Contacts of the helix formed by residues 24 - 50 (chain B) in PDB entry 2UX1
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 ASP 24 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22B LEU 3.4 0.8 + - - -
23B ALA* 1.3 83.9 - - + +
25B SER* 1.3 63.2 + - - +
26B LYS* 3.6 19.3 + - - +
27B ALA* 2.9 29.2 + - - +
28B VAL* 3.1 27.0 + - - +
135B VAL* 3.2 13.7 - - - -
139B GLU* 3.1 24.2 - - - +
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Residues in contact with SER 25 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24B ASP* 1.3 73.5 - - - +
26B LYS* 1.3 62.1 + - - +
28B VAL* 3.4 4.4 + - - +
29B LEU* 2.9 34.7 + - - +
83B LEU* 5.0 2.5 - - - -
132B GLY 5.9 0.4 - - - -
135B VAL* 3.4 5.5 + - - +
136B SER* 3.3 28.3 + - - +
139B GLU* 2.9 20.2 + - - -
141B ASP* 3.6 24.5 - - - +
144B THR* 4.4 9.8 - - - +
148B PHE* 5.1 1.0 - - - -
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Residues in contact with LYS 26 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24B ASP* 3.4 15.6 + - - +
25B SER* 1.3 77.1 - - - +
27B ALA* 1.3 63.6 + - - +
29B LEU* 3.4 5.1 + - - +
30B ASN* 3.0 24.4 + - - +
80B LEU* 3.5 29.8 - - + +
83B LEU* 3.7 41.0 + - + +
84B GLY* 4.1 13.3 + - - -
85B GLY* 4.1 7.0 - - - +
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Residues in contact with ALA 27 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22B LEU* 3.8 15.5 - - + +
23B ALA* 3.7 21.8 - - + +
24B ASP* 2.9 24.7 + - - +
25B SER 3.2 0.2 - - - -
26B LYS* 1.3 78.3 - - - +
28B VAL* 1.3 57.6 + - - +
30B ASN* 3.4 5.8 + - - +
31B GLN* 3.0 25.3 + - - +
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Residues in contact with VAL 28 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22B LEU* 3.8 24.0 - - + -
24B ASP 3.1 16.8 + - - +
25B SER* 3.9 4.3 - - - +
27B ALA* 1.3 72.8 - - - +
29B LEU* 1.3 61.6 + - - +
31B GLN* 3.0 7.6 + - - +
32B ALA* 2.8 27.9 + - - +
128B LEU* 4.2 20.2 - - + +
131B LYS* 4.5 3.6 - - + +
132B GLY* 3.5 31.2 - - - +
135B VAL* 3.9 24.5 - - + -
148B PHE* 3.9 9.6 - - + -
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Residues in contact with LEU 29 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25B SER 2.9 23.3 + - - +
26B LYS* 3.7 5.6 - - - +
27B ALA 3.4 0.2 - - - -
28B VAL* 1.3 76.7 - - - +
30B ASN* 1.3 57.6 + - - +
32B ALA* 3.1 5.5 + - - +
33B VAL* 2.9 31.5 + - - +
76B MET* 3.6 40.1 - - + +
79B ARG* 4.0 9.9 - - + -
80B LEU* 4.0 23.8 - - + +
83B LEU* 3.8 28.0 - - + -
144B THR* 4.0 14.6 - - + -
147B ILE* 5.4 2.7 - - + -
148B PHE* 3.8 22.6 - - + -
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Residues in contact with ASN 30 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26B LYS 3.0 17.2 + - - +
27B ALA* 3.8 5.8 - - - +
29B LEU* 1.3 73.1 - - - +
31B GLN* 1.3 65.3 + - - +
33B VAL* 3.3 7.1 + - - +
34B ALA 3.1 18.0 + - - -
80B LEU* 3.4 14.7 - - + +
86B ALA 3.4 18.6 + - - -
87B PRO* 3.3 5.9 - - - +
88B PHE* 2.9 69.4 + - + +
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Residues in contact with GLN 31 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22B LEU* 3.5 29.0 - - + +
27B ALA 3.0 13.9 + - - +
28B VAL* 3.0 12.0 + - - +
30B ASN* 1.3 76.2 - - - +
32B ALA* 1.3 58.6 + - - +
34B ALA* 3.2 7.0 + - - +
35B ASP* 2.8 62.2 + - - +
88B PHE* 4.8 3.0 - - - -
97B ASN* 3.0 32.6 + - - +
98B SER* 3.9 0.6 - - - +
99B GLN* 3.9 10.1 - - - +
124B TYR* 3.8 6.7 + - - +
128B LEU* 3.7 17.9 - - + -
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Residues in contact with ALA 32 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28B VAL 2.8 12.4 + - - +
29B LEU 3.1 8.7 + - - +
31B GLN* 1.3 74.0 - - - +
33B VAL* 1.3 56.4 + - - +
36B LEU* 2.7 43.5 + - + +
76B MET* 3.8 28.0 - - - -
128B LEU* 3.6 22.6 - - + +
129B PHE* 4.4 1.6 - - + -
148B PHE* 4.3 9.0 - - + -
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Residues in contact with VAL 33 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29B LEU 2.9 20.4 + - - +
30B ASN* 3.5 20.4 - - - +
32B ALA* 1.3 75.7 - - - +
34B ALA* 1.3 59.9 + - - +
36B LEU* 4.8 1.1 - - - -
37B SER* 2.8 31.0 + - - -
73B LEU* 3.9 21.9 - - + +
76B MET* 4.5 2.0 - - + +
77B SER* 3.7 35.4 - - - +
80B LEU* 5.2 1.1 - - + -
87B PRO* 4.7 1.8 - - + -
88B PHE* 3.6 25.4 - - + +
94B PHE* 3.7 11.9 - - + -
48D TRP* 4.3 5.4 - - + -
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Residues in contact with ALA 34 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30B ASN 3.1 12.4 + - - +
31B GLN* 3.4 9.0 - - - +
33B VAL* 1.3 77.1 - - - +
35B ASP* 1.3 62.2 + - - +
37B SER* 3.3 5.0 + - - -
38B VAL* 3.1 26.2 + - - +
88B PHE* 3.9 15.0 - - + -
94B PHE* 3.7 29.9 - - - +
97B ASN* 4.0 15.0 - - + -
98B SER* 4.0 7.0 - - - +
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Residues in contact with ASP 35 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31B GLN* 2.8 34.9 + - - +
32B ALA 4.1 0.2 - - - +
34B ALA* 1.3 69.6 - - - +
36B LEU* 1.3 56.4 + - - +
38B VAL 3.4 0.2 + - - -
39B ALA* 2.8 35.2 + - - +
98B SER* 2.5 29.3 + - - -
99B GLN 2.8 15.4 + - - -
100B LEU* 3.4 6.4 + - + +
124B TYR* 2.7 39.0 + - + -
125B LEU* 4.3 5.6 - - + -
128B LEU* 3.3 19.3 - - + +
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Residues in contact with LEU 36 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32B ALA* 2.7 32.4 + - + +
33B VAL 4.1 2.2 - - - +
35B ASP* 1.3 70.7 - - - +
37B SER* 1.3 58.4 + - - +
39B ALA* 3.6 2.2 - - - +
40B HIS* 2.9 30.8 + - - +
69B ILE* 3.4 41.0 - - + +
72B TYR* 3.8 13.0 - - + -
73B LEU* 3.6 39.9 - - + +
76B MET* 3.8 20.0 - - + -
125B LEU* 3.9 20.2 - - + -
129B PHE* 4.0 12.3 - - + -
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Residues in contact with SER 37 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33B VAL 2.8 22.7 + - - -
34B ALA 3.5 5.6 - - - -
36B LEU* 1.3 77.2 - - - +
38B VAL* 1.3 61.0 + - - +
40B HIS* 3.5 6.8 - - - +
41B SER* 3.2 20.1 + - - -
73B LEU* 3.7 20.7 - - - +
94B PHE* 3.6 40.4 - - - -
91D LEU* 4.6 6.6 - - - +
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Residues in contact with VAL 38 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34B ALA 3.1 7.2 + - - +
35B ASP 4.0 1.1 - - - +
36B LEU 3.4 0.2 - - - -
37B SER* 1.3 73.9 - - - +
39B ALA* 1.3 66.3 + - - +
41B SER* 3.1 7.8 + - - -
42B ILE* 2.9 23.9 + - + +
94B PHE 3.9 6.5 - - - +
95B SER* 4.3 5.2 - - - -
98B SER* 3.6 32.1 - - - +
100B LEU* 3.8 28.9 - - + +
102B GLU* 3.6 28.7 - - + +
91D LEU* 3.8 22.0 - - + -
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Residues in contact with ALA 39 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35B ASP 2.8 22.4 + - - +
36B LEU* 3.6 9.9 - - - +
38B VAL* 1.3 74.2 - - - +
40B HIS* 1.3 61.4 + - - +
42B ILE* 3.2 5.8 + - - +
43B LEU* 2.9 29.7 + - + +
69B ILE* 4.6 7.0 - - + -
100B LEU* 3.9 8.0 - - + +
121B VAL* 3.7 26.0 - - + +
125B LEU* 4.1 13.5 - - + -
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Residues in contact with HIS 40 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36B LEU 2.9 18.5 + - - +
37B SER* 3.5 9.0 - - - +
39B ALA* 1.3 76.1 - - - +
41B SER* 1.3 61.3 + - - +
43B LEU* 3.3 8.8 + - - +
44B HIS* 2.9 25.9 + + - +
66B MET* 3.9 24.4 + - + +
69B ILE* 4.1 7.7 - - + +
70B ASP* 2.6 41.9 + - - +
73B LEU* 5.5 2.2 - - + -
1174B ZN 2.3 35.5 - - - -
40D HIS* 6.6 0.2 - + - -
70D ASP* 6.0 2.0 - - - -
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Residues in contact with SER 41 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37B SER 3.2 9.9 + - - -
38B VAL* 3.1 7.5 + - - -
40B HIS* 1.3 86.4 - - - +
42B ILE* 1.3 56.5 + - - +
44B HIS* 3.3 4.8 + - - +
45B GLN* 2.9 27.9 + - - +
102B GLU* 2.6 27.6 + - - -
89D SER 3.6 11.3 + - - +
90D THR* 3.9 3.3 - - - -
91D LEU* 3.8 21.6 - - - +
94D PHE* 4.0 8.9 - - - -
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Residues in contact with ILE 42 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38B VAL* 2.9 34.2 + - + +
39B ALA* 3.2 7.2 + - - +
41B SER* 1.3 74.6 - - - +
43B LEU* 1.3 58.3 + - + +
45B GLN* 3.1 15.9 + - - +
46B VAL* 3.0 32.9 + - + +
100B LEU* 4.3 8.7 - - + -
101B LYS 4.3 7.0 - - - +
102B GLU* 4.2 17.0 - - + -
117B ARG* 3.8 44.4 - - + +
118B VAL* 5.8 2.0 - - + -
121B VAL* 3.8 26.0 - - + -
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Residues in contact with LEU 43 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39B ALA* 2.9 23.2 + - + +
40B HIS* 3.6 4.3 - - - +
42B ILE* 1.3 77.5 - - + +
44B HIS* 1.3 58.8 + - - +
46B VAL* 3.3 8.9 + - - +
47B HIS* 2.9 28.1 + - - +
62B MET* 4.0 17.8 - - - +
65B TYR* 3.9 18.4 - - + -
66B MET* 3.7 27.6 - - + +
69B ILE* 3.6 31.6 - - + -
118B VAL* 3.9 30.7 - - + -
121B VAL* 5.7 2.9 - - + -
122B PHE* 4.0 9.9 - - + -
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Residues in contact with HIS 44 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40B HIS* 2.9 17.8 + + - +
41B SER* 3.7 6.3 - - - +
43B LEU* 1.3 74.7 - - - +
45B GLN* 1.3 65.2 + - - +
47B HIS* 3.3 10.2 + + - +
48B TRP* 3.2 60.7 + + + -
63B ASP* 5.4 0.2 + - - -
66B MET* 3.5 23.2 - - + +
1174B ZN 1.9 37.5 - - - -
70D ASP* 5.6 1.3 - - + -
73D LEU* 4.2 10.5 - - + -
74D ASP* 3.0 29.4 + - + -
94D PHE* 6.5 0.4 - - + -
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Residues in contact with GLN 45 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41B SER 2.9 13.1 + - - +
42B ILE* 3.2 18.0 - - - +
44B HIS* 1.3 76.5 - - - +
46B VAL* 1.3 60.1 + - + +
48B TRP* 3.2 2.7 + - - -
49B TYR* 2.9 43.1 + - + +
102B GLU* 5.9 0.2 - - - +
103B VAL* 2.7 40.3 + - - +
104B LEU 4.4 0.5 - - - +
105B GLY* 3.4 13.9 - - - +
106B ASP 5.3 0.2 - - - -
114B GLN* 5.6 1.9 - - - +
89D SER* 2.9 45.3 + - - +
90D THR* 3.9 1.2 - - - +
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Residues in contact with VAL 46 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42B ILE* 3.0 27.7 + - + +
43B LEU 3.5 7.6 - - - +
45B GLN* 1.3 74.4 - - + +
47B HIS* 1.3 66.3 + - - +
49B TYR 4.7 0.2 - - - +
50B MET* 3.1 50.5 + - + +
62B MET* 3.8 17.7 - - + -
114B GLN* 3.6 43.1 - - + +
115B LEU* 5.4 0.9 - - + -
117B ARG* 5.1 4.3 - - + -
118B VAL* 4.1 19.3 - - + -
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Residues in contact with HIS 47 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43B LEU 2.9 13.8 + - - +
44B HIS* 3.3 17.0 + + - +
46B VAL* 1.3 77.1 - - - +
48B TRP* 1.3 70.4 + + - +
50B MET* 4.3 3.5 - - - +
55B PHE* 4.3 7.1 - - - -
59B HIS* 2.8 70.1 + + - -
62B MET* 3.9 14.5 - - + +
63B ASP* 3.2 30.9 + - - -
66B MET* 3.9 7.6 - - + -
74D ASP* 3.5 8.3 - - - -
78D GLU* 3.0 8.2 + - - -
1174D ZN 2.1 37.8 - - - -
160F TRP* 4.9 0.2 - - - -
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Residues in contact with TRP 48 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44B HIS* 3.2 50.5 + + + +
45B GLN* 3.8 2.7 - - - +
47B HIS* 1.3 86.9 - + - +
49B TYR* 1.3 68.3 + - + +
50B MET 3.4 4.5 + - - +
55B PHE* 5.3 0.2 - - - -
59B HIS* 5.2 0.9 - - - -
107B TYR* 3.8 6.8 - - - -
33D VAL* 4.3 3.1 - - + -
73D LEU* 4.1 24.0 - - + -
74D ASP* 2.9 19.9 + - - -
77D SER* 3.1 34.8 + - - -
78D GLU* 3.6 27.4 + - + +
81D ILE* 3.5 30.9 - - + +
87D PRO* 4.0 9.0 - - + -
88D PHE 3.4 22.4 - - - -
89D SER* 4.1 16.8 - - - -
94D PHE* 4.7 6.7 - + - -
160F TRP* 4.6 6.6 + - - -
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Residues in contact with TYR 49 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45B GLN* 2.9 31.0 + - + +
48B TRP* 1.3 79.8 - - + +
50B MET* 1.3 65.0 + - - +
51B ARG 3.5 2.1 + - - -
105B GLY* 3.5 22.4 + - - -
106B ASP 3.5 23.6 - - - +
107B TYR* 3.4 64.9 - + - +
109B VAL 5.2 0.2 - - - +
114B GLN* 4.1 12.8 + - - +
86D ALA* 3.2 11.6 - - + +
87D PRO* 2.6 54.5 + - + -
89D SER* 3.7 15.3 - - - -
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Residues in contact with MET 50 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46B VAL* 3.1 42.1 + - + +
47B HIS* 4.3 3.1 - - - +
48B TRP 3.4 4.0 - - - +
49B TYR* 1.3 78.5 - - - +
51B ARG* 1.3 66.9 - - - +
55B PHE* 3.4 34.2 - - + -
58B TRP* 3.7 31.9 - - + +
59B HIS* 3.4 27.4 - - - +
62B MET* 4.1 6.7 - - + -
107B TYR* 5.3 0.3 - - - -
111B ILE* 3.6 26.9 - - + -
114B GLN* 4.3 13.7 - - + +
115B LEU* 5.1 3.8 - - + -
160F TRP* 5.4 0.7 + - - -
164F ALA* 3.9 2.8 - - - +
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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
------------------------------------------------------------
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