Contacts of the helix formed by residues 37 - 58 (chain A) in PDB entry 2QE9
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 ASN 37 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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27A LEU 3.7 2.8 - - - +
28A LEU* 3.4 24.6 + - - +
29A LYS 3.2 22.0 - - - +
30A ASN* 4.6 2.9 + - - +
31A ARG* 5.3 0.9 - - - -
35A VAL 3.1 10.3 + - - -
36A GLU* 1.3 75.5 - - - +
38A ILE* 1.3 55.6 + - - +
39A LEU* 3.3 8.8 + - - +
40A TYR* 2.8 44.3 + - - +
41A THR* 2.7 36.3 + - - -
66A PHE* 4.3 8.6 - - - -
135A TRP* 3.9 5.1 - - - -
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Residues in contact with ILE 38 (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 TRP* 4.2 12.1 - - + -
19A CYS* 3.6 30.3 - - - -
22A LEU* 3.8 22.2 - - + -
26A GLU 3.9 7.6 - - - +
27A LEU* 3.4 14.7 + - + +
29A LYS 4.7 0.6 + - - -
31A ARG* 3.9 21.1 - - - +
37A ASN* 1.3 73.3 - - - +
39A LEU* 1.3 64.7 + - - +
41A THR* 3.2 4.9 + - - -
42A LEU* 3.2 24.2 + - + +
132A LEU* 4.2 18.7 - - + +
135A TRP* 3.9 23.3 - - + -
139A LEU* 4.0 13.0 - - + -
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Residues in contact with LEU 39 (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 THR* 6.4 0.2 - - + -
27A LEU* 3.2 24.3 + - + +
28A LEU* 4.0 16.2 - - + -
37A ASN* 3.9 5.2 - - - +
38A ILE* 1.3 79.5 - - - +
40A TYR* 1.3 58.4 + - - +
42A LEU* 3.2 9.8 + - + +
43A PHE* 3.0 26.0 + - - +
66A PHE* 4.0 7.4 - - + -
69A TYR 4.1 4.7 - - - +
70A GLN 3.5 34.8 - - - +
71A THR* 3.6 9.2 - - - +
72A LEU* 3.7 32.5 - - + +
75A VAL* 3.7 27.5 - - + +
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Residues in contact with TYR 40 (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 VAL* 3.4 45.3 - - + -
37A ASN* 2.8 34.4 + - - +
39A LEU* 1.3 69.9 - - - +
41A THR* 1.3 57.2 + - - +
43A PHE* 3.7 23.0 - + - -
44A HIS* 2.7 49.6 + - + +
66A PHE* 3.3 43.0 - + + -
201A CIT 5.6 0.7 + - - -
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Residues in contact with THR 41 (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 VAL* 3.5 18.1 + - + +
37A ASN 2.7 24.0 + - - -
38A ILE 3.2 6.3 + - - -
40A TYR* 1.3 77.2 - - - +
42A LEU* 1.3 56.9 + - - +
44A HIS* 3.5 1.9 + - - +
45A ILE* 3.0 33.2 + - + +
128A HIS* 3.8 37.2 - - + +
131A GLN* 4.7 2.5 - - - +
132A LEU* 3.9 20.9 - - + -
135A TRP* 3.4 16.3 - - + -
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Residues in contact with LEU 42 (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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12A ARG* 4.2 25.3 - - + +
15A TRP* 4.3 14.6 - - + +
16A PHE* 3.9 31.4 - - + -
19A CYS* 3.6 31.2 - - - -
38A ILE* 3.2 15.5 + - + +
39A LEU* 3.2 8.9 + - + +
41A THR* 1.3 72.8 - - - +
43A PHE* 1.3 64.1 + - - +
45A ILE* 3.3 7.8 + - + +
46A ILE* 3.1 27.5 + - - +
72A LEU* 4.7 3.1 - - + -
75A VAL* 4.2 4.5 - - + -
129A ILE* 4.5 6.3 - - + -
132A LEU* 4.2 21.3 - - + -
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Residues in contact with PHE 43 (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 3.0 16.3 + - - +
40A TYR* 3.7 23.6 - + - +
42A LEU* 1.3 76.8 - - - +
44A HIS* 1.3 59.9 + - - +
46A ILE* 3.2 10.2 - - + +
47A ASP* 2.9 43.7 + - + +
64A VAL* 3.5 45.1 - - + -
66A PHE* 3.6 46.2 - + + -
69A TYR* 3.8 18.6 - + + -
75A VAL* 3.9 11.3 - - + +
78A LEU* 3.6 20.9 - - + -
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Residues in contact with HIS 44 (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 VAL* 4.0 16.3 - - + +
40A TYR* 2.7 35.9 + - + +
41A THR 3.7 2.7 - - - +
43A PHE* 1.3 73.2 - - - +
45A ILE* 1.3 65.5 + - - +
47A ASP* 4.3 7.5 + - - -
48A VAL* 3.0 49.9 + - + +
124A HIS* 3.1 1.7 + + - -
128A HIS* 3.2 20.6 - + - -
200A NI 2.1 35.7 - - + +
201A CIT 3.1 31.4 + - - -
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Residues in contact with ILE 45 (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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12A ARG* 4.0 11.0 - - + +
41A THR* 3.0 27.4 + - + +
42A LEU* 3.3 14.3 + - + +
44A HIS* 1.3 77.0 - - - +
46A ILE* 1.3 57.7 + - - +
48A VAL* 4.0 1.4 - - - +
49A GLU* 3.1 27.8 + - + +
124A HIS* 4.5 8.1 + - - +
125A GLU* 3.3 43.7 - - + +
128A HIS* 3.8 32.1 - - + -
129A ILE* 3.6 32.8 - - + -
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Residues in contact with ILE 46 (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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12A ARG* 3.4 38.8 - - - +
16A PHE* 4.8 1.8 - - + -
42A LEU 3.1 11.6 + - - +
43A PHE* 3.2 15.5 - - - +
45A ILE* 1.3 73.5 - - - +
47A ASP* 1.3 58.6 + - - +
49A GLU* 3.9 6.7 - - - +
50A TYR* 3.0 32.7 + - - +
75A VAL* 3.6 20.4 - - + +
78A LEU* 3.5 32.1 - - + -
79A SER* 3.6 31.9 - - - +
82A PHE* 3.6 9.4 - - + -
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Residues in contact with ASP 47 (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 PHE* 2.9 39.8 + - + +
44A HIS* 3.7 10.3 + - - +
46A ILE* 1.3 75.2 - - + +
48A VAL* 1.3 63.9 + - + +
50A TYR* 3.9 1.9 - - - +
51A SER* 2.8 44.1 + - - -
63A ALA* 5.8 0.3 - - - -
64A VAL* 4.4 23.5 + - - +
82A PHE* 4.4 10.5 - - + -
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Residues in contact with VAL 48 (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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44A HIS* 3.0 47.8 + - + +
47A ASP* 1.3 76.1 - - + +
49A GLU* 1.3 66.6 + - - +
51A SER* 3.7 4.5 - - - -
52A TRP* 3.2 50.4 + - + +
120A HIS* 5.1 4.3 - - + +
121A ILE* 5.9 2.2 - - - -
124A HIS* 3.5 32.5 - - + +
201A CIT 4.7 2.0 - - - +
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Residues in contact with GLU 49 (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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5A PHE* 3.6 16.1 - - + -
8A ASN* 5.9 0.2 - - - +
9A TRP* 2.9 24.6 + - - -
12A ARG* 2.9 31.1 + - - +
45A ILE* 3.1 18.5 + - + +
46A ILE* 3.9 4.9 - - - +
48A VAL* 1.3 78.4 - - - +
50A TYR* 1.3 63.1 + - - +
52A TRP 3.5 0.2 + - - -
53A ILE* 3.1 27.6 + - + +
82A PHE* 5.8 0.3 - - - +
86A ILE* 3.4 25.9 - - + +
121A ILE* 3.8 30.2 - - + +
124A HIS* 5.4 0.6 + - - -
125A GLU* 4.3 5.2 - - + +
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Residues in contact with TYR 50 (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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46A ILE 3.0 18.2 + - - +
47A ASP* 4.0 2.2 - - - +
49A GLU* 1.3 76.4 - - - +
51A SER* 1.3 56.5 + - - +
53A ILE* 3.2 3.6 + - + +
54A ARG* 2.8 77.0 + - + +
61A ASP* 3.6 25.3 + - + -
64A VAL* 5.8 2.5 - - + -
82A PHE* 3.4 65.3 - + + -
85A GLU* 3.9 27.0 - - + +
86A ILE* 4.1 13.2 - - + -
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Residues in contact with SER 51 (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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47A ASP* 2.8 32.3 + - - -
48A VAL* 3.7 6.9 - - - -
50A TYR* 1.3 80.6 - - - +
52A TRP* 1.3 58.6 + - - +
54A ARG* 3.4 7.7 + - - +
55A ALA* 2.9 26.3 + - - +
61A ASP* 5.8 0.2 - - - -
106A TRP* 4.1 24.9 - - - -
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Residues in contact with TRP 52 (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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48A VAL* 3.2 41.1 + - + +
51A SER* 1.3 76.9 - - - +
53A ILE* 1.3 60.7 + - - +
55A ALA* 3.0 6.5 + - - +
56A ILE* 2.9 31.9 + - - +
104A VAL* 3.3 23.3 - - + -
106A TRP* 3.5 37.3 - + - -
112A TYR* 3.9 15.3 - + - -
117A ILE* 3.7 47.4 - - + +
120A HIS* 3.7 26.1 + + - -
121A ILE* 3.8 15.7 - - + -
149B ILE* 3.6 24.5 - - + -
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Residues in contact with ILE 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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5A PHE* 4.6 3.8 - - + -
49A GLU* 3.1 22.1 + - + +
50A TYR* 3.7 4.3 - - + +
52A TRP* 1.3 74.3 - - - +
54A ARG* 1.3 59.6 + - + +
56A ILE* 3.2 17.8 + - + +
57A GLN* 2.9 26.7 + - - +
85A GLU 5.4 0.4 - - - -
86A ILE* 3.8 37.5 - - + -
89A VAL* 3.7 30.6 - - + +
90A LEU* 3.9 26.5 - - + -
118A LEU* 4.4 2.9 - - + -
121A ILE* 3.7 21.1 - - + -
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Residues in contact with ARG 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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50A TYR* 2.8 57.8 + - + +
51A SER* 3.6 7.6 - - - +
53A ILE* 1.3 74.6 - - + +
55A ALA* 1.3 57.9 + - - +
57A GLN* 3.3 26.1 + - - +
58A GLY 3.0 8.1 + - - -
59A LYS* 2.8 74.6 + - - +
60A GLU* 4.4 4.0 + - - -
61A ASP* 2.7 39.7 + - - +
85A GLU* 3.6 16.9 + - - -
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Residues in contact with ALA 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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51A SER 2.9 14.6 + - - +
52A TRP* 3.0 14.8 + - + +
54A ARG* 1.3 73.7 - - - +
56A ILE* 1.3 63.5 + - - +
58A GLY* 3.1 14.2 + - - +
59A LYS 3.7 5.6 + - - +
102A VAL* 3.2 25.8 - - + +
103A SER 4.0 7.1 - - - +
104A VAL* 4.0 22.2 - - + -
105A PRO* 5.1 5.2 - - + -
106A TRP* 4.5 5.6 - - + -
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Residues in contact with ILE 56 (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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52A TRP 2.9 14.9 + - - +
53A ILE* 3.2 19.3 + - + +
55A ALA* 1.3 76.1 - - - +
57A GLN* 1.3 61.2 + - - +
58A GLY* 3.2 1.2 + - - -
89A VAL* 4.4 6.3 - - + -
90A LEU* 6.0 0.7 - - + -
102A VAL* 3.9 15.3 - - + +
114A ARG* 3.4 62.8 + - + +
117A ILE* 3.6 39.3 - - + -
118A LEU* 4.0 15.0 - - + -
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Residues in contact with GLN 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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53A ILE 2.9 15.7 + - - +
54A ARG* 3.3 33.9 + - - +
56A ILE* 1.3 76.6 - - - +
58A GLY* 1.3 57.9 + - - +
59A LYS* 3.4 38.0 + - + +
85A GLU* 3.6 17.7 + - - +
88A ASP* 6.4 0.2 - - - +
89A VAL* 3.4 32.4 - - + +
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Residues in contact with GLY 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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54A ARG 3.0 3.2 + - - -
55A ALA* 3.1 14.3 + - - -
56A ILE 3.1 1.9 - - - -
57A GLN* 1.3 77.2 - - - +
59A LYS* 1.3 61.9 + - - +
60A GLU 4.3 0.3 + - - -
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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