Contacts of the helix formed by residues 6 - 34 (chain C) in PDB entry 1EHK
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 LYS 6 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
321A GLU* 4.4 0.7 - - - +
332A LEU* 3.7 26.0 - - + +
2C GLU* 3.3 34.9 - - - +
4C LYS* 2.5 53.9 + - + +
5C PRO* 1.3 69.8 - - - +
7C GLY* 1.3 62.1 + - - +
9C LEU* 3.6 13.2 - - - +
10C ALA* 3.1 23.0 + - - +
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Residues in contact with GLY 7 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
321A GLU* 2.9 24.2 + - - -
332A LEU* 4.0 7.3 + - - +
335A TRP* 3.4 31.7 - - - -
5C PRO 2.8 2.0 + - - -
6C LYS* 1.3 74.6 - - - +
8C ALA* 1.3 61.6 + - - +
10C ALA* 3.4 6.0 + - - +
11C VAL* 3.3 22.9 + - - +
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Residues in contact with ALA 8 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
314A PHE* 3.7 22.2 - - + -
317A ALA* 3.9 14.1 - - + +
318A ALA* 3.6 35.2 - - + +
321A GLU* 2.9 6.3 + - - +
5C PRO* 2.6 14.8 + - + +
7C GLY* 1.3 70.0 - - - -
9C LEU* 1.3 64.9 + - - +
11C VAL* 3.0 5.0 + - - +
12C ILE* 3.0 25.5 + - - +
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Residues in contact with LEU 9 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
314A PHE* 3.9 14.8 - - + -
14B TYR* 3.4 43.3 - - + +
4C LYS* 3.9 24.2 - - + +
5C PRO* 2.8 14.1 + - + +
6C LYS* 3.6 17.9 - - + +
8C ALA* 1.3 76.0 - - - +
10C ALA* 1.3 62.2 + - - +
12C ILE* 3.4 18.4 - - + +
13C LEU* 3.1 23.6 + - - +
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Residues in contact with ALA 10 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
332A LEU* 5.0 2.7 - - + -
333A PHE* 3.6 36.8 - - + -
335A TRP* 6.1 0.2 - - + -
6C LYS 3.1 12.7 + - - +
7C GLY* 3.5 10.8 - - - +
8C ALA 3.1 0.2 - - - -
9C LEU* 1.3 73.3 - - - +
11C VAL* 1.3 67.9 + - + +
13C LEU* 2.9 18.6 + - - +
14C VAL* 2.9 20.3 + - + +
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Residues in contact with VAL 11 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
313A ALA* 4.4 4.9 - - + +
317A ALA* 3.8 26.0 - - + -
335A TRP* 4.4 4.9 - - + -
357A ILE* 4.8 8.4 - - + +
801A HAS 3.5 57.9 - - + -
7C GLY 3.3 12.8 + - - +
8C ALA 3.0 8.8 + - - +
10C ALA* 1.3 79.5 - - + +
12C ILE* 1.3 61.4 + - + +
13C LEU 3.1 0.2 + - - -
14C VAL* 3.3 8.4 + - - +
15C LEU* 3.0 26.3 + - + +
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Residues in contact with ILE 12 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
313A ALA* 4.3 9.4 - - + +
314A PHE* 3.9 35.9 - - + +
18B TRP* 3.6 61.3 - - + +
8C ALA 3.0 16.7 + - - +
9C LEU* 3.4 27.6 - - + +
11C VAL* 1.3 74.9 - - + +
13C LEU* 1.3 55.2 + - - +
15C LEU* 3.8 10.1 - - - +
16C THR* 2.7 33.3 + - - -
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Residues in contact with LEU 13 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9C LEU 3.1 13.6 + - - +
10C ALA* 2.9 15.1 + - - +
12C ILE* 1.3 77.3 - - - +
14C VAL* 1.3 74.1 + - + +
16C THR* 3.1 9.2 + - + -
17C LEU* 2.9 61.0 + - + +
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Residues in contact with VAL 14 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
333A PHE* 5.9 6.3 - - + -
357A ILE* 4.6 15.5 - - + -
10C ALA* 2.9 21.4 + - + +
11C VAL* 3.6 8.3 - - - +
13C LEU* 1.3 84.8 - - + +
15C LEU* 1.3 53.5 + - - +
17C LEU* 3.0 9.5 + - + +
18C THR* 2.8 46.8 + - - +
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Residues in contact with LEU 15 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
310A LEU* 4.0 19.5 - - + -
313A ALA* 3.6 30.5 - - + -
357A ILE* 3.7 36.7 - - + +
801A HAS 3.9 29.8 - - + -
18B TRP* 4.2 11.7 - - + -
11C VAL* 3.0 15.1 + - + +
12C ILE* 3.8 5.6 - - - +
14C VAL* 1.3 79.1 - - - +
16C THR* 1.3 64.2 + - - +
18C THR* 3.1 4.3 + - - -
19C ILE* 2.9 40.9 + - + +
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Residues in contact with THR 16 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18B TRP* 3.6 18.9 - - - -
21B PHE* 3.6 31.7 - - + -
25B MET* 4.2 11.6 - - - +
12C ILE 2.7 20.3 + - - -
13C LEU* 3.1 12.4 + - + -
15C LEU* 1.3 78.8 - - - +
17C LEU* 1.3 60.2 + - + +
19C ILE* 3.3 10.7 + - - +
20C LEU* 2.9 49.7 + - + +
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Residues in contact with LEU 17 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13C LEU* 2.9 50.3 + - + +
14C VAL* 3.5 8.7 - - + +
16C THR* 1.3 77.3 - - + +
18C THR* 1.3 60.1 + - - +
20C LEU* 3.2 19.6 + - + +
21C VAL* 2.8 38.9 + - + +
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Residues in contact with THR 18 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
357A ILE* 3.7 16.6 - - + +
358A PRO* 3.8 23.3 - - + -
361A ALA* 3.9 4.5 - - + -
14C VAL* 2.8 23.3 + - - +
15C LEU 3.5 7.6 - - - -
17C LEU* 1.3 76.8 - - - +
19C ILE* 1.3 64.0 + - - +
21C VAL* 3.9 4.9 - - - +
22C PHE* 3.2 48.6 + - + -
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Residues in contact with ILE 19 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
310A LEU* 3.9 22.4 - - + -
361A ALA* 3.6 19.2 - - + +
364A ILE* 3.4 35.9 - - + -
365A VAL* 5.4 0.5 - - - +
801A HAS 5.2 0.7 - - + -
18B TRP* 6.0 0.2 - - + -
25B MET* 4.2 17.9 - - + -
29B PHE* 3.6 30.5 - - + -
15C LEU* 2.9 32.0 + - + +
16C THR* 3.6 8.1 - - - +
18C THR* 1.3 75.3 - - - +
20C LEU* 1.3 59.9 + - - +
22C PHE* 3.9 1.2 - - - +
23C TRP* 2.9 33.8 + - + +
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Residues in contact with LEU 20 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21B PHE* 6.0 1.3 - - + -
25B MET* 4.1 21.3 - - + -
29B PHE* 4.2 16.2 - - + -
16C THR* 2.9 40.6 + - + +
17C LEU* 3.5 19.3 - - + +
19C ILE* 1.3 74.0 - - - +
21C VAL* 1.3 69.0 + - + +
23C TRP* 4.5 2.0 - - - -
24C LEU* 3.1 42.3 + - + +
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Residues in contact with VAL 21 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17C LEU* 2.8 29.9 + - + +
18C THR* 3.9 5.6 - - - +
20C LEU* 1.3 71.4 - - + +
22C PHE* 1.3 71.8 + - + +
24C LEU* 4.5 0.8 - - - +
25C GLY* 2.8 26.3 + - - -
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Residues in contact with PHE 22 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
358A PRO* 3.6 32.8 - - + -
361A ALA* 3.7 8.1 - - + -
362A GLY* 3.7 20.9 - - - -
365A VAL* 3.8 12.3 - - + -
380A TRP* 3.8 15.9 - + - -
440A HIS* 4.0 28.3 - + - -
18C THR* 3.2 42.0 + - + +
19C ILE 3.9 0.4 - - - +
21C VAL* 1.3 85.0 - - + +
23C TRP* 1.3 57.9 + - - +
25C GLY* 3.6 0.8 - - - -
26C VAL* 2.8 36.2 + - - +
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Residues in contact with TRP 23 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
364A ILE* 3.9 11.2 + - + -
365A VAL* 3.8 18.1 - - + +
368A SER* 2.8 28.7 + - - -
371A LEU* 3.8 11.1 - - + +
29B PHE* 3.7 65.2 - + + -
32B LEU* 3.5 42.6 - - + -
33B ILE* 4.0 10.3 - - + -
19C ILE* 2.9 20.5 + - + +
20C LEU 3.9 1.8 - - - +
22C PHE* 1.3 71.9 - - - +
24C LEU* 1.3 81.4 + - + +
25C GLY 3.0 1.1 - - - -
26C VAL* 3.0 5.2 + - - +
27C TYR* 2.8 48.2 + + + +
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Residues in contact with LEU 24 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29B PHE* 5.4 3.1 - - + -
32B LEU* 4.3 17.0 - - + -
20C LEU* 3.1 34.0 + - + +
21C VAL* 5.5 0.2 - - - -
23C TRP* 1.3 95.6 - - + +
25C GLY* 1.3 57.2 + - - +
27C TYR* 3.1 14.5 + - + +
28C ALA* 2.8 30.0 + - - +
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Residues in contact with GLY 25 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21C VAL* 2.8 20.2 + - - -
22C PHE* 3.6 1.1 - - - -
24C LEU* 1.3 77.9 - - - +
26C VAL* 1.3 60.5 + - - +
28C ALA* 3.0 18.0 + - - +
29C VAL* 3.1 16.9 + - - +
----------------------------------------------------------
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Residues in contact with VAL 26 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
365A VAL* 3.8 30.1 - - + -
371A LEU* 4.1 11.9 - - + +
374A VAL* 3.9 31.9 - - + -
375A VAL* 4.7 3.4 - - + -
380A TRP* 3.9 24.9 - - + -
444A LEU* 5.1 7.0 - - + -
22C PHE* 2.8 24.8 + - - +
23C TRP 3.8 2.2 - - - +
25C GLY* 1.3 69.2 - - - +
27C TYR* 1.3 55.6 + - - +
29C VAL* 3.1 7.5 + - - +
30C PHE* 2.7 32.4 + - - +
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Residues in contact with TYR 27 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
371A LEU* 3.9 17.8 - - + +
32B LEU* 2.7 58.1 + - + +
35B TYR* 3.2 23.0 - + - -
36B THR* 3.7 13.2 - - + -
23C TRP* 2.8 36.1 + + + +
24C LEU* 3.2 21.3 - - + +
26C VAL* 1.3 76.0 - - - +
28C ALA* 1.3 62.6 + - - +
30C PHE* 3.2 19.8 - + - +
31C PHE* 3.2 37.7 - + - -
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Residues in contact with ALA 28 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24C LEU 2.8 11.2 + - - +
25C GLY* 3.0 13.7 + - - +
27C TYR* 1.3 74.6 - - - +
29C VAL* 1.3 66.9 + - + +
30C PHE 3.0 1.7 + - - -
31C PHE* 3.1 6.4 + - - +
32C ALA* 2.9 23.9 + - - +
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Residues in contact with VAL 29 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
374A VAL* 3.7 14.1 - - + -
444A LEU* 5.0 10.1 - - + -
902A BNG 3.4 26.2 - - + +
25C GLY 3.1 12.9 + - - +
26C VAL* 3.5 12.3 - - - +
28C ALA* 1.3 77.3 - - + +
30C PHE* 1.3 62.7 + - - +
32C ALA* 3.2 8.1 + - - +
33C ARG* 3.0 58.1 + - - +
----------------------------------------------------------
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Residues in contact with PHE 30 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
370A THR* 3.6 46.7 - - + -
371A LEU* 4.7 6.5 - - + -
373A TYR* 5.1 0.2 - - + -
374A VAL* 3.8 13.9 - - + -
36B THR* 3.7 26.5 - - + -
41B THR* 4.1 30.5 - - + -
44B VAL* 4.9 5.4 - - + -
122B ASN* 2.9 52.8 - - + +
26C VAL 2.7 14.5 + - - +
27C TYR* 3.2 16.8 - + - +
29C VAL* 1.3 75.7 - - - +
31C PHE* 1.3 78.7 + + - +
33C ARG* 3.0 14.0 + - - -
34C GLY* 3.2 1.9 + - - -
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Residues in contact with PHE 31 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35B TYR* 3.4 39.3 - + - -
36B THR* 3.9 11.9 - - + -
39B THR* 5.2 5.8 - - + -
41B THR* 4.6 24.0 - - + -
27C TYR* 3.2 55.1 + + - -
28C ALA* 3.1 7.6 + - - +
30C PHE* 1.3 88.8 - + - +
32C ALA* 1.3 60.5 + - - +
33C ARG 3.1 1.2 + - - -
34C GLY* 3.3 15.0 + - - +
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Residues in contact with ALA 32 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
902A BNG 4.8 8.9 + - - +
120B GLY 4.7 1.9 - - - +
141B ARG* 4.0 19.6 + - - +
28C ALA 2.9 17.0 + - - +
29C VAL* 3.5 10.5 - - - +
30C PHE 3.1 0.2 - - - -
31C PHE* 1.3 77.5 - - - +
33C ARG* 1.3 59.4 + - - +
34C GLY 3.5 1.0 - - - +
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Residues in contact with ARG 33 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
374A VAL* 3.1 35.4 + - - +
444A LEU* 2.7 34.2 + - - +
446A ASN* 3.1 21.3 + - - +
902A BNG 2.9 49.1 + - - +
117B HIS* 4.6 3.4 + - - -
120B GLY 3.6 11.0 - - - +
121B THR* 3.4 19.7 + - - -
122B ASN* 3.0 35.7 + - - +
137B TYR* 2.8 19.0 + - - -
29C VAL* 3.0 27.3 + - - +
30C PHE 3.0 2.7 + - - -
32C ALA* 1.3 78.1 - - - +
34C GLY* 1.3 60.0 + - - +
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Residues in contact with GLY 34 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40B HIS* 4.7 14.1 + - - -
41B THR* 4.8 15.6 - - - +
122B ASN* 3.8 10.5 - - - -
137B TYR* 3.5 24.2 + - - -
138B THR 4.8 5.2 - - - +
140B LYS* 5.3 11.2 - - - +
141B ARG* 5.2 7.6 + - - -
30C PHE 3.2 6.4 + - - -
31C PHE* 3.3 13.2 + - - +
32C ALA 4.7 1.9 - - - +
33C ARG* 1.3 84.3 + - - +
----------------------------------------------------------
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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
------------------------------------------------------------
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