Contacts of the helix formed by residues 61 - 80 (chain A) in PDB entry 1UES
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 GLU 61 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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48A PHE* 5.3 0.2 - - - -
59A LYS 4.4 5.6 - - - +
60A SER* 1.3 76.9 - - - +
62A GLY* 1.3 70.2 + - - +
63A GLY 3.5 0.3 + - - -
64A ILE* 3.4 9.4 + - - +
65A PHE* 3.0 17.1 + - - -
147A ARG* 3.3 23.8 + - - +
706D LYS* 3.4 30.8 + - - +
709D GLU* 4.4 19.0 + - - +
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Residues in contact with GLY 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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61A GLU* 1.3 79.6 - - - +
63A GLY* 1.3 58.5 + - - -
65A PHE* 3.2 2.4 + - - +
66A ASN* 3.0 37.3 + - - +
147A ARG* 5.0 0.2 - - - +
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Residues in contact with GLY 63 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42A LEU* 3.8 13.0 - - - -
61A GLU 3.5 0.2 + - - -
62A GLY* 1.3 68.4 - - - -
64A ILE* 1.3 65.9 + - - +
66A ASN* 3.3 10.5 + - - +
67A ASN* 2.9 31.9 + - - -
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Residues in contact with ILE 64 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39A LEU* 4.1 5.2 - - + +
42A LEU* 3.5 43.9 - - + +
43A ILE* 4.1 13.0 - - + -
46A THR* 3.8 23.3 - - + +
48A PHE* 4.2 10.3 - - + -
56A ILE* 3.7 14.6 - - + -
60A SER* 3.5 21.5 - - - +
61A GLU 3.4 7.6 + - - +
62A GLY 3.3 0.4 - - - -
63A GLY* 1.3 74.9 - - - +
65A PHE* 1.3 64.0 + - - +
67A ASN* 3.3 2.5 + - - +
68A ALA* 2.9 24.6 + - - +
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Residues in contact with PHE 65 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57A VAL* 3.4 39.7 - - + -
60A SER* 3.1 21.7 + - - +
61A GLU* 3.0 29.6 + - - -
62A GLY 3.6 1.8 - - - +
64A ILE* 1.3 77.9 - - - +
66A ASN* 1.3 67.8 + - - +
68A ALA* 4.3 0.9 - - - -
69A GLY* 2.7 30.0 + - - -
142A ALA* 3.8 33.4 - - + -
143A GLY* 4.2 9.2 - - - -
144A ASN 4.6 2.5 - - - -
147A ARG* 3.3 50.5 - - + +
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Residues in contact with ASN 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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62A GLY* 3.0 24.6 + - - +
63A GLY* 3.6 11.2 - - - +
64A ILE 3.3 0.2 - - - -
65A PHE* 1.3 86.7 - - - +
67A ASN* 1.3 62.7 + - - +
70A GLN* 3.2 32.9 + - - +
141A ASN* 5.6 0.5 - - - +
142A ALA* 3.5 8.2 + - - +
319B PHE* 3.5 53.8 - - + +
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Residues in contact with ASN 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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35A TYR* 3.4 37.6 - - - +
38A ASN* 3.4 29.1 + - - +
39A LEU* 3.9 13.9 - - + +
42A LEU* 3.3 19.4 - - + +
63A GLY* 2.9 27.2 + - - +
64A ILE 4.1 1.3 - - - +
66A ASN* 1.3 78.0 - - - +
68A ALA* 1.3 61.3 + - - +
70A GLN* 3.4 1.4 + - - +
71A THR* 2.9 33.6 + - - -
319B PHE* 5.3 2.3 - - - -
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Residues in contact with ALA 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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39A LEU* 4.1 17.3 - - + +
53A LEU* 3.8 5.6 - - + +
56A ILE* 3.6 28.5 - - + -
57A VAL* 3.6 22.2 - - + +
60A SER* 4.4 0.2 - - - +
64A ILE 2.9 17.1 + - - +
65A PHE* 3.8 4.9 - - - +
67A ASN* 1.3 73.6 - - - +
69A GLY* 1.3 60.4 + - - +
71A THR* 3.1 3.3 + - - -
72A LEU 2.9 26.3 + - - -
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Residues in contact with GLY 69 (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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57A VAL* 3.9 19.8 - - - +
65A PHE* 2.7 23.4 + - - -
68A ALA* 1.3 72.4 - - - +
70A GLN* 1.3 56.2 + - - +
72A LEU* 3.4 1.8 + - - +
73A ASN* 2.9 39.8 + - - -
142A ALA 3.6 15.5 - - - -
144A ASN* 5.0 1.2 - - - +
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Residues in contact with GLN 70 (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 TYR* 3.0 57.5 + - + -
66A ASN 3.2 25.0 + - - +
67A ASN 3.8 0.7 - - - +
69A GLY* 1.3 74.6 - - - +
71A THR* 1.3 64.0 + - - +
73A ASN* 3.6 1.4 + - - -
74A HIS* 2.6 46.7 + - - -
123A TRP* 2.9 27.2 + - - -
141A ASN 3.5 4.5 - - - +
142A ALA* 3.5 7.2 - - + +
159A TRP* 3.3 30.0 - - - +
161A HIS* 4.9 0.2 - - - -
319B PHE* 3.7 9.4 - - + -
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Residues in contact with THR 71 (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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3A HIS* 5.4 4.7 - - + -
4A GLU 5.0 2.7 - - - +
32A LEU* 4.0 7.9 - - + -
35A TYR* 3.8 21.0 + - - +
36A VAL* 3.9 20.1 + - + +
39A LEU* 4.1 8.9 - - + +
53A LEU* 3.7 25.6 - - + -
67A ASN 2.9 19.2 + - - -
68A ALA 3.1 4.0 + - - -
70A GLN* 1.3 76.1 - - - +
72A LEU* 1.3 62.6 + - - +
74A HIS* 3.8 1.0 - - - +
75A ASN* 2.9 40.4 + - - +
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Residues in contact with LEU 72 (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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53A LEU* 3.8 19.2 - - + +
54A ASN* 4.1 21.5 - - - +
57A VAL* 3.9 22.7 - - + -
68A ALA 2.9 15.6 + - - +
69A GLY 3.8 3.1 - - - +
71A THR* 1.3 77.4 - - - +
73A ASN* 1.3 63.2 + - - +
75A ASN* 3.2 6.1 + - + +
76A LEU* 3.1 40.0 + - + +
144A ASN* 3.6 32.1 - - - +
146A VAL* 3.9 12.3 - - + -
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Residues in contact with ASN 73 (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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69A GLY 2.9 22.3 + - - +
70A GLN* 3.6 3.9 + - - +
72A LEU* 1.3 75.8 - - - +
74A HIS* 1.3 58.9 + - - +
76A LEU* 3.4 2.1 + - - +
77A TYR* 2.9 29.5 + - - +
123A TRP* 3.3 44.8 - - + +
125A TRP* 2.9 22.2 + - - -
142A ALA 3.1 10.7 + - - -
143A GLY 2.9 21.8 + - - +
144A ASN* 2.9 22.2 - - - +
155A THR* 4.2 1.9 - - - +
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Residues in contact with HIS 74 (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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27A HIS* 3.2 20.7 + + - -
32A LEU* 3.6 28.3 - - + -
35A TYR* 3.5 18.3 - + - -
70A GLN* 2.6 45.8 + - - +
73A ASN* 1.3 74.9 - - - +
75A ASN* 1.3 68.3 + - - +
77A TYR* 4.0 5.8 - + - -
78A PHE* 2.9 39.6 + + + -
123A TRP* 3.4 22.1 - + - -
157A ASP* 4.1 0.2 - - - -
161A HIS* 3.9 0.6 + - - -
192A MN 2.2 36.1 + - - -
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Residues in contact with ASN 75 (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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4A GLU 5.1 3.0 + - - +
6A ILE* 3.3 43.7 + - + +
32A LEU* 3.9 8.5 - - - +
36A VAL* 5.8 0.3 - - - +
53A LEU* 3.7 14.3 - - - +
71A THR* 2.9 39.2 + - - +
72A LEU* 3.2 9.6 + - + +
74A HIS* 1.3 77.5 - - - +
76A LEU* 1.3 54.6 + - + +
79A THR* 2.8 37.9 + - + +
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Residues in contact with LEU 76 (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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72A LEU* 3.1 38.1 + - + +
73A ASN 3.9 0.4 - - - +
75A ASN* 1.3 74.2 - - + +
77A TYR* 1.3 68.8 + - - +
79A THR* 3.4 4.0 + - - +
80A GLN* 3.3 13.1 + - - +
125A TRP* 3.5 35.4 - - + -
144A ASN* 4.2 0.2 - - - +
152A PRO* 3.8 23.6 - - + +
190A ARG* 3.0 45.7 + - - +
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Residues in contact with TYR 77 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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19A ILE* 3.4 18.9 - - + +
27A HIS* 3.6 30.1 + + - -
73A ASN 2.9 19.5 + - - +
74A HIS* 3.2 4.7 + + - +
76A LEU* 1.3 78.6 - - - +
78A PHE* 1.3 91.7 + + - +
80A GLN* 3.2 25.0 + - - +
81A PHE* 3.3 36.8 - + - -
123A TRP* 3.9 9.4 - + + -
155A THR* 3.6 24.8 - - + +
156A PHE* 4.5 1.6 - - - -
157A ASP* 3.6 30.5 - - + +
162A ALA* 4.0 12.1 + - - +
174A HIS* 4.3 7.8 + - - -
178A LEU* 4.7 3.9 - - + +
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Residues in contact with PHE 78 (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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6A ILE* 4.3 7.2 - - + -
8A LEU* 3.7 19.3 - - + -
9A PRO* 5.1 0.2 - - - -
10A TYR* 2.8 40.4 + - - +
15A LEU* 5.5 2.9 - - + -
19A ILE* 5.2 9.9 - - + -
24A VAL* 5.4 6.1 - - + -
27A HIS* 3.7 33.0 - + + -
28A HIS* 3.8 31.4 - + + -
32A LEU* 4.0 17.0 - - + -
74A HIS* 2.9 48.5 + + - +
77A TYR* 1.3 94.2 - + - +
79A THR* 1.3 62.8 + - - +
80A GLN 3.2 0.9 + - - -
81A PHE* 3.6 7.2 + + - +
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Residues in contact with THR 79 (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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6A ILE* 4.3 16.4 - - + -
7A SER 5.5 1.8 - - - +
9A PRO* 4.4 20.4 - - + -
75A ASN* 2.8 24.2 + - + +
76A LEU* 3.6 2.6 - - - +
77A TYR 3.2 0.6 - - - -
78A PHE* 1.3 80.5 - - - +
80A GLN* 1.3 57.0 + - - +
81A PHE 3.3 0.7 - - - -
82A ARG* 3.1 20.0 + - - -
186A ILE* 3.4 13.0 - - - +
190A ARG* 3.1 18.9 + - - -
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Residues in contact with GLN 80 (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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76A LEU 3.3 10.2 + - - +
77A TYR* 3.2 19.4 + - - +
78A PHE 3.2 0.2 - - - -
79A THR* 1.3 78.6 - - - +
81A PHE* 1.3 86.5 + - + +
154A LEU* 3.6 16.1 - - + +
155A THR* 2.7 43.4 + - - +
182A VAL* 3.9 2.1 - - + +
183A ASP* 2.9 31.8 + - - +
186A ILE* 4.1 5.8 - - + -
187A VAL* 4.5 11.0 - - + -
190A ARG* 3.2 30.0 + - - +
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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
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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