Contacts of the helix formed by residues 39 - 67 (chain K) in PDB entry 1QGH
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 PHE 39 (chain K).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
144A TRP* 4.0 16.4 - + - -
145A MET* 3.6 51.4 - - + -
148A ALA* 3.8 13.9 - - + -
149A PHE* 4.0 12.6 - - + +
31K HIS 4.5 0.9 - - - -
32K TRP 5.3 0.2 - - - -
34K MET* 3.4 42.8 - - + +
36K GLY 2.8 19.6 + - - +
37K HIS 3.2 1.6 - - - -
38K ASN* 1.3 77.2 - - - +
40K PHE* 1.3 74.4 + + + +
43K HIS* 2.7 63.5 + + + +
95K MET* 4.2 9.9 - - - +
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Residues in contact with PHE 40 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41A THR* 4.0 14.6 - - - +
42A LEU* 3.9 21.3 - - + -
45A LYS* 3.5 37.0 - - + -
145A MET* 3.8 32.3 - - + -
146A PHE* 3.5 38.1 - + - -
149A PHE* 3.7 29.6 - + + -
37K HIS 4.9 1.9 + - - +
38K ASN 3.4 0.6 - - - -
39K PHE* 1.3 88.8 - + - +
41K THR* 1.3 65.6 + - + +
43K HIS* 3.7 2.9 - + - +
44K GLU* 3.3 37.4 + - - +
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Residues in contact with THR 41 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38A ASN* 6.4 0.2 - - - +
41A THR* 4.8 17.0 + - + +
37H HIS 5.6 2.0 - - - +
40H PHE* 3.9 23.4 - - - +
41H THR* 4.6 21.9 + - + -
37K HIS 5.0 1.1 - - - +
38K ASN* 3.3 33.2 - - + +
40K PHE* 1.3 80.0 - - + +
42K LEU* 1.3 60.4 + - + +
44K GLU* 3.4 7.4 + - - +
45K LYS* 3.0 25.8 + - - +
149K PHE* 6.4 0.2 - - + -
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Residues in contact with LEU 42 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40H PHE* 3.7 35.4 - - + -
34K MET* 3.6 18.8 - - + -
38K ASN* 2.9 25.1 + - + +
41K THR* 1.3 80.7 - - + +
43K HIS* 1.3 67.1 + - - +
45K LYS* 3.5 8.5 - - + +
46K MET* 2.8 29.7 + - + +
95K MET* 3.3 25.1 - - - -
99K MET* 4.1 14.1 - - + -
146K PHE* 4.6 3.4 - - + -
149K PHE* 3.5 29.8 - - + -
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Residues in contact with HIS 43 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
141A LYS* 5.5 2.0 + - - -
144A TRP* 3.7 20.5 - + - -
145A MET* 4.8 8.7 - - - -
157E FE 4.1 1.4 - - - -
62I GLU* 3.6 13.7 + - - -
31K HIS* 2.9 81.1 + + - -
34K MET* 3.3 11.5 - - - -
39K PHE* 2.7 47.2 + + + +
40K PHE* 3.7 4.5 - + - +
42K LEU* 1.3 75.6 - - - +
44K GLU* 1.3 69.4 + - + +
46K MET 3.4 0.2 + - - -
47K ASP* 3.4 8.5 + - - -
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Residues in contact with GLU 44 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45A LYS* 5.4 7.4 - - - +
40K PHE* 3.3 31.7 + - - +
41K THR* 4.0 5.6 - - - +
42K LEU 3.2 0.2 - - - -
43K HIS* 1.3 84.2 - - + +
45K LYS* 1.3 67.1 + - - +
47K ASP* 3.0 20.0 + - + +
48K ASP* 3.1 19.5 + - - +
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Residues in contact with LYS 45 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40H PHE* 3.4 40.8 - - + -
44H GLU* 5.2 7.6 - - - +
41K THR 3.0 14.1 + - - +
42K LEU* 3.0 14.9 + - + +
44K GLU* 1.3 75.2 - - - +
46K MET* 1.3 70.3 + - + +
48K ASP* 3.0 24.2 + - - +
49K LEU* 3.0 24.2 + - + +
142K HIS* 4.4 13.4 + - - -
145K MET* 4.0 17.8 - - - +
146K PHE* 3.8 23.5 - - + -
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Residues in contact with MET 46 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27K ILE* 3.4 20.3 - - + +
30K ILE* 4.1 21.8 - - + -
31K HIS* 3.8 20.9 - - + +
34K MET* 3.8 18.6 - - + -
42K LEU* 2.8 20.0 + - + +
43K HIS 3.7 5.4 - - - +
45K LYS* 1.3 84.8 - - + +
47K ASP* 1.3 51.5 + - - +
49K LEU* 3.0 17.6 + - + -
50K TYR* 2.7 33.1 + - - +
99K MET* 4.5 5.8 - - + -
102K LEU* 4.1 12.1 - - + -
146K PHE* 3.5 37.9 - - + -
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Residues in contact with ASP 47 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
157E FE 3.7 8.6 - - - -
58I ASP* 4.6 1.4 - - - +
28K HIS* 4.8 8.7 - - - -
31K HIS* 3.3 33.6 + - - -
43K HIS* 3.4 5.7 + - - +
44K GLU* 3.0 15.6 + - - +
46K MET* 1.3 76.5 - - - +
48K ASP* 1.3 68.7 + - - +
50K TYR* 3.3 6.6 + - - +
51K SER* 3.1 26.3 + - - -
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Residues in contact with ASP 48 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44K GLU* 3.1 15.2 + - - +
45K LYS* 3.0 28.3 + - - +
47K ASP* 1.3 79.8 - - - +
49K LEU* 1.3 62.9 + - + +
51K SER* 3.3 5.1 + - - -
52K GLU* 2.9 30.6 + - - +
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Residues in contact with LEU 49 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23K PHE* 5.2 0.2 - - + -
27K ILE* 4.0 14.8 - - + +
45K LYS* 3.0 17.8 + - - +
46K MET* 3.0 35.5 + - + +
48K ASP* 1.3 74.7 - - + +
50K TYR* 1.3 67.6 + - - +
52K GLU* 4.5 2.7 - - - +
53K PHE* 2.8 47.0 + - + +
102K LEU* 3.9 27.6 - - + -
106K LEU* 5.6 2.2 - - + -
142K HIS* 3.7 34.3 - - + +
146K PHE* 4.0 11.0 - - + -
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Residues in contact with TYR 50 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21I ASN* 5.4 1.0 + - - -
50I TYR* 4.7 16.9 + + - -
54I GLY* 5.8 3.4 - - - -
57I MET* 4.3 8.0 - - - +
24K THR* 3.4 47.5 + - + +
25K VAL* 5.2 0.6 - - + +
27K ILE* 3.8 13.0 - - + +
28K HIS* 3.0 52.2 + + + +
46K MET 2.7 15.7 + - - +
47K ASP* 3.5 11.0 - - - +
49K LEU* 1.3 78.4 - - - +
51K SER* 1.3 69.5 + - - +
54K GLY* 2.9 23.6 + - - -
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Residues in contact with SER 51 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47K ASP 3.1 14.4 + - - -
48K ASP* 3.9 4.5 - - - -
50K TYR* 1.3 85.2 - - - +
52K GLU* 1.3 65.4 + - - +
54K GLY* 3.2 2.1 + - - -
55K GLU* 2.9 31.3 + - - +
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Residues in contact with GLU 52 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48K ASP 2.9 17.8 + - - +
49K LEU* 3.8 4.7 - - - +
51K SER* 1.3 79.7 - - - +
53K PHE* 1.3 77.3 + - + +
55K GLU* 2.8 20.6 + - - +
56K GLN* 2.9 22.6 + - + +
138K SER* 2.6 27.4 + - - -
142K HIS* 2.8 29.8 + - - -
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Residues in contact with PHE 53 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20K LEU* 4.2 15.0 - - + +
23K PHE* 3.8 35.9 - + + -
24K THR* 4.7 8.1 - - - +
27K ILE* 4.4 5.8 - - + -
49K LEU* 2.8 45.9 + - + +
50K TYR 4.6 0.4 - - - +
52K GLU* 1.3 79.3 - - + +
54K GLY* 1.3 53.7 + - - +
56K GLN* 2.9 37.4 + - - +
57K MET* 2.8 35.8 + - - +
106K LEU* 3.8 20.9 - - + -
109K LEU* 4.6 3.1 - - + -
139K ILE* 4.0 17.7 - - + -
142K HIS* 4.0 23.6 - + - -
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Residues in contact with GLY 54 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28I HIS* 5.3 1.6 + - - -
50I TYR* 5.8 4.3 - - - -
24K THR* 4.3 9.1 + - - -
50K TYR* 2.9 22.2 + - - -
51K SER* 3.6 2.0 - - - -
53K PHE* 1.3 76.2 - - - +
55K GLU* 1.3 62.3 + - - +
57K MET* 3.4 15.1 + - - +
58K ASP* 3.1 22.0 + - - +
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Residues in contact with GLU 55 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51K SER* 2.9 19.0 + - - +
52K GLU* 2.8 13.0 + - - +
54K GLY* 1.3 78.4 - - - +
56K GLN* 1.3 65.9 + - - +
58K ASP* 3.3 5.0 + - - +
59K GLU* 3.0 38.8 + - + +
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Residues in contact with GLN 56 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20K LEU* 4.1 7.8 - - + +
52K GLU* 2.9 30.1 + - + +
53K PHE* 2.9 39.5 + - + +
55K GLU* 1.3 75.5 - - - +
57K MET* 1.3 56.5 - - - +
59K GLU* 3.2 2.2 + - - +
60K VAL* 2.7 34.7 + - - +
113K TYR* 2.9 27.0 + - - -
135K PHE* 3.4 63.4 + - + +
138K SER* 4.7 1.4 - - - -
139K ILE* 4.5 0.8 - - - +
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Residues in contact with MET 57 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28I HIS* 3.5 32.1 - - + +
32I TRP* 3.8 20.9 - - + -
50I TYR* 4.2 7.9 - - - +
17K VAL* 4.2 8.8 - - - +
20K LEU* 3.6 30.3 - - + +
21K ASN* 3.4 41.7 - - - +
24K THR* 5.9 4.7 - - + -
53K PHE 2.8 16.3 + - - +
54K GLY* 3.5 10.8 - - - +
55K GLU 3.0 0.2 - - - -
56K GLN* 1.3 79.1 - - - +
58K ASP* 1.3 66.1 + - - +
60K VAL* 3.1 2.6 + - - +
61K ALA* 3.0 22.5 + - - +
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Residues in contact with ASP 58 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28I HIS* 3.6 20.7 - - + -
31I HIS* 3.7 1.7 - - - -
32I TRP* 2.7 32.2 + - - -
47I ASP* 4.5 2.0 - - - +
157I FE 1.7 33.6 - - - -
54K GLY 3.1 13.1 + - - +
55K GLU* 4.0 5.6 - - - +
57K MET* 1.3 83.4 - - - +
59K GLU* 1.3 57.6 + - + +
61K ALA* 3.4 1.2 + - - +
62K GLU* 2.7 42.9 + - - +
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Residues in contact with GLU 59 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55K GLU* 3.0 32.2 + - + +
56K GLN 3.6 3.4 - - - +
58K ASP* 1.3 75.7 - - + +
60K VAL* 1.3 67.2 + - - +
62K GLU* 3.8 5.9 - - - +
63K ARG* 2.9 24.4 + - - +
131K MET* 4.1 11.1 - - - +
135K PHE* 3.7 28.5 - - + -
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Residues in contact with VAL 60 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13K LEU* 3.5 40.5 - - + +
16K GLN* 4.4 6.5 - - + -
17K VAL* 3.8 14.8 - - + +
20K LEU* 4.1 13.5 - - + -
56K GLN 2.7 24.9 + - - +
57K MET* 3.7 4.9 - - - +
59K GLU* 1.3 71.0 - - - +
61K ALA* 1.3 59.6 + - - +
63K ARG* 3.0 4.5 + - - +
64K LEU* 2.8 27.7 + - - +
113K TYR* 4.9 1.3 - - - +
131K MET* 4.1 13.7 - - + -
132K LEU* 5.2 3.8 - - + -
135K PHE* 3.4 25.1 - - + -
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Residues in contact with ALA 61 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32I TRP* 3.5 43.3 - - + -
17K VAL* 3.9 17.9 - - + -
57K MET 3.0 12.9 + - - +
58K ASP 3.6 0.9 - - - +
60K VAL* 1.3 78.4 - - - +
62K GLU* 1.3 57.9 + - - +
64K LEU* 3.1 8.2 + - - +
65K LEU* 3.0 30.1 + - - +
71K PRO* 4.2 8.1 - - + +
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Residues in contact with GLU 62 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
141D LYS* 2.9 34.0 + - + +
144D TRP* 3.7 31.1 - - + -
31I HIS* 3.0 13.5 + - - -
32I TRP* 3.9 13.2 - - + -
43I HIS* 3.7 4.7 + - - -
157I FE 1.9 32.0 - - - -
58K ASP* 2.7 27.6 + - - +
59K GLU* 4.3 5.2 - - - +
60K VAL 3.2 0.2 - - - -
61K ALA* 1.3 75.2 - - - +
63K ARG* 1.3 59.8 + - - +
65K LEU* 3.3 8.1 - - + +
66K ALA* 2.9 28.1 + - - +
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Residues in contact with ARG 63 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136D LYS* 4.4 4.9 - - - +
137D ALA 4.9 1.0 + - - -
140D ASP* 2.8 39.8 + - - +
13K LEU* 4.2 6.5 - - + -
59K GLU 2.9 19.4 + - - +
60K VAL 3.4 4.3 - - - +
62K GLU* 1.3 72.6 - - - +
64K LEU* 1.3 68.5 + - - +
66K ALA* 3.2 8.1 + - - +
67K ILE* 3.1 41.1 + - + +
125K ASP* 2.8 30.9 + - - -
127K VAL* 3.2 32.0 - - - +
128K THR* 2.9 20.6 + - - +
131K MET* 4.0 26.0 - - + -
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Residues in contact with LEU 64 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10K LYS* 3.7 37.0 - - + +
13K LEU* 4.1 13.0 - - + +
14K ASN* 3.7 29.6 - - + +
17K VAL* 4.9 2.2 - - + -
60K VAL 2.8 12.3 + - - +
61K ALA* 3.1 10.1 - - - +
63K ARG* 1.3 75.5 - - - +
65K LEU* 1.3 58.3 + - - +
67K ILE* 3.0 17.1 + - + +
69K GLY* 2.8 44.0 + - - -
70K SER 3.9 4.0 - - - +
71K PRO* 3.6 33.2 - - + -
----------------------------------------------------------
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Residues in contact with LEU 65 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
144D TRP* 3.8 33.9 - - + +
154D PRO* 3.1 18.4 - - + +
32I TRP* 3.6 42.6 - - + +
33I TYR* 4.7 9.9 - - + -
61K ALA 3.0 13.7 + - - +
62K GLU* 3.3 16.2 - - - +
64K LEU* 1.3 75.2 - - - +
66K ALA* 1.3 58.8 + - - +
68K GLY* 3.0 18.4 + - - -
69K GLY 3.7 12.9 - - - +
71K PRO* 3.3 27.1 - - + -
----------------------------------------------------------
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Residues in contact with ALA 66 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140D ASP* 3.8 31.8 - - + +
141D LYS* 4.8 4.0 - - - -
143D ILE* 6.2 0.2 - - - +
144D TRP* 4.1 15.5 - - + +
154D PRO* 4.1 10.8 - - - +
155D LEU* 4.2 9.9 - - - +
62K GLU 2.9 18.9 + - - +
63K ARG* 3.5 20.4 - - - +
64K LEU 3.1 0.4 - - - -
65K LEU* 1.3 77.5 - - - +
67K ILE* 1.3 58.7 + - - +
68K GLY 3.2 1.7 + - - -
----------------------------------------------------------
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Residues in contact with ILE 67 (chain K).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140D ASP* 6.2 0.2 - - - -
155D LEU* 3.3 20.6 - - + +
9K THR* 4.0 14.4 - - + -
10K LYS* 3.4 41.9 + - + -
13K LEU* 3.9 26.9 - - + -
63K ARG* 3.1 44.6 + - - +
64K LEU* 3.0 17.7 + - + +
66K ALA* 1.3 77.3 - - - +
68K GLY* 1.3 55.5 + - - +
125K ASP* 3.9 9.2 - - - +
128K THR* 4.9 0.2 - - - +
----------------------------------------------------------
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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