 - - - +
52A LEU* 1.3 71.9 + - - +
53A THR* 3.8 6.9 + - - +
98A ALA* 3.7 18.8 - - + -
99A ASP* 6.0 0.2 - - - +
127A LYS* 4.2 14.8 - - + -
128A SER 3.4 12.1 - - - +
129A SER* 3.5 26.7 - - - +
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Residues in contact with LEU 52 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42A ILE* 3.8 22.0 - - + -
44A ASP 3.5 13.7 - - - +
45A MET* 4.3 4.9 - - - -
51A ILE* 1.3 72.8 - - - +
53A THR* 1.3 72.1 + - - +
54A ALA* 4.2 14.1 - - + -
126A THR* 3.4 1.4 - - - +
127A LYS* 3.2 4.7 - - - -
128A SER* 2.8 42.3 + - - +
130A CYS* 3.4 20.8 - - - -
144A CYS* 3.7 15.7 - - + -
146A LEU* 4.9 7.9 - - + -
206A LEU* 3.7 26.9 - - + -
208A LEU* 4.3 13.7 - - + -
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Residues in contact with THR 53 (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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43A LYS* 2.9 40.4 + - + -
44A ASP* 2.8 34.9 + - - +
51A ILE* 3.8 5.9 + - - +
52A LEU* 1.3 78.8 - - - +
54A ALA* 1.3 61.6 + - - +
55A TYR* 4.6 0.4 - - + -
125A ILE* 3.9 21.1 - - + -
126A THR 3.2 9.6 - - - +
127A LYS* 3.7 26.9 - - + +
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Residues in contact with ALA 54 (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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39A LEU* 4.1 7.9 - - + -
41A GLN 3.5 9.6 - - - +
42A ILE* 5.1 0.7 - - - -
43A LYS 4.3 0.2 - - - +
52A LEU* 4.0 21.7 - - + -
53A THR* 1.3 74.3 - - - +
55A TYR* 1.3 66.5 + - - +
56A LEU* 4.0 16.7 + - + -
124A ALA 3.8 0.2 - - - +
125A ILE* 3.4 4.9 - - - +
126A THR* 2.9 45.5 + - - +
146A LEU* 5.4 2.0 - - + -
206A LEU* 5.6 0.2 - - + -
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Residues in contact with TYR 55 (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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39A LEU* 3.8 0.3 - - - +
40A SER* 2.8 43.8 + - - -
41A GLN* 2.9 43.2 + - + +
43A LYS* 3.2 48.1 + - + +
53A THR* 4.6 0.7 - - + -
54A ALA* 1.3 79.5 - - - +
56A LEU* 1.3 59.4 + - - +
124A ALA 3.5 3.6 - - - +
125A ILE* 3.6 42.0 - - + +
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Residues in contact with LEU 56 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37A ILE* 4.2 19.3 - - + -
38A THR 3.3 10.3 - - - +
39A LEU* 3.6 31.0 - - + -
40A SER* 4.2 0.7 - - - +
54A ALA* 4.0 9.6 - - + +
55A TYR* 1.3 74.7 - - - +
57A TRP* 1.3 72.0 + - - +
58A ILE* 4.7 6.3 - - + -
123A PRO* 3.3 5.5 - - - +
124A ALA* 2.8 33.9 + - + +
126A THR* 3.6 36.3 - - + +
146A LEU* 4.4 13.2 - - + -
148A PHE* 3.9 23.6 - - + -
183A MET* 5.0 0.2 - - + -
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Residues in contact with TRP 57 (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 GLN 3.7 0.9 - - - +
37A ILE* 3.6 4.3 - - - +
38A THR* 2.9 47.0 + - + +
40A SER* 3.2 26.1 + - - -
56A LEU* 1.3 75.4 - - - +
58A ILE* 1.3 62.3 + - - +
59A ARG 4.1 0.4 + - - -
108A THR* 5.7 0.4 - - + -
121A ASP* 4.1 12.6 - - + +
122A ALA* 3.4 27.4 - - - -
123A PRO* 3.5 38.2 - - + +
171A ASP* 6.4 0.9 - - + -
1215A EPE 3.4 64.9 - - - -
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Residues in contact with ILE 58 (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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35A LEU* 4.0 22.9 - - + -
36A GLN 3.5 2.5 - - - -
37A ILE* 3.5 12.8 - - + -
56A LEU* 4.7 4.5 - - + -
57A TRP* 1.3 75.2 - - - +
59A ARG* 1.3 61.4 + - - +
60A GLN* 4.0 29.9 + - + +
92A ILE* 5.7 4.5 - - + +
120A TRP 3.3 4.3 - - - +
121A ASP* 3.4 1.6 - - - -
122A ALA* 2.7 43.5 + - + +
124A ALA* 4.1 24.7 - - + -
126A THR* 5.8 0.2 - - + -
148A PHE* 4.0 27.1 - - + -
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Residues in contact with ARG 59 (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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34A THR 3.6 1.0 - - - +
35A LEU* 3.5 4.5 - - - +
36A GLN* 2.8 59.7 + - + +
57A TRP 4.1 0.8 - - - -
58A ILE* 1.3 72.0 - - - +
60A GLN* 1.3 63.3 + - - +
61A ILE* 4.1 10.1 - - + -
119A THR* 3.8 24.5 - - + +
120A TRP 3.2 3.8 - - - -
121A ASP* 2.6 42.8 + - - +
1215A EPE 3.7 34.2 + - - -
1216A EDO 3.0 39.6 + - - -
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Residues in contact with GLN 60 (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 VAL* 4.1 6.1 - - + -
34A THR 3.3 7.9 - - - +
35A LEU* 4.7 3.6 - - + -
58A ILE* 4.0 24.1 + - + +
59A ARG* 1.3 76.8 - - - +
61A ILE* 1.3 64.6 + - - +
62A TRP* 3.6 16.6 - - + -
90A PRO* 3.2 34.8 + - - +
92A ILE* 3.6 32.3 + - + +
119A THR* 3.5 1.4 - - - +
120A TRP* 2.8 61.3 + - + +
122A ALA* 6.3 0.6 - - - +
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Residues in contact with ILE 61 (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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32A ASN 4.0 0.3 - - - +
33A VAL* 3.4 1.7 - - - -
34A THR* 2.9 49.8 + - + +
59A ARG* 4.1 10.1 - - + -
60A GLN* 1.3 80.7 - - - +
62A TRP* 1.3 68.4 + - - +
117A LEU* 3.6 32.8 - - + -
118A ILE 3.3 7.0 - - - +
119A THR* 3.8 17.5 - - + +
163A ALA* 5.9 4.0 - - + -
1216A EDO 3.6 39.9 - - - +
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Residues in contact with TRP 62 (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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23A PRO* 4.6 0.2 - - - +
31A LEU* 3.8 13.5 - - + -
32A ASN 3.3 19.3 - - - +
33A VAL* 3.9 4.7 - - + -
60A GLN* 3.6 24.5 - - + -
61A ILE* 1.3 84.8 - - - +
63A HIS* 1.3 77.8 + - - +
64A ASP* 4.5 3.8 - - - +
87A VAL* 4.5 1.8 - - + -
88A TRP* 3.3 44.4 + + - -
89A ARG* 4.3 4.3 - - + -
90A PRO* 3.5 33.2 - - + -
110A VAL* 4.7 1.1 - - + -
117A LEU* 3.7 5.9 - - - +
118A ILE* 2.8 71.3 + - + +
120A TRP* 3.8 23.6 - + + -
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Residues in contact with HIS 63 (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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23A PRO 4.3 0.7 - - - +
31A LEU* 3.7 18.5 - - - +
32A ASN 4.4 3.2 + - - -
62A TRP* 1.3 84.0 - - - +
64A ASP* 1.3 59.8 + - - +
65A ALA* 3.9 2.9 + - - +
113A ARG* 5.4 0.9 - - - -
115A ASP* 3.2 42.5 + - - +
116A GLY* 3.4 11.4 - - - -
117A LEU* 3.6 22.8 - - + +
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Residues in contact with ASP 64 (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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17A TYR* 2.7 26.4 + - - -
23A PRO* 3.3 25.2 - - + +
62A TRP* 4.0 2.2 + - - +
63A HIS* 1.3 72.5 - - - +
65A ALA* 1.3 63.6 + - - +
66A TYR* 2.8 34.5 + - - +
67A LEU* 3.3 30.5 + - + +
68A THR* 3.9 2.8 - - - +
88A TRP* 4.8 1.6 + - - +
116A GLY* 2.8 25.4 + - - +
118A ILE* 3.5 25.1 - - + +
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Residues in contact with ALA 65 (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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23A PRO 3.1 25.4 + - - +
25A GLU* 3.8 26.9 - - + +
63A HIS* 3.9 2.6 + - - +
64A ASP* 1.3 71.8 + - - +
66A TYR* 1.3 66.1 + - + +
67A LEU 3.6 0.2 - - - -
68A THR* 4.2 13.7 + - - +
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Residues in contact with TYR 66 (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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13A LEU* 4.4 8.8 - - - +
16A ASP 6.2 0.2 - - - -
17A TYR* 4.2 19.2 - + + -
21A LEU* 6.6 0.4 - - + -
22A ARG 5.1 0.4 - - - -
23A PRO* 3.8 27.4 - - + -
24A VAL 3.1 30.2 + - - -
25A GLU* 3.5 16.1 + - + -
64A ASP* 2.8 7.4 + - - +
65A ALA* 1.3 84.7 - - + +
67A LEU* 1.3 65.9 + - - +
68A THR* 3.5 6.0 + - - +
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Residues in contact with LEU 67 (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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13A LEU* 3.8 35.2 - - + +
14A PHE* 4.1 10.1 - - + -
17A TYR* 3.7 23.6 - - + -
64A ASP* 3.3 33.7 + - + +
66A TYR* 1.3 83.5 - - - +
68A THR* 1.3 60.4 + - - +
69A TRP* 3.7 7.1 - - - -
87A VAL* 3.6 30.5 - - + -
112A LEU* 3.3 37.2 - - + +
116A GLY* 3.5 7.5 - - - -
118A ILE* 4.0 7.9 - - + -
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Residues in contact with THR 68 (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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13A LEU* 3.9 7.8 - - - +
64A ASP 3.9 8.7 - - - +
65A ALA* 4.2 13.4 + - - +
66A TYR 3.5 4.3 - - - +
67A LEU* 1.3 78.2 - - - +
69A TRP* 1.3 65.7 + - - +
114A TYR 3.3 11.0 - - - -
115A ASP* 3.6 9.2 - - - +
116A GLY* 3.6 21.8 - - - +
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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