Contacts of the strand formed by residues 101 - 123 (chain A) in PDB entry 2DT4
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 VAL 101 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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73A ILE* 3.6 24.0 - - + -
93A SER* 3.8 21.5 - - - -
94A LEU 3.2 7.0 - - - +
95A GLY* 4.6 0.2 - - - -
99A GLY 4.0 9.6 - - - +
100A ILE* 1.3 85.1 - - - +
102A PHE* 1.3 78.4 + - - +
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Residues in contact with PHE 102 (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 ILE* 4.4 5.2 - - + -
64A ILE* 6.3 0.7 - - + -
66A LEU* 4.1 32.8 - - + -
70A TYR* 3.8 28.5 - + - -
93A SER* 3.4 3.5 - - - -
94A LEU* 2.7 35.4 + - + +
96A ASN* 4.0 21.1 - - - -
100A ILE* 4.0 21.8 - - + -
101A VAL* 1.3 80.8 - - - +
103A GLY* 1.3 60.5 + - - +
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Residues in contact with GLY 103 (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 ILE* 3.6 26.7 - - - +
64A ILE* 6.1 0.2 - - - +
92A VAL 3.2 12.1 - - - -
93A SER* 4.4 1.6 - - - -
94A LEU* 5.0 0.7 - - - -
102A PHE* 1.3 80.1 - - - +
104A GLY* 1.3 57.7 - - - -
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Residues in contact with GLY 104 (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 ILE* 4.2 5.1 - - - +
52A GLY 3.7 9.6 - - - -
91A HIS* 3.3 13.2 - - - +
92A VAL* 2.9 30.9 + - - +
103A GLY* 1.3 74.9 - - - -
105A HIS* 1.3 66.3 + - - -
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Residues in contact with HIS 105 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23A LEU* 5.6 0.8 - - - +
51A ILE* 3.2 6.9 - - - -
52A GLY 2.7 42.9 + - - +
61A TYR* 3.4 45.8 - + + -
87A PHE* 6.4 0.2 - - - -
89A HIS* 3.3 32.6 + + - -
90A ALA 3.4 11.4 + - - -
91A HIS* 3.7 19.0 + - + +
104A GLY* 1.3 70.5 - - - -
106A LEU* 1.3 84.0 + - - +
107A VAL* 3.4 17.6 + - + +
1144A GOL 4.1 0.9 - - - +
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Residues in contact with LEU 106 (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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22A LEU* 4.3 15.9 - - + -
23A LEU* 3.4 40.5 - - + +
46A LEU* 4.2 14.6 - - + -
49A PRO* 4.8 3.4 - - + -
50A LYS 3.7 7.4 - - - +
51A ILE* 4.9 0.2 - - + -
75A LEU* 4.2 12.1 - - + -
90A ALA* 2.8 23.3 + - + +
92A VAL* 3.9 37.7 - - + -
104A GLY 3.5 2.0 + - - -
105A HIS* 1.3 85.7 + - - +
107A VAL* 1.3 58.6 + - - +
108A GLU 3.5 31.4 - - - +
109A GLY 5.0 0.2 - - - +
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Residues in contact with VAL 107 (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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21A GLU* 5.3 0.2 - - - -
23A LEU* 3.4 13.9 - - - +
50A LYS* 2.9 26.6 + - + +
51A ILE 3.8 5.4 - - - +
52A GLY* 3.7 26.2 - - - +
61A TYR* 5.3 2.9 - - + -
63A VAL* 4.3 22.0 - - + -
105A HIS* 3.4 19.7 + - + +
106A LEU* 1.3 72.8 - - - +
108A GLU* 1.3 70.8 + - + +
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Residues in contact with GLU 108 (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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21A GLU* 3.3 23.9 - - + +
23A LEU* 4.5 0.4 - - - -
48A ASN 5.1 2.9 - - - +
49A PRO* 3.5 1.2 - - - +
50A LYS* 2.8 74.2 + - + +
106A LEU* 3.5 11.0 - - - +
107A VAL* 1.3 84.7 - - + +
109A GLY* 1.3 60.9 + - - +
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Residues in contact with GLY 109 (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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21A GLU* 2.9 15.6 + - - +
22A LEU* 2.9 33.6 + - - +
46A LEU* 4.4 17.3 - - - -
48A ASN 4.8 0.9 - - - -
49A PRO* 4.2 12.3 - - - -
106A LEU* 4.4 1.6 - - - +
108A GLU* 1.3 79.0 - - - +
110A GLU* 1.3 64.3 + - - -
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Residues in contact with GLU 110 (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 GLU* 5.9 1.7 - - - +
19A GLY* 4.1 28.8 - - - +
20A GLU 3.6 3.4 - - - -
21A GLU* 4.5 4.2 - - - +
46A LEU* 3.2 5.8 - - - -
47A LYS* 2.8 68.0 + - + +
48A ASN* 4.8 8.0 + - - +
109A GLY* 1.3 72.3 - - - -
111A VAL* 1.3 64.9 + - - +
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Residues in contact with VAL 111 (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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16A VAL* 3.6 38.6 - - + +
17A PRO 3.7 8.3 - - - +
18A GLU* 3.3 1.7 - - - +
19A GLY* 2.8 29.8 + - - -
20A GLU 2.7 21.9 + - - +
22A LEU* 3.8 32.1 - - + +
46A LEU* 4.0 6.3 - - + -
47A LYS* 5.2 0.9 - - - -
110A GLU* 1.3 75.9 - - - +
112A PHE* 1.4 77.1 - - - +
113A VAL 3.6 13.9 - - - +
114A ALA* 3.7 6.3 - - + +
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Residues in contact with PHE 112 (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 ARG* 5.1 3.1 + - - -
16A VAL 4.7 0.3 - - - +
18A GLU* 3.6 47.7 + - + +
45A THR* 2.8 39.0 + - + +
47A LYS* 3.8 35.7 - - + +
110A GLU 3.6 1.8 + - - -
111A VAL* 1.4 78.6 - - - +
113A VAL* 1.3 80.9 + - + +
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Residues in contact with VAL 113 (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 ARG* 4.2 19.7 - - - +
16A VAL 4.9 1.8 - - - -
44A GLY* 3.2 8.1 - - - -
45A THR* 2.8 35.0 + - - +
46A LEU* 5.1 0.3 - - - +
72A LEU* 5.3 0.2 - - - +
111A VAL* 3.7 2.9 - - - -
112A PHE* 1.3 105.0 - - + +
114A ALA* 1.3 65.5 + - - +
115A GLU* 3.9 28.9 - - + +
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Residues in contact with ALA 114 (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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14A PHE 3.6 1.2 - - - +
15A ARG* 3.2 5.1 - - - +
16A VAL* 2.9 34.9 + - + +
22A LEU* 4.0 28.5 - - + -
43A ILE 3.4 6.5 - - - +
46A LEU* 5.2 1.1 - - + -
72A LEU* 4.8 4.3 - - + -
111A VAL* 3.7 19.9 - - + +
113A VAL* 1.3 77.4 - - - +
115A GLU* 1.3 64.0 + - - +
116A ILE* 3.8 9.9 - - + -
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Residues in contact with GLU 115 (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* 5.0 8.4 - - + +
14A PHE 3.4 6.5 - - - +
15A ARG* 4.8 14.1 - - + -
42A GLY* 3.2 22.7 - - - -
43A ILE* 2.8 37.7 + - + +
44A GLY* 6.0 0.4 - - - -
113A VAL* 3.9 22.2 - - + +
114A ALA* 1.3 74.3 - - - +
116A ILE* 1.3 60.7 + - - +
117A PHE 4.3 0.2 + - - -
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Residues in contact with ILE 116 (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 TYR 3.9 0.5 - - - +
13A LEU* 3.3 7.8 - - - -
14A PHE* 2.9 61.8 + - + +
16A VAL* 3.8 24.9 - - + -
22A LEU* 4.2 20.0 - - + -
26A ILE* 4.6 16.2 - - + -
40A ILE* 4.6 10.8 - - + -
41A ASN 3.6 4.3 - - - +
42A GLY* 4.1 15.0 - - - +
43A ILE 4.8 0.4 - - - +
72A LEU* 5.1 1.6 - - + -
75A LEU* 5.0 6.7 - - + -
114A ALA* 4.0 14.8 - - + -
115A GLU* 1.3 81.0 - - - +
117A PHE* 1.3 71.3 + - - +
118A LEU* 4.8 0.7 - - + -
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Residues in contact with PHE 117 (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 THR* 3.5 31.6 - - + -
12A TYR 3.3 13.2 - - - -
13A LEU* 4.1 16.8 - - + -
39A ILE* 4.1 13.7 - - + -
40A ILE* 3.2 7.3 - - - +
41A ASN* 2.8 62.4 + - - +
115A GLU 4.3 0.4 + - - -
116A ILE* 1.3 72.4 - - - +
118A LEU* 1.3 62.3 + - - +
119A GLN* 3.9 28.5 - - + -
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Residues in contact with LEU 118 (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 THR* 3.6 2.9 - - - +
12A TYR* 2.9 59.8 + - + +
14A PHE* 4.4 11.2 - - + -
26A ILE* 4.2 8.7 - - + -
29A PHE* 3.8 20.4 - - + -
30A CYS* 4.0 18.2 - - - -
35A ILE* 3.9 15.3 - - + -
38A ALA* 3.6 18.8 - - + -
39A ILE 3.3 4.0 - - - +
40A ILE* 3.7 22.7 - - + -
79A VAL* 4.7 0.4 - - + -
116A ILE* 4.8 0.7 - - + -
117A PHE* 1.3 78.3 - - - +
119A GLN* 1.3 62.9 + - - +
120A GLU 4.0 4.9 - - - +
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Residues in contact with GLN 119 (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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8A LEU* 3.7 29.6 - - + +
9A GLY 3.0 22.5 + - - +
10A ARG 3.2 3.9 - - - +
11A THR* 2.6 33.2 + - - +
38A ALA* 3.1 5.4 - - - -
39A ILE* 2.9 54.0 + - + +
117A PHE* 3.9 14.7 - - + -
118A LEU* 1.3 72.8 - - - +
120A GLU* 1.3 79.9 + - - +
121A LEU* 3.7 7.7 + - + +
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Residues in contact with GLU 120 (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 GLY* 2.9 20.0 + - - -
10A ARG* 2.8 71.2 + - + +
34A GLY 4.1 4.9 - - - +
35A ILE* 4.0 20.1 - - + +
36A GLU 4.9 1.4 + - - -
37A THR 3.4 14.1 - - - +
38A ALA* 4.0 2.9 - - - -
118A LEU* 4.0 4.1 - - + +
119A GLN* 1.3 81.9 - - - +
121A LEU* 1.3 72.3 + - - +
122A LYS* 2.9 35.7 + - + +
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Residues in contact with LEU 121 (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 PHE* 3.8 34.2 - - + +
7A SER 3.4 10.1 - - - +
8A LEU* 4.1 19.7 - - + -
37A THR* 2.9 43.1 + - + +
38A ALA* 4.6 2.5 - - - -
39A ILE* 4.3 23.6 - - + -
119A GLN* 4.0 13.0 - - + +
120A GLU* 1.3 88.5 - - - +
122A LYS* 1.3 63.9 + - - +
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Residues in contact with LYS 122 (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 PHE* 3.3 7.7 - - - -
7A SER* 2.8 49.5 + - - +
8A LEU 4.9 0.2 - - - -
9A GLY* 4.0 18.4 - - - -
10A ARG* 4.1 9.8 - - - +
34A GLY 5.1 2.4 + - - -
120A GLU* 2.9 39.8 + - - +
121A LEU* 1.3 76.2 - - - +
123A GLY* 1.3 59.2 + - - +
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Residues in contact with GLY 123 (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 MET 4.9 3.1 - - - -
6A PHE* 3.8 7.2 - - - -
121A LEU 4.4 0.4 + - - -
122A LYS* 1.3 76.8 - - - +
124A GLU* 1.3 70.3 + - - +
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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