Contacts of the helix formed by residues 1 - 38 (chain K) in PDB entry 1C17
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 MET 1 (chain K).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2K GLU* 1.3 76.0 + - - +
3K ASN* 2.7 11.9 + - - +
4K LEU* 3.0 7.5 + - - +
5K ASN* 2.6 38.3 + - - +
2L GLU* 3.9 17.0 - - + -
3L ASN* 3.8 34.0 - - + +
6L MET* 3.2 39.0 - - + +
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Residues in contact with GLU 2 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1J MET* 3.6 31.0 - - + -
1K MET* 1.3 99.3 + - - +
3K ASN* 1.3 91.1 + - - +
5K ASN* 3.4 10.0 - - - +
6K MET* 3.3 32.3 + - + +
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Residues in contact with ASN 3 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1J MET* 3.0 39.6 + - - +
4J LEU* 5.0 12.0 - - + +
1K MET 2.7 8.7 + - - +
2K GLU* 1.3 93.1 + - - +
4K LEU* 1.3 75.9 + - + +
5K ASN 3.0 4.5 + - - -
6K MET* 3.4 5.3 - - - +
7K ASP* 3.1 23.2 + - - +
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Residues in contact with LEU 4 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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4J LEU* 6.3 2.0 - - + -
1K MET 3.0 7.5 + - - +
3K ASN* 1.3 87.2 - - + +
5K ASN* 1.3 53.4 + - - +
7K ASP* 3.7 17.9 - - + +
8K LEU* 2.7 38.9 + - - +
3L ASN* 4.3 30.3 - - + +
4L LEU* 4.8 13.0 - - + -
6L MET* 5.5 0.2 - - - -
7L ASP* 3.9 26.2 - - + +
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Residues in contact with ASN 5 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1K MET 2.6 21.7 + - - +
2K GLU* 3.4 13.6 - - - +
3K ASN 3.0 1.2 - - - -
4K LEU* 1.3 68.8 - - - +
6K MET* 1.3 56.5 + - - +
7K ASP 2.9 3.3 + - - -
8K LEU* 3.0 2.3 + - - +
9K LEU* 2.7 48.5 + - - +
76K PHE* 5.8 0.9 - - - -
6L MET* 3.5 17.9 - - - -
10L TYR* 3.2 38.0 + - - -
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Residues in contact with MET 6 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1J MET* 3.4 54.3 - - + +
4J LEU* 5.7 1.1 - - + -
5J ASN* 3.7 26.3 - - + +
8J LEU* 4.8 1.0 - - - +
2K GLU* 3.3 20.6 - - + +
3K ASN* 3.4 6.1 - - - +
5K ASN* 1.3 79.6 + - - +
7K ASP* 1.3 64.2 + - + +
9K LEU* 4.0 5.2 - - - -
10K TYR* 3.0 31.6 + - + +
76K PHE* 3.1 45.1 - - + -
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Residues in contact with ASP 7 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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4J LEU* 3.8 35.0 - - + +
7J ASP* 5.5 0.7 - - - +
8J LEU* 3.5 29.9 - - - +
3K ASN 3.1 18.1 + - - +
4K LEU* 3.7 20.3 - - + +
5K ASN 2.9 0.2 - - - -
6K MET* 1.3 77.9 - - - +
8K LEU* 1.3 62.0 + - - +
11K MET* 3.1 37.1 + - - +
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Residues in contact with LEU 8 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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4K LEU 2.7 22.6 + - - +
5K ASN 3.8 1.6 - - - +
7K ASP* 1.3 72.1 + - - +
9K LEU* 1.3 55.5 - - - +
11K MET* 3.1 33.6 - - + +
12K ALA* 2.7 38.4 + - + +
7L ASP* 3.1 45.8 - - + +
10L TYR* 3.8 13.2 - - + -
11L MET* 3.5 42.2 - - + +
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Residues in contact with LEU 9 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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5K ASN* 2.7 35.8 + - - +
6K MET* 4.1 3.1 - - - -
8K LEU* 1.3 73.4 - - - +
10K TYR* 1.3 67.1 + - + +
12K ALA* 2.7 30.1 + - - +
13K ALA* 3.2 4.0 + - + +
16K MET* 4.9 0.3 - - - +
72K LEU* 2.9 44.5 - - + +
73K TYR* 3.5 13.2 - - + -
75K MET* 4.6 5.2 - - + -
76K PHE* 3.4 31.9 - - + +
10L TYR* 5.0 8.2 - - + -
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Residues in contact with TYR 10 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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5J ASN* 4.8 12.8 + - - -
8J LEU* 3.2 24.9 - - + -
9J LEU* 4.6 25.1 - - + +
12J ALA* 5.5 4.2 - - + +
75J MET* 4.9 4.7 - - - +
6K MET* 3.0 27.1 + - + +
9K LEU* 1.3 83.0 - - + +
11K MET* 1.3 59.8 + - - +
12K ALA 2.8 9.5 + - - -
13K ALA* 2.9 15.6 + - - +
14K ALA* 3.2 10.7 + - - +
73K TYR* 2.9 54.3 + + - -
76K PHE* 2.9 57.6 - + + -
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Residues in contact with MET 11 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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8J LEU* 3.4 23.4 - - + +
11J MET* 5.4 5.6 - - + -
7K ASP* 3.1 26.4 + - - +
8K LEU* 3.1 41.7 - - + +
10K TYR* 1.3 79.1 - - - +
12K ALA* 1.3 55.0 + - - +
14K ALA* 3.8 5.6 - - + -
15K VAL* 2.7 55.1 + - + +
11L MET* 4.3 19.3 - - + -
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Residues in contact with ALA 12 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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8K LEU* 2.7 23.0 + - + +
9K LEU* 2.7 20.3 + - - +
11K MET* 1.3 75.6 - - - +
13K ALA* 1.3 48.3 + - - +
14K ALA 3.0 4.0 - - - -
15K VAL* 4.4 3.1 - - - -
16K MET* 2.4 65.3 + - + +
72K LEU* 4.6 5.8 - - + -
10L TYR* 5.8 3.8 - - + +
14L ALA* 4.7 7.9 - - + -
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Residues in contact with ALA 13 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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16J MET* 5.2 0.9 - - - -
72J LEU* 6.2 0.4 - - + -
9K LEU 3.2 4.1 + - - +
10K TYR 2.9 8.1 + - - +
12K ALA* 1.3 78.9 - - - +
14K ALA* 1.3 54.4 + - - +
16K MET* 3.3 10.2 - - + +
17K MET* 2.7 47.8 + - + +
69K GLY* 3.1 35.7 - - - +
73K TYR* 4.4 16.4 - - + +
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Residues in contact with ALA 14 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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8J LEU* 5.4 0.7 - - + -
12J ALA* 4.5 14.8 - - + -
15J VAL* 4.3 20.2 - - + +
16J MET* 3.8 26.2 - - + +
19J LEU* 4.4 5.2 - - - +
10K TYR 3.2 11.3 + - - +
11K MET* 4.0 7.6 - - - +
12K ALA 3.0 0.6 - - - -
13K ALA* 1.3 75.8 - - - +
15K VAL* 1.3 63.8 + - + +
16K MET 3.3 0.2 - - - -
18K GLY* 3.0 27.1 + - - +
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Residues in contact with VAL 15 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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15J VAL* 5.8 4.9 - - + -
19J LEU* 5.8 1.3 - - - -
11K MET* 2.7 47.0 + - + +
12K ALA* 3.8 3.4 - - - +
14K ALA* 1.3 76.8 - - + +
16K MET* 1.3 54.5 + - - +
19K LEU* 2.6 49.2 + - + +
11L MET* 5.5 10.5 - - + -
14L ALA* 5.2 9.0 - - + -
15L VAL* 5.2 15.5 - - + -
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Residues in contact with MET 16 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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12K ALA* 2.4 54.9 + - + +
13K ALA* 3.3 10.3 - - - +
15K VAL* 1.3 67.1 - - - +
17K MET* 1.3 54.6 + - + +
19K LEU* 3.2 2.3 + - - +
20K ALA 2.7 32.1 + - - -
65K MET* 2.7 42.8 - - + +
68K VAL* 4.4 2.9 - - - -
69K GLY* 3.8 11.4 - - - -
72K LEU* 3.0 37.7 - - + -
13L ALA* 5.6 0.9 - - - -
14L ALA* 3.1 41.3 - - + +
18L GLY* 5.8 1.0 - - - -
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Residues in contact with MET 17 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16J MET* 3.5 31.0 - - + -
65J MET* 4.2 14.8 - - + -
68J VAL* 4.8 7.2 - - + -
72J LEU* 5.4 1.6 - - + -
13K ALA* 2.7 48.9 + - + +
16K MET* 1.3 72.3 - - - +
18K GLY* 1.3 59.9 + - - +
21K ALA* 2.5 39.4 + - + +
65K MET* 3.3 26.7 - - - +
66K ILE* 3.5 44.4 - - + +
69K GLY* 3.9 9.6 - - - -
70K LEU* 4.3 5.2 - - - -
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Residues in contact with GLY 18 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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15J VAL 5.5 0.4 - - - -
16J MET* 5.4 0.9 - - - -
19J LEU* 3.3 29.3 - - - +
20J ALA* 5.5 1.6 - - - -
65J MET* 5.3 9.9 - - - -
14K ALA* 3.0 14.5 + - - +
17K MET* 1.3 77.9 - - - +
19K LEU* 1.3 49.7 + - - +
21K ALA* 4.6 2.2 - - - -
22K ILE* 2.6 44.0 + - - +
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Residues in contact with LEU 19 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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19J LEU* 4.0 3.3 - - + +
15K VAL* 2.6 32.7 + - + +
16K MET* 3.7 2.5 - - - +
17K MET 3.1 0.6 - - - -
18K GLY* 1.3 78.1 - - - +
20K ALA* 1.3 58.8 + - - +
22K ILE* 3.0 35.6 - - + +
23K GLY 3.2 2.3 + - - -
14L ALA 5.1 4.7 - - - +
15L VAL* 5.4 6.3 - - + +
18L GLY* 4.6 26.0 - - - +
19L LEU* 4.8 6.1 - - + +
22L ILE* 3.8 10.3 - - + +
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Residues in contact with ALA 20 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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16K MET 2.7 10.8 + - - +
19K LEU* 1.3 71.9 - - - +
21K ALA* 1.3 58.7 + - - +
22K ILE 3.2 0.2 - - - -
23K GLY* 3.1 0.7 + - - -
24K ALA* 2.8 26.2 + - - +
61K ASP* 3.4 16.4 - - - +
62K ALA* 4.4 2.0 - - - -
65K MET* 3.0 43.7 - - + -
18L GLY* 5.3 0.7 - - - -
21L ALA* 6.3 0.2 - - + -
22L ILE* 3.6 21.3 - - + -
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Residues in contact with ALA 21 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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20J ALA* 5.1 13.9 - - + -
61J ASP* 5.2 6.4 - - - +
65J MET* 5.9 2.0 - - - -
17K MET* 2.5 30.1 + - + +
18K GLY* 4.5 2.7 - - - +
20K ALA* 1.3 74.7 - - - +
22K ILE* 1.3 54.2 + - - +
24K ALA* 3.0 4.0 + - - +
25K ALA* 2.8 29.6 + - - +
62K ALA* 3.3 27.3 - - + +
66K ILE* 4.7 10.3 - - + -
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Residues in contact with ILE 22 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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19J LEU* 3.2 44.2 - - + +
20J ALA* 4.6 4.3 - - - -
22J ILE* 4.6 4.9 - - + -
23J GLY* 4.8 4.9 - - - -
18K GLY* 2.6 28.9 + - - +
19K LEU* 3.0 32.1 - - + +
21K ALA* 1.3 72.5 - - - +
23K GLY* 1.3 87.8 + - - +
25K ALA* 3.7 6.9 - - - +
26K ILE* 2.9 37.7 + - + +
22L ILE* 5.4 2.5 - - + -
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Residues in contact with GLY 23 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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19K LEU 3.2 4.2 + - - -
20K ALA 3.1 7.4 + - - -
22K ILE* 1.3 94.9 - - - +
24K ALA* 1.3 59.8 + - - +
26K ILE* 4.2 4.2 - - - +
27K GLY* 3.2 18.4 + - - -
61K ASP* 3.8 5.9 - - - +
22L ILE* 4.3 16.8 - - - -
25L ALA* 5.7 3.6 - - - +
26L ILE* 5.5 8.3 - - - +
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Residues in contact with ALA 24 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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20K ALA 2.8 8.9 + - - +
21K ALA 3.0 9.8 + - - +
23K GLY* 1.3 76.0 - - - +
25K ALA* 1.3 66.7 + - - +
27K GLY* 3.1 3.2 + - - -
28K ILE* 2.9 26.5 + - + +
58K GLY* 3.0 25.1 - - - +
61K ASP* 3.4 10.7 + - + -
62K ALA* 3.3 29.6 - - + +
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Residues in contact with ALA 25 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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23J GLY* 3.6 26.7 - - - +
24J ALA* 5.3 0.2 - - - -
27J GLY* 5.2 7.0 - - - -
61J ASP* 3.7 23.1 + - - +
21K ALA 2.8 17.0 + - - +
22K ILE* 3.2 6.9 + - - +
24K ALA* 1.3 73.9 - - - +
26K ILE* 1.3 65.8 + - + +
28K ILE* 3.2 14.2 + - - +
29K GLY* 3.0 17.2 + - - -
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Residues in contact with ILE 26 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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23J GLY* 5.2 9.2 - - - +
26J ILE* 4.5 24.0 - - + -
27J GLY* 5.7 2.2 - - - +
30J ILE* 5.5 2.4 - - + +
22K ILE* 2.9 30.5 + - + +
23K GLY* 4.2 5.2 - - - +
25K ALA* 1.3 75.0 - - + +
27K GLY* 1.3 52.0 + - - +
29K GLY* 2.6 8.4 + - - -
30K ILE* 2.5 57.7 + - + +
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Residues in contact with GLY 27 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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23K GLY 3.2 11.0 + - - -
24K ALA 3.1 6.3 + - - -
26K ILE* 1.3 77.7 - - - +
28K ILE* 1.3 54.4 + - - +
30K ILE* 2.7 14.1 + - - -
31K LEU* 2.5 40.8 + - - +
58K GLY* 5.2 2.9 - - - -
26L ILE* 6.5 1.1 - - - -
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Residues in contact with ILE 28 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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31J LEU* 3.7 24.6 - - + +
57J MET* 4.2 11.4 - - + -
61J ASP* 6.0 1.6 - - - +
24K ALA* 2.9 13.8 + - + +
25K ALA* 3.4 11.7 - - - +
27K GLY* 1.3 73.6 - - - +
29K GLY* 1.3 56.4 + - - +
31K LEU* 5.1 0.7 - - - -
32K GLY* 3.0 26.7 + - - +
55K ILE* 3.2 31.9 - - + +
58K GLY* 3.0 28.8 - - - +
59K LEU* 2.9 38.1 - - + +
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Residues in contact with GLY 29 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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27J GLY* 5.4 3.8 - - - -
30J ILE* 3.7 29.5 - - - +
31J LEU* 4.0 17.7 + - - +
34J LYS* 5.2 1.0 - - - +
25K ALA 3.0 8.4 + - - -
26K ILE* 2.6 15.5 + - - -
28K ILE* 1.3 72.7 - - - +
30K ILE* 1.3 58.7 + - - +
33K GLY* 3.2 21.3 + - - -
34K LYS* 5.2 1.6 + - - -
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Residues in contact with ILE 30 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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30J ILE* 5.0 9.6 - - + -
26K ILE* 2.5 41.7 + - + +
27K GLY* 2.7 10.6 + - - +
29K GLY* 1.3 71.9 - - - +
31K LEU* 1.3 61.4 + - - +
34K LYS* 2.8 62.6 + - + +
29L GLY 6.2 3.6 - - - -
30L ILE* 5.2 14.1 - - + -
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Residues in contact with LEU 31 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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27K GLY* 2.5 20.5 + - - +
28K ILE* 5.1 1.1 - - - -
30K ILE* 1.3 77.0 - - + +
32K GLY* 1.3 56.2 + - - +
34K LYS* 4.7 2.5 - - + -
35K PHE* 2.8 41.8 + - + +
54K PHE* 3.0 69.5 - - + +
57K MET* 5.0 9.9 - - + -
58K GLY* 6.1 0.9 - - - +
28L ILE* 5.1 2.9 - - + -
29L GLY* 3.8 37.2 - - - +
33L GLY* 5.6 5.2 - - - -
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Residues in contact with GLY 32 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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31J LEU* 4.7 6.8 - - - +
35J PHE* 5.9 0.2 - - - -
54J PHE* 5.3 1.8 - - - -
28K ILE* 3.0 23.0 + - - +
31K LEU* 1.3 79.8 - - - +
33K GLY* 1.3 61.4 + - - +
35K PHE* 3.9 3.5 - - - +
36K LEU* 3.3 22.0 + - - +
51K THR* 4.9 5.6 - - - +
54K PHE* 5.2 0.4 - - - -
55K ILE* 3.4 26.0 - - - +
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Residues in contact with GLY 33 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31J LEU* 4.6 7.1 - - - +
34J LYS* 4.2 25.7 - - - +
35J PHE* 5.2 1.3 - - - -
28K ILE 4.1 0.6 + - - -
29K GLY 3.2 18.0 + - - -
32K GLY* 1.3 73.4 - - - +
34K LYS* 1.3 65.2 + - - +
36K LEU* 3.2 15.6 + - - +
37K GLU* 3.2 21.4 + - - +
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Residues in contact with LYS 34 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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30J ILE* 5.9 1.8 - - - +
34J LYS* 4.8 20.4 - - - +
29K GLY 5.2 1.6 + - - -
30K ILE* 2.8 56.4 + - + +
31K LEU* 4.3 2.9 - - + +
33K GLY* 1.3 71.6 - - - -
35K PHE* 1.3 63.5 + - - +
37K GLU* 3.2 32.6 + - - +
38K GLY* 3.3 9.0 + - - -
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Residues in contact with PHE 35 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31K LEU* 2.8 25.6 + - + +
32K GLY* 3.9 2.9 - - - +
34K LYS* 1.3 77.9 - - - +
36K LEU* 1.3 63.4 + - - +
38K GLY* 2.9 16.7 + - - -
39K ALA* 3.4 15.9 + - + +
47K PRO* 3.6 10.5 - - + -
50K ARG* 3.3 27.4 - - + -
51K THR* 3.0 53.4 - - + -
54K PHE* 3.3 31.4 - + + -
33L GLY* 6.4 1.8 - - - -
36L LEU* 3.4 26.0 - - + -
37L GLU* 5.9 0.9 - - - -
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Residues in contact with LEU 36 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34J LYS 4.5 1.8 - - - +
35J PHE* 3.1 64.2 - - + +
38J GLY* 3.8 15.3 - - - +
39J ALA* 5.8 0.2 - - + -
32K GLY 3.3 11.7 + - - +
33K GLY* 3.2 10.0 + - - +
35K PHE* 1.3 82.2 - - - +
37K GLU* 1.3 58.5 + - + +
39K ALA* 2.9 6.1 + - - +
40K ALA* 2.6 57.1 + - + +
47K PRO* 6.5 0.2 - - + -
51K THR* 5.1 13.9 - - + +
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Residues in contact with GLU 37 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34J LYS* 5.0 17.2 - - + +
37J GLU* 4.8 12.5 - - + +
38J GLY* 5.7 6.5 - - - -
33K GLY 3.3 13.5 - - - +
34K LYS* 3.2 38.5 + - - +
36K LEU* 1.3 76.8 - - + +
38K GLY* 1.3 56.8 + - - +
39K ALA 3.2 3.0 + - - -
40K ALA* 4.3 8.7 + - - +
41K ARG* 5.0 8.7 + - - -
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Residues in contact with GLY 38 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34K LYS 3.3 5.3 + - - -
35K PHE* 2.9 11.8 + - - -
37K GLU* 1.3 77.6 - - - +
39K ALA* 1.3 63.3 + - - +
42K GLN* 4.6 2.9 - - - +
36L LEU* 6.0 0.9 - - - +
37L GLU* 4.1 28.3 - - - +
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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) + - + + + + + -
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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