Contacts of the helix formed by residues 49 - 76 (chain A) in PDB entry 4MT7
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 GLN 49 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45A GLN* 3.6 26.2 - - + +
46A ASN* 3.5 29.2 + - - +
47A ARG 3.1 1.4 - - - +
48A ASP* 1.3 79.8 - - - +
50A MET* 1.3 68.5 + - - +
51A ARG 3.2 2.2 - - - -
52A ALA* 2.9 26.6 + - - +
53A ASN* 2.4 42.4 + - - -
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Residues in contact with MET 50 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46A ASN* 3.6 26.5 - - - +
47A ARG* 3.4 19.2 - - - +
49A GLN* 1.3 93.4 - - - +
51A ARG* 1.3 56.3 + - - +
53A ASN* 3.0 20.5 + - + +
54A VAL* 2.9 30.9 + - + +
202A GLU* 5.9 0.4 - - - +
206A TYR* 3.4 46.2 - - + +
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Residues in contact with ARG 51 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47A ARG 3.5 6.6 + - - +
48A ASP* 4.6 3.4 - - - +
50A MET* 1.3 79.7 - - - +
52A ALA* 1.3 55.8 + - - +
54A VAL* 3.2 5.9 + - - +
55A ILE* 2.9 43.1 + - + +
123A HIS* 2.7 38.1 + - + +
125A SER 2.7 27.9 + - - -
203A LEU* 3.7 24.3 - - + +
206A TYR* 3.1 30.6 - - - +
207A THR* 2.5 40.2 + - - +
208A ALA 5.8 0.2 - - - +
211A HIS* 3.4 19.9 + - - -
213A ASP* 2.7 20.4 + - - -
217A VAL* 4.5 1.0 - - - +
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Residues in contact with ALA 52 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48A ASP 4.7 0.2 - - - +
49A GLN* 2.9 18.3 + - - +
51A ARG* 1.3 77.7 - - - +
53A ASN* 1.3 61.0 + - - +
55A ILE* 3.8 2.7 - - - +
56A ASN* 3.0 39.7 + - - +
122A PRO* 4.1 10.5 - - + -
123A HIS* 3.6 34.6 - - + +
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Residues in contact with ASN 53 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49A GLN* 2.4 43.1 + - - -
50A MET* 3.0 27.9 + - + +
52A ALA* 1.3 77.4 - - - +
54A VAL* 1.3 61.1 + - + +
56A ASN* 3.4 5.9 + - - +
57A GLU* 2.9 31.1 + - - +
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Residues in contact with VAL 54 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50A MET* 2.9 17.0 + - + +
51A ARG* 3.6 7.0 - - - +
53A ASN* 1.3 73.9 - - + +
55A ILE* 1.3 60.4 + - - +
57A GLU* 3.2 13.0 + - - +
58A ILE* 2.9 41.2 + - + +
199A GLN 4.2 3.1 - - - +
202A GLU* 3.5 35.4 - - + +
203A LEU* 3.6 38.4 - - + +
206A TYR* 4.2 9.2 - - + -
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Residues in contact with ILE 55 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51A ARG* 2.9 47.1 + - + +
52A ALA* 3.8 4.7 - - - +
54A VAL* 1.3 74.3 - - - +
56A ASN* 1.3 58.3 + - - +
58A ILE* 3.3 6.4 + - - +
59A MET* 3.0 31.7 + - + +
117A TYR* 4.1 19.1 - - + -
122A PRO 3.8 23.1 - - - +
123A HIS* 4.6 0.2 - - - -
125A SER* 4.1 22.2 - - - +
127A ILE* 4.0 22.7 - - + -
203A LEU* 3.6 21.5 - - + -
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Residues in contact with ASN 56 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52A ALA* 3.0 27.7 + - - +
53A ASN* 3.9 5.8 + - - +
55A ILE* 1.3 74.0 - - - +
57A GLU* 1.3 62.0 + - - +
59A MET* 3.5 5.9 + - - +
60A SER* 2.9 27.9 + - - -
63A ARG* 4.9 3.2 + - - +
117A TYR* 2.8 34.0 + - - -
122A PRO* 4.1 16.0 - - - +
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Residues in contact with GLU 57 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53A ASN 2.9 19.3 + - - +
54A VAL* 3.6 15.3 - - - +
56A ASN* 1.3 73.6 - - - +
58A ILE* 1.3 68.2 + - - +
60A SER* 3.1 7.2 + - - -
61A THR* 2.9 40.9 + - + +
199A GLN* 3.2 29.5 + - - +
202A GLU* 5.5 3.8 - - - +
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Residues in contact with ILE 58 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54A VAL* 2.9 38.0 + - + +
55A ILE* 3.5 5.8 - - - +
57A GLU* 1.3 77.6 - - - +
59A MET* 1.3 65.0 - - + +
61A THR* 2.8 22.5 + - - -
62A GLU* 2.9 22.9 + - + +
113A LEU* 4.7 12.3 - - + -
127A ILE* 4.3 26.7 - - + -
131A PHE* 5.5 9.2 - - + -
196A TYR* 6.1 1.8 - - + -
199A GLN* 3.6 41.3 - - + +
200A LEU* 5.2 4.9 - - + -
203A LEU* 4.7 4.9 - - + -
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Residues in contact with MET 59 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55A ILE* 3.0 23.1 + - + +
56A ASN* 3.7 7.2 - - - +
58A ILE* 1.3 78.3 - - + +
60A SER* 1.3 63.1 + - - +
62A GLU* 3.3 5.0 + - - +
63A ARG* 2.9 46.7 + - - +
113A LEU* 3.8 38.6 - - - +
114A GLU* 3.5 37.9 - - - +
117A TYR* 3.7 43.1 - - + -
127A ILE* 6.2 2.2 - - - -
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Residues in contact with SER 60 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56A ASN 2.9 14.7 + - - -
57A GLU* 3.1 12.8 + - - -
59A MET* 1.3 75.4 - - - +
61A THR* 1.3 64.8 + - - +
63A ARG* 2.9 16.9 + - - +
64A HIS* 2.9 49.0 + - - -
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Residues in contact with THR 61 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57A GLU* 2.9 36.0 + - + +
58A ILE 2.8 15.4 + - - -
60A SER* 1.3 73.0 - - - +
62A GLU* 1.3 59.4 + - - +
64A HIS* 4.0 8.6 - - - +
65A TYR* 2.9 30.8 + - - +
192A LYS* 3.3 21.6 + - - -
199A GLN* 3.5 11.6 + - - +
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Residues in contact with GLU 62 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58A ILE* 2.9 28.0 + - + +
59A MET* 3.7 7.2 - - - +
61A THR* 1.3 77.2 + - - +
63A ARG* 1.3 60.6 + - + +
65A TYR* 3.8 2.3 - - - +
66A ILE* 2.9 30.7 + - - +
106A GLN* 2.9 18.3 + - - -
109A PHE* 3.7 9.8 - - - -
110A VAL* 3.8 18.1 - - + +
113A LEU* 4.3 18.6 - - + -
131A PHE* 6.4 0.2 - - + -
192A LYS* 2.9 33.8 + - - +
196A TYR* 2.6 33.6 + - + -
199A GLN* 5.6 0.2 + - - -
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Residues in contact with ARG 63 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56A ASN* 4.9 2.8 + - - -
59A MET* 2.9 45.2 + - - +
60A SER* 2.9 12.0 + - - +
62A GLU* 1.3 75.1 - - + +
64A HIS* 1.3 62.1 + - + +
66A ILE* 3.1 12.4 - - + +
67A LYS* 2.9 28.5 + - - +
110A VAL* 5.2 7.9 - - + -
114A GLU* 2.7 45.7 + - - +
117A TYR* 6.0 1.0 - - - -
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Residues in contact with HIS 64 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60A SER* 2.9 42.7 + - - +
61A THR* 4.0 7.0 + - - +
63A ARG* 1.3 76.5 - - + +
65A TYR* 1.3 53.6 + - - +
67A LYS* 3.2 18.6 + - + +
68A HIS* 2.4 52.7 + + + -
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Residues in contact with TYR 65 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61A THR 2.9 20.8 + - - +
62A GLU* 3.8 4.0 - - - +
63A ARG 3.3 0.2 - - - -
64A HIS* 1.3 76.2 - - - +
66A ILE* 1.3 58.9 + - - +
68A HIS* 3.2 11.2 + - + +
69A LEU* 2.9 43.9 + - + +
102A ILE* 3.9 6.2 - - - +
106A GLN* 3.3 43.3 - - + -
141A TYR* 2.6 20.9 + - - -
188A THR* 3.8 39.0 - - - -
189A PRO* 3.2 21.8 - - + +
192A LYS* 3.8 30.5 - - + -
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Residues in contact with ILE 66 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62A GLU 2.9 16.5 + - - +
63A ARG* 3.1 25.4 - - + +
65A TYR* 1.3 82.1 - - - +
67A LYS* 1.3 57.1 + - - +
69A LEU* 3.4 6.0 + - - +
70A LYS* 2.9 27.0 + - - +
103A TYR* 3.9 19.7 - - + -
106A GLN* 3.8 17.7 - - + +
107A MET* 3.6 35.2 - - + +
110A VAL* 4.1 19.7 - - + -
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Residues in contact with LYS 67 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63A ARG 2.9 15.9 + - - +
64A HIS* 3.3 22.9 - - + +
66A ILE* 1.3 76.3 - - + +
68A HIS* 1.3 65.2 + - + +
70A LYS* 3.3 10.6 + - + +
71A ASP* 2.9 59.4 + - - +
175A GLN 5.0 1.6 + - - -
176A GLN 4.5 11.5 + - - -
177A MET* 5.8 0.6 - - - +
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Residues in contact with HIS 68 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64A HIS* 2.4 50.6 + + + -
65A TYR* 3.2 12.6 + - + +
67A LYS* 1.3 80.2 - - + +
69A LEU* 1.3 62.3 + - - +
71A ASP* 3.4 9.1 + - - +
72A ILE* 2.9 35.2 + - + +
178A ILE* 5.8 5.3 - - - +
185A PHE* 3.7 33.2 - + + -
188A THR* 4.9 18.7 - - + +
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Residues in contact with LEU 69 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65A TYR* 2.9 51.8 + - + +
66A ILE* 3.6 8.7 - - - +
68A HIS* 1.3 78.8 - - - +
70A LYS* 1.3 56.1 + - - +
72A ILE* 3.2 6.6 + - + +
73A CYS* 2.9 34.1 + - - +
99A ILE* 3.7 33.4 - - + +
102A ILE* 3.7 10.3 - - + -
103A TYR* 3.7 37.9 - - + -
106A GLN* 3.8 13.0 - - + -
188A THR* 5.0 3.4 - - - +
189A PRO* 4.5 2.9 - - + -
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Residues in contact with LYS 70 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66A ILE 2.9 12.7 + - - +
67A LYS* 3.5 14.6 - - + +
68A HIS 3.2 0.2 - - - -
69A LEU* 1.3 76.9 - - - +
71A ASP* 1.3 64.0 + - - +
73A CYS* 4.4 0.2 - - - +
74A GLU* 2.9 59.5 + - + +
103A TYR* 3.4 32.6 - - + +
175A GLN* 5.3 1.8 - - - +
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Residues in contact with ASP 71 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67A LYS* 2.9 50.7 + - - +
68A HIS* 3.9 10.1 - - - +
70A LYS* 1.3 81.1 - - - +
72A ILE* 1.3 57.7 + - + +
75A GLY* 2.9 25.5 + - - -
76A TYR 3.7 0.3 + - - -
175A GLN* 3.2 43.0 + - + +
176A GLN 4.8 0.5 - - - +
177A MET* 3.1 30.6 - - + +
185A PHE* 5.7 1.5 - - + -
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Residues in contact with ILE 72 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68A HIS* 2.9 21.4 + - + +
69A LEU* 3.6 7.2 - - + +
70A LYS 3.1 0.2 - - - -
71A ASP* 1.3 77.2 - - - +
73A CYS* 1.3 64.0 + - - +
76A TYR* 3.1 34.4 + - + +
77A LEU* 3.1 8.8 + - - +
96A PHE* 4.6 15.7 - - + -
99A ILE* 4.0 35.4 - - + -
177A MET* 5.8 0.2 - - + -
182A ILE* 6.4 0.2 - - + -
185A PHE* 3.2 49.6 - - + +
186A LEU* 4.2 12.8 - - + -
188A THR* 4.7 5.6 - - - +
189A PRO* 5.7 0.2 - - + -
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Residues in contact with CYS 73 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69A LEU 2.9 21.0 + - - +
70A LYS 4.4 0.4 - - - +
72A ILE* 1.3 74.8 - - - +
74A GLU* 1.3 57.8 + - - +
77A LEU* 3.4 26.7 - - + +
78A LYS* 3.5 10.4 + - - +
99A ILE* 3.8 24.2 - - - -
100A GLU* 3.7 39.7 - - + +
103A TYR* 3.9 22.7 - - + -
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Residues in contact with GLU 74 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70A LYS* 2.9 46.3 + - + +
73A CYS* 1.3 80.0 - - - +
75A GLY* 1.3 62.8 + - - +
76A TYR 3.6 0.2 - - - -
78A LYS* 3.5 31.0 - - + +
79A GLN* 4.6 6.8 + - - -
103A TYR* 6.4 0.4 - - + -
175A GLN* 3.6 23.3 + - - +
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Residues in contact with GLY 75 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71A ASP 2.9 19.8 + - - -
74A GLU* 1.3 80.3 - - - +
76A TYR* 1.3 62.5 + - - +
79A GLN* 3.5 20.8 - - - +
171A CYS* 3.8 16.3 - - - +
175A GLN* 3.8 23.9 + - - -
177A MET* 4.4 1.1 - - - -
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Residues in contact with TYR 76 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71A ASP 4.3 3.1 - - - -
72A ILE* 3.1 19.5 + - + +
75A GLY* 1.3 77.8 - - - +
77A LEU* 1.3 67.0 + - - +
78A LYS 3.4 0.9 - - - -
79A GLN* 3.4 4.3 + - - +
80A CYS* 3.1 29.8 + - - -
96A PHE* 3.9 17.7 - + + -
168A PHE* 3.8 38.5 + + + +
171A CYS* 3.8 14.6 - - + -
172A ARG* 3.1 33.2 - - + +
177A MET* 3.4 31.4 - - + -
180A ILE 4.5 1.2 + - - -
181A ALA* 5.3 0.2 - - - -
182A ILE* 3.7 45.9 + - + +
185A PHE* 5.2 6.1 - + + -
----------------------------------------------------------
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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