Contacts of the helix formed by residues 2 - 31 (chain B) in PDB entry 3QTH
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 LEU 2 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
0B GLY 3.3 3.4 - - - +
1B MSE 1.4 80.7 - - + +
3B SER* 1.3 56.7 + - - +
4B ARG 3.0 0.4 - - - -
5B ILE* 3.0 51.0 + - + +
6B ASP* 3.5 7.7 - - - +
106B LEU* 4.5 16.2 - - + -
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Residues in contact with SER 3 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
2A LEU* 3.4 2.6 + - - +
3A SER* 3.3 26.2 + - - -
6A ASP* 2.6 43.3 + - - -
7A LEU* 4.0 5.0 - - - +
0B GLY 3.3 8.0 + - - +
1B MSE 3.2 0.8 - - - -
2B LEU* 1.3 76.9 - - - +
4B ARG* 1.4 50.0 + - - +
5B ILE 3.2 0.2 - - - -
6B ASP* 3.2 14.8 + - - +
7B LEU* 2.8 33.9 + - - +
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Residues in contact with ARG 4 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
0B GLY 5.1 1.8 - - - +
1B MSE 3.0 32.9 + - - +
3B SER* 1.4 73.0 - - - +
5B ILE* 1.3 59.8 + - - +
7B LEU* 3.4 11.4 + - + +
8B TYR* 2.9 30.3 + - - +
106B LEU* 4.3 4.5 - - + -
109B LEU* 3.5 19.2 + - + +
110B ASN* 2.8 30.6 + - - -
125B PRO* 3.4 18.2 - - - +
127B SER* 3.6 23.7 + - - +
128B GLU* 2.8 43.3 + - - -
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Residues in contact with ILE 5 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
2B LEU* 3.0 38.0 + - + +
4B ARG* 1.3 77.2 - - - +
6B ASP* 1.3 59.2 + - - +
8B TYR* 3.2 3.5 + - - +
9B ILE* 2.9 47.6 + - + +
103B GLU* 4.0 14.8 - - + +
104B PRO* 3.9 17.9 - - + +
105B THR* 4.3 1.8 - - - -
106B LEU* 3.8 26.7 - - + +
109B LEU* 3.6 20.2 - - + -
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Residues in contact with ASP 6 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
0A GLY 5.2 3.6 + - - -
3A SER* 3.2 33.6 + - - +
7A LEU* 4.2 9.2 - - + -
181A GOL 5.4 0.9 - - - +
2B LEU* 3.5 6.6 - - - +
3B SER* 3.2 20.1 + - - +
5B ILE* 1.3 75.0 - - - +
7B LEU* 1.3 59.0 + - - +
9B ILE* 3.4 12.1 + - - +
10B LYS* 3.0 35.9 + - + +
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Residues in contact with LEU 7 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7A LEU* 3.6 22.8 - - + +
10A LYS* 3.9 41.3 - - + -
11A HIS* 4.2 7.2 - - + -
3B SER 2.8 19.7 + - - +
4B ARG* 3.6 9.6 - - + +
6B ASP* 1.3 69.7 - - - +
8B TYR* 1.3 56.7 - - - +
10B LYS* 3.4 3.8 + - + +
11B HIS* 2.9 59.6 + - + +
127B SER* 3.9 19.7 - - - +
131B SER* 3.6 20.0 - - - +
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Residues in contact with TYR 8 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4B ARG 2.9 17.7 + - - +
5B ILE 3.2 3.8 + - - +
7B LEU* 1.3 73.4 - - - +
9B ILE* 1.4 62.2 + - + +
12B ARG* 2.7 72.0 + - + +
65B ALA 4.7 2.5 - - - -
66B CYS* 3.7 26.4 + - - +
101B LEU* 4.5 7.6 - - - +
102B SER 4.8 4.9 + - - -
104B PRO* 3.3 39.1 - - + +
109B LEU* 3.6 28.5 - - + -
127B SER* 5.8 1.8 + - - +
130B MSE 3.4 40.5 - - + +
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Residues in contact with ILE 9 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
5B ILE* 2.9 33.7 + - + +
6B ASP* 3.9 11.0 - - - +
8B TYR* 1.4 81.4 - - + +
10B LYS* 1.4 59.6 + - + +
12B ARG* 3.5 25.1 + - - +
13B ASP* 2.9 44.8 + - - +
103B GLU* 3.5 39.7 - - + +
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Residues in contact with LYS 10 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7A LEU* 3.4 18.3 - - + +
11A HIS* 5.8 2.7 - - + -
127A SER* 3.5 10.8 - - - -
128A GLU* 3.4 27.8 - - - +
131A SER* 4.3 17.3 - - - +
132A SER* 5.8 0.7 - - - +
181A GOL 3.2 44.0 + - - -
6B ASP* 3.0 23.0 + - + +
7B LEU* 3.7 5.6 - - - +
9B ILE* 1.4 77.7 - - + +
11B HIS* 1.3 66.8 + - + +
13B ASP* 3.3 7.0 + - - +
14B ILE* 3.0 31.0 + - + +
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Residues in contact with HIS 11 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11A HIS* 2.9 31.4 + + - -
14A ILE* 4.6 3.6 - - + -
135A LEU* 4.2 1.4 - - - +
7B LEU* 2.9 35.6 + - + +
10B LYS* 1.3 74.5 - - + +
12B ARG* 1.4 66.9 + - - +
14B ILE* 3.0 26.8 + - + +
15B PHE* 2.9 33.8 + - + -
130B MSE 3.9 15.5 - - + -
131B SER* 2.6 33.6 + - - -
135B LEU* 3.6 28.6 - - + +
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Residues in contact with ARG 12 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8B TYR* 2.7 54.1 + - + +
9B ILE* 3.7 29.1 - - - +
11B HIS* 1.4 70.2 - - - +
13B ASP* 1.4 81.2 + - - +
15B PHE* 3.2 14.4 + - - +
16B LEU* 3.0 34.4 + - + +
66B CYS* 3.9 18.4 - - - -
98B ILE* 3.9 23.1 - - + -
101B LEU* 4.8 12.3 + - - -
102B SER 5.2 0.6 + - - -
103B GLU* 4.9 11.7 - - - +
130B MSE 4.2 4.9 - - + +
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Residues in contact with ASP 13 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9B ILE* 2.9 33.0 + - - +
10B LYS* 3.6 7.1 - - - +
11B HIS 3.2 0.2 - - - -
12B ARG* 1.4 102.6 + - - +
14B ILE* 1.3 56.8 + - + +
16B LEU* 3.5 13.0 + - - +
17B LYS* 2.9 29.7 + - - +
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Residues in contact with ILE 14 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
131A SER* 3.2 51.8 - - - +
132A SER* 4.1 15.3 - - - +
135A LEU* 5.5 1.8 - - + -
136A PRO* 4.9 0.7 - - + -
10B LYS* 3.0 19.9 + - + +
11B HIS* 3.0 22.3 + - + +
13B ASP* 1.3 73.3 - - + +
15B PHE* 1.4 65.8 + - - +
17B LYS* 3.3 7.8 + - + +
18B HIS* 3.0 36.1 + - + +
135B LEU* 4.4 8.3 - - + -
138B PHE* 5.5 0.2 - - + -
139B PHE* 3.7 33.4 - - + -
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Residues in contact with PHE 15 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11B HIS* 2.9 30.0 + - + -
12B ARG* 3.5 10.3 - - - +
14B ILE* 1.4 75.0 - - - +
16B LEU* 1.3 57.0 + - - +
18B HIS 3.4 0.3 + - - -
19B LEU* 2.9 37.9 + - + +
62B ALA* 4.1 17.7 - - + -
65B ALA* 3.7 7.4 - - + -
66B CYS* 4.1 15.3 - - - -
98B ILE* 5.3 2.0 - - + -
130B MSE 3.5 30.3 - - + -
134B VAL* 3.7 24.2 - - + -
135B LEU* 4.0 24.2 - - + -
138B PHE* 3.7 51.7 - + + -
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Residues in contact with LEU 16 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12B ARG* 3.0 27.8 + - - +
13B ASP* 3.6 21.8 - - - +
15B PHE* 1.3 72.8 - - - +
17B LYS* 1.4 64.0 + - - +
19B LEU* 3.4 6.8 + - + +
20B GLU* 3.1 33.6 + - - +
95B ILE* 3.8 29.2 - - + +
98B ILE* 3.7 34.1 - - + -
99B ASN* 3.4 32.8 - - - +
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Residues in contact with LYS 17 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132A SER* 4.4 15.3 + - - +
13B ASP 2.9 18.7 + - - +
14B ILE* 3.3 7.8 + - + +
16B LEU* 1.4 76.3 - - - +
18B HIS* 1.3 69.5 + - + +
20B GLU* 3.2 11.2 + - - +
21B LEU* 3.0 39.6 + - + +
162B ASP 2.7 29.1 + - - -
163B GLY* 4.8 4.9 + - - -
164B ILE* 3.5 22.0 - - - +
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Residues in contact with HIS 18 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132A SER* 4.8 1.0 + - - -
136A PRO* 3.6 27.0 - - + +
14B ILE* 3.0 32.2 + - + +
17B LYS* 1.3 91.0 + - + +
19B LEU* 1.3 60.5 + - - +
21B LEU* 3.7 8.8 - - + +
22B LEU* 2.8 29.8 + - - +
138B PHE* 3.7 23.1 - - + -
139B PHE* 3.7 29.1 - + - -
142B ILE* 4.4 10.0 - - + +
146B TYR* 4.9 1.1 + - - -
161B PHE* 3.2 32.5 + + - -
162B ASP* 4.0 9.6 - - - -
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Residues in contact with LEU 19 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15B PHE 2.9 25.2 + - - +
16B LEU* 3.7 4.0 - - - +
18B HIS* 1.3 75.8 - - - +
20B GLU* 1.4 56.4 + - - +
22B LEU* 3.3 13.7 + - + +
23B HIS* 2.9 23.7 + - - +
59B THR* 3.9 34.3 - - + +
62B ALA* 3.7 21.8 - - + -
91B VAL* 3.3 15.1 - - + +
94B ALA* 4.3 11.0 - - + -
95B ILE* 3.7 27.1 - - + -
98B ILE* 3.8 19.7 - - + -
138B PHE* 3.9 16.8 - - + -
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Residues in contact with GLU 20 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16B LEU* 3.1 23.8 + - - +
17B LYS* 3.2 12.2 + - - +
19B LEU* 1.4 76.2 - - - +
21B LEU* 1.4 56.4 + - + +
23B HIS* 3.2 5.6 + - - +
24B LYS* 3.0 34.2 + - + +
95B ILE* 3.8 29.5 - - + +
99B ASN* 5.4 2.3 + - - -
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Residues in contact with LEU 21 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17B LYS* 3.0 31.1 + - + +
18B HIS* 3.3 15.9 + - - +
20B GLU* 1.4 71.5 - - - +
22B LEU* 1.4 55.0 + - - +
24B LYS* 3.4 17.2 + - + +
25B LEU* 2.8 29.1 + - - +
146B TYR* 3.4 19.8 + - - +
159B GLY 4.4 2.0 - - - +
160B ASP* 3.8 14.8 - - - +
161B PHE 3.4 21.5 - - - +
162B ASP* 3.7 18.4 - - - +
163B GLY* 4.2 15.3 - - - +
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Residues in contact with LEU 22 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18B HIS 2.8 18.5 + - - +
19B LEU* 3.4 12.8 - - + +
21B LEU* 1.4 72.8 - - - +
23B HIS* 1.3 64.5 + - - +
25B LEU* 3.1 7.7 + - + +
26B ILE* 3.0 41.7 + - + +
55B ALA* 4.1 16.6 - - + +
58B ALA* 4.8 0.4 - - + -
59B THR* 3.8 21.5 - - - +
91B VAL* 3.9 12.8 - - + -
142B ILE* 3.8 24.0 - - + -
145B VAL* 3.7 34.8 - - + -
146B TYR* 3.8 8.0 + - + +
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Residues in contact with HIS 23 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19B LEU 2.9 13.5 + - - +
20B GLU* 3.2 12.3 + - - +
22B LEU* 1.3 75.1 - - - +
24B LYS* 1.4 65.5 + - + +
26B ILE* 3.3 12.4 + - - +
27B GLU* 3.1 47.3 + - - +
88B LYS* 3.7 37.1 + - + +
91B VAL* 4.0 9.4 - - + -
92B VAL* 3.4 33.2 - - + +
95B ILE* 4.6 4.3 - - + -
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Residues in contact with LYS 24 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20B GLU* 3.0 20.3 + - + +
21B LEU* 3.6 21.1 - - + +
22B LEU 3.3 0.2 - - - -
23B HIS* 1.4 74.9 - - + +
25B LEU* 1.4 63.7 + - - +
27B GLU* 3.4 22.3 + - - +
28B LYS* 3.2 21.5 + - - +
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Residues in contact with LEU 25 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21B LEU 2.8 17.0 + - - +
22B LEU* 3.1 10.0 + - + +
24B LYS* 1.4 70.7 - - - +
26B ILE* 1.4 60.3 + - - +
28B LYS* 3.0 11.7 + - + +
29B VAL* 2.9 41.9 + - + +
51B PHE* 4.9 0.7 - - + -
145B VAL* 3.6 33.2 - - + +
146B TYR* 3.6 42.6 - - + +
149B ALA* 4.2 5.4 - - + -
154B VAL* 4.9 0.9 - - + -
156B VAL* 3.6 30.7 - - + -
160B ASP* 5.3 4.7 - - + +
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Residues in contact with ILE 26 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22B LEU* 3.0 36.0 + - + +
23B HIS* 3.3 8.9 + - - +
25B LEU* 1.4 73.5 - - + +
27B GLU* 1.3 56.8 + - - +
29B VAL* 3.3 8.6 + - - +
30B GLU* 2.9 28.1 + - - +
51B PHE* 4.6 11.0 - - + -
55B ALA* 4.7 2.2 - - + -
84B PHE* 4.0 27.3 - - + +
87B LEU* 3.9 35.9 - - + +
88B LYS* 3.6 22.7 - - + +
91B VAL* 3.9 23.3 - - + -
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Residues in contact with GLU 27 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23B HIS* 3.1 36.8 + - - +
24B LYS* 3.5 29.1 + - - +
25B LEU 3.2 0.2 - - - -
26B ILE* 1.3 74.8 - - - +
28B LYS* 1.4 60.2 + - - +
30B GLU* 3.4 13.2 - - - +
31B ASP* 3.2 24.8 + - - +
88B LYS* 3.8 23.9 + - + +
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Residues in contact with LYS 28 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24B LYS 3.2 11.4 + - - +
25B LEU* 3.0 13.1 + - + +
27B GLU* 1.4 74.1 - - - +
29B VAL* 1.4 62.5 + - - +
31B ASP* 3.5 6.2 + - - +
32B SER* 3.2 22.0 + - - -
154B VAL* 4.2 8.7 - - + -
155B SER* 2.8 31.7 + - - +
156B VAL* 4.0 16.6 - - + -
160B ASP* 3.3 29.5 + - - +
----------------------------------------------------------
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Residues in contact with VAL 29 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25B LEU* 2.9 31.8 + - + +
26B ILE* 3.7 9.0 - - - +
28B LYS* 1.4 72.0 - - - +
30B GLU* 1.4 61.1 + - - +
32B SER* 2.7 26.1 + - - -
34B LEU* 4.8 0.5 + - - +
39B LEU* 3.7 41.1 - - + +
51B PHE* 4.0 24.9 - - + -
84B PHE* 3.7 16.1 - - + -
149B ALA* 4.1 5.8 - - + -
154B VAL* 4.0 18.6 - - + -
----------------------------------------------------------
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Residues in contact with GLU 30 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26B ILE 2.9 16.4 + - - +
27B GLU* 3.4 9.8 - - - +
28B LYS 3.3 0.4 - - - -
29B VAL* 1.4 76.3 - - - +
31B ASP* 1.3 57.3 + - - +
32B SER 3.2 4.4 + - - -
33B SER* 4.0 6.2 + - - -
34B LEU 5.1 2.9 + - - +
84B PHE* 3.6 45.1 - - + +
85B CYS* 4.4 5.9 + - - +
88B LYS* 2.8 36.7 + - - +
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Residues in contact with ASP 31 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27B GLU 3.2 13.1 + - - +
28B LYS* 3.5 6.7 + - - +
30B GLU* 1.3 75.4 - - + +
32B SER* 1.4 54.6 + - - +
33B SER* 3.2 10.6 + - - -
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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) + - + + + + + -
------------------------------------------------------------
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