Contacts of the helix formed by residues 72 - 94 (chain H) in PDB entry 1P7G
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 72 (chain H).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60G LYS* 5.1 7.3 + - - -
72G ASP* 5.4 2.6 - - - +
75G ALA* 4.2 7.6 - - - +
79G ASP* 4.5 3.3 - - - +
71H ILE* 1.3 74.9 - - - +
73H ILE* 1.3 57.7 + - - +
74H ARG* 3.7 4.9 + - - +
75H ALA* 2.9 22.5 + - + +
76H VAL* 2.8 29.2 + - + +
408H BME 2.9 24.1 - - - +
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Residues in contact with ILE 73 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128E GLU* 4.1 18.4 - - + +
131E GLN* 3.6 32.3 - - + +
132E ALA* 4.1 14.1 - - + +
135E ASN* 3.7 19.1 - - + +
61H LEU* 3.8 25.1 - - + -
71H ILE* 3.2 25.3 + - + +
72H ASP* 1.3 73.1 - - - +
74H ARG* 1.3 61.8 + - - +
76H VAL* 4.5 0.2 - - - -
77H LEU* 2.9 63.3 + - + +
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Residues in contact with ARG 74 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
135E ASN* 3.0 36.9 + - + +
136E VAL 4.4 0.4 + - - -
137E GLU* 3.6 29.1 + - - +
157E GLN* 3.2 31.4 + - - +
159E GLU* 5.0 0.2 - - - -
79G ASP* 2.7 28.8 + - - +
83G HIS* 5.0 10.5 - - - -
72H ASP* 3.1 3.7 + - - +
73H ILE* 1.3 81.6 - - - +
75H ALA* 1.3 59.4 + - - +
78H ARG* 2.8 65.0 + - - +
408H BME 3.3 20.2 + - - +
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Residues in contact with ALA 75 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72G ASP* 4.1 9.6 - - - +
75G ALA* 3.7 11.0 - - + -
72H ASP* 2.9 32.3 + - + +
74H ARG* 1.3 80.2 - - - +
76H VAL* 1.3 64.5 + - + +
78H ARG* 3.6 2.1 - - - +
79H ASP* 3.0 31.0 + - - +
408H BME 3.2 27.6 - - - -
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Residues in contact with VAL 76 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57H ALA* 3.9 17.6 - - + +
60H LYS* 4.2 22.4 - - + +
61H LEU* 3.6 35.9 - - + -
71H ILE* 3.3 33.2 - - + -
72H ASP* 2.8 20.3 + - + +
73H ILE 4.0 2.2 - - - +
75H ALA* 1.3 73.9 - - + +
77H LEU* 1.3 58.6 + - - +
79H ASP* 3.1 10.1 + - - +
80H LEU* 2.8 26.3 + - - +
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Residues in contact with LEU 77 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128E GLU* 5.1 2.0 - - - +
132E ALA* 3.8 11.7 - - + -
155E ILE* 3.2 30.3 - - + +
156E LEU* 4.2 4.1 - - + +
157E GLN* 3.8 40.6 - - + +
164E MSE 5.3 0.9 - - - -
61H LEU* 4.2 22.4 - - + -
73H ILE* 2.9 52.7 + - + +
74H ARG 4.1 1.3 - - - +
76H VAL* 1.3 71.3 - - - +
78H ARG* 1.3 60.3 + - - +
80H LEU* 3.6 8.7 - - + +
81H SER* 2.8 31.9 + - - -
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Residues in contact with ARG 78 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137E GLU* 2.8 38.4 + - - +
157E GLN* 4.8 1.3 - - - +
159E GLU* 3.1 28.4 + - - -
164E MSE 3.5 28.6 - - + +
137F GLU* 4.5 4.5 - - - +
78G ARG* 3.5 46.1 - - - +
79G ASP* 4.6 0.8 + - - -
160G LYS* 3.8 6.3 - - - +
74H ARG* 2.8 32.4 + - + +
75H ALA 3.6 4.5 - - - +
77H LEU* 1.3 75.8 - - - +
79H ASP* 1.3 64.0 + - - +
81H SER* 3.3 3.1 + - - -
82H PHE* 3.1 23.0 + - - +
162H ASN* 4.3 2.4 + - - -
408H BME 3.2 31.8 - - - +
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Residues in contact with ASP 79 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137F GLU* 4.0 8.6 - - - +
72G ASP* 4.6 9.0 - - - +
74G ARG* 2.9 35.6 + - - -
78G ARG* 4.7 3.8 + - - -
53H GLY 5.5 0.7 - - - +
57H ALA* 4.7 7.4 - - + -
60H LYS* 4.5 14.9 + - - +
75H ALA* 3.0 22.6 + - - +
76H VAL* 3.1 9.8 + - - +
78H ARG* 1.3 74.4 - - - +
80H LEU* 1.3 66.9 + - - +
82H PHE* 3.2 3.1 + - - +
83H HIS* 2.9 38.3 + - + +
408H BME 5.8 1.1 - - - -
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Residues in contact with LEU 80 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
154E LEU* 3.9 33.2 - - + -
155E ILE 4.6 1.6 - - - +
156E LEU* 4.3 15.0 - - + -
54H ALA* 4.4 4.7 - - + +
57H ALA* 3.9 16.1 - - + +
58H LEU* 3.3 31.0 - - + -
61H LEU* 3.9 23.1 - - + -
76H VAL 2.8 19.2 + - - +
77H LEU* 3.2 13.0 + - + +
79H ASP* 1.3 71.7 - - - +
81H SER* 1.3 58.6 + - - +
83H HIS* 4.8 1.6 - - - -
84H LEU* 2.8 51.4 + - + +
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Residues in contact with SER 81 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
156E LEU* 4.9 10.3 - - - +
157E GLN 5.6 0.9 - - - -
164E MSE 2.9 40.5 + - - +
166E ALA* 6.5 0.7 - - - +
77H LEU 2.8 17.5 + - - -
78H ARG 3.4 5.8 - - - -
80H LEU* 1.3 79.7 - - - +
82H PHE* 1.3 62.8 + - - +
84H LEU* 4.4 2.5 - - - +
85H ASN* 3.2 28.0 + - - +
162H ASN* 3.0 20.3 + - - +
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Residues in contact with PHE 82 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137F GLU* 3.3 53.8 - - + +
138F GLY 4.5 3.8 - - - -
50H TYR* 4.2 13.2 - + - -
78H ARG 3.1 6.3 + - - +
79H ASP 3.6 5.2 - - - +
81H SER* 1.3 78.6 - - - +
83H HIS* 1.3 85.1 + + - +
86H GLY 3.0 21.0 + - - -
160H LYS* 3.9 12.8 - - + -
161H HIS* 3.7 21.7 + + - +
162H ASN* 3.4 23.0 - - - +
178H TRP* 3.5 40.4 - + - -
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Residues in contact with HIS 83 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74G ARG* 5.0 11.2 - - - -
49H GLY 4.2 3.2 + - - -
50H TYR* 3.4 38.2 - + - +
53H GLY* 3.2 32.5 + - - -
54H ALA* 3.4 19.5 - - - +
79H ASP* 2.9 29.7 + - + +
80H LEU 4.1 0.2 - - - +
82H PHE* 1.3 95.3 - + - +
84H LEU* 1.3 65.9 + - - +
85H ASN 3.1 1.6 - - - -
86H GLY 3.2 0.7 + - - +
87H HIS* 3.0 23.9 + - - +
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Residues in contact with LEU 84 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147E GLU* 3.8 13.2 - - + +
154E LEU* 3.5 32.1 - - + -
156E LEU* 5.6 2.9 - - + -
166E ALA* 4.5 17.3 - - + -
18H TYR* 3.5 42.2 - - + +
54H ALA* 4.2 6.7 - - + +
80H LEU* 2.8 33.0 + - + +
81H SER* 4.4 2.0 - - - +
83H HIS* 1.3 73.5 - - - +
85H ASN* 1.3 57.7 + - - +
87H HIS* 3.3 7.5 + - + +
88H ILE* 2.9 50.4 + - + +
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Residues in contact with ASN 85 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
165E HIS 2.6 22.9 - - - +
166E ALA* 3.7 5.2 - - - +
167E ALA* 2.8 40.8 - - - +
81H SER* 3.2 15.5 + - - +
82H PHE 3.9 1.3 - - - +
83H HIS 3.1 0.4 - - - -
84H LEU* 1.3 76.8 - - - +
86H GLY* 1.3 65.4 + - - +
87H HIS 3.0 1.1 - - - -
88H ILE* 4.2 6.7 - - - +
89H LEU* 3.0 30.0 + - - +
161H HIS* 3.2 26.0 - - - +
162H ASN* 3.0 18.9 - - - +
165H HIS* 3.3 2.2 + - - -
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Residues in contact with GLY 86 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50H TYR* 3.7 13.9 - - - -
82H PHE 3.0 12.4 + - - -
83H HIS 3.2 3.9 + - - -
85H ASN* 1.3 75.3 - - - +
87H HIS* 1.3 56.4 + - - +
89H LEU* 4.1 0.6 - - - +
90H HIS* 2.6 36.7 + - - +
161H HIS* 3.2 31.6 - - - +
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Residues in contact with HIS 87 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149E LEU* 3.3 23.9 - - + +
150E GLU* 5.8 0.4 + - - -
18H TYR* 3.2 40.2 - + + +
19H THR 3.1 27.2 + - - -
21H PRO* 3.9 7.4 - - + -
47H HIS* 3.3 16.0 + - - -
50H TYR* 3.9 11.8 - - + +
51H VAL* 3.9 10.4 - - + +
54H ALA* 5.6 1.6 - - + -
83H HIS 3.0 11.9 + - - +
84H LEU* 3.4 11.9 - - + +
85H ASN 3.0 0.2 - - - -
86H GLY* 1.3 75.3 - - - +
88H ILE* 1.3 55.1 + - - +
90H HIS* 3.1 1.4 + - - -
91H SER* 2.7 57.3 + - - -
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Residues in contact with ILE 88 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147E GLU* 4.3 13.2 - - + +
149E LEU* 4.2 16.6 - - + -
166E ALA* 4.9 3.1 - - + -
167E ALA* 3.4 37.9 - - + +
168E ASP* 4.7 5.4 - - - +
84H LEU* 2.9 49.0 + - + +
85H ASN* 4.1 13.2 - - - +
87H HIS* 1.3 70.7 - - - +
89H LEU* 1.3 64.4 + - - +
91H SER* 3.0 16.9 + - - -
92H ILE* 3.1 36.5 + - + +
220H LEU* 4.7 11.2 - - + -
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Residues in contact with LEU 89 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
167E ALA* 4.1 12.3 - - + -
85H ASN 3.0 17.4 + - - +
86H GLY 4.3 0.2 - - - +
88H ILE* 1.3 75.7 - - - +
90H HIS* 1.3 58.0 + - - +
92H ILE* 3.2 7.9 + - + +
93H PHE* 2.8 28.2 + - - +
141H TRP* 3.5 51.2 - - + +
143H ILE* 4.6 15.3 - - + -
158H ILE* 4.8 0.2 - - + -
161H HIS* 3.3 27.1 - - + +
165H HIS* 3.8 24.2 - - + -
171H VAL* 4.6 13.5 - - + -
174H ALA* 4.8 4.6 - - + +
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Residues in contact with HIS 90 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42H HIS* 2.9 40.9 + + - -
47H HIS* 3.2 36.6 - + + +
50H TYR* 3.3 27.3 - + - -
86H GLY 2.6 28.1 + - - +
87H HIS 3.1 1.4 + - - -
89H LEU* 1.3 72.5 - - - +
91H SER* 1.3 59.2 + - - +
92H ILE 2.9 10.6 + - - -
93H PHE* 3.2 12.2 + + - -
94H TRP* 3.2 37.6 + + - -
141H TRP* 3.4 24.7 - + - -
161H HIS* 4.2 5.6 - - - -
176H ASP* 3.8 2.7 + - - -
180H HIS* 4.4 1.9 + - - -
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Residues in contact with SER 91 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149E LEU* 4.3 6.5 - - - +
21H PRO* 3.7 15.3 - - - +
47H HIS* 3.7 5.5 + - - -
87H HIS* 2.7 49.4 + - - -
88H ILE* 3.0 9.8 + - - -
90H HIS* 1.3 71.9 - - - +
92H ILE* 1.3 55.2 + - - +
94H TRP* 4.9 2.2 - - - -
95H PRO* 3.5 11.1 - - - +
220H LEU* 5.8 0.9 - - - -
308H ACT 2.6 42.2 - - - +
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Residues in contact with ILE 92 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
168E ASP* 4.2 8.5 - - - +
88H ILE* 3.1 34.5 + - + +
89H LEU* 3.7 8.3 - - + +
90H HIS 2.9 0.6 - - - -
91H SER* 1.3 84.0 - - - +
93H PHE* 1.3 60.6 + - - +
94H TRP 3.3 1.6 - - - -
95H PRO* 3.4 6.0 - - - +
96H ASN* 2.8 47.9 + - - +
171H VAL* 4.3 29.8 - - + +
172H LEU 4.8 0.7 - - - +
174H ALA* 5.0 2.9 - - + -
209H ARG* 3.7 26.0 - - - +
219H ALA 5.5 0.2 - - - +
220H LEU* 4.0 22.4 - - + -
308H ACT 4.0 1.8 - - - +
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Residues in contact with PHE 93 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34H ILE* 5.1 3.8 - - + -
39H MSE 5.3 2.2 - - + -
42H HIS* 4.5 12.3 - + - -
89H LEU 2.8 17.0 + - - +
90H HIS* 3.2 6.5 + + - +
92H ILE* 1.3 78.8 - - - +
94H TRP* 1.3 94.9 + + - +
96H ASN* 3.4 16.7 + - - +
97H MSE 3.4 37.0 - - + +
141H TRP* 3.7 18.6 - + + -
174H ALA* 3.1 26.2 - - - +
175H LEU* 4.0 1.1 - - + -
176H ASP* 3.4 31.0 - - + -
181H ALA* 5.4 0.9 - - + -
193H TYR* 4.0 15.0 - - - -
197H TRP* 4.0 17.9 - + - -
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Residues in contact with TRP 94 (chain H).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21H PRO* 4.8 5.6 - - + -
22H PRO 5.2 1.6 - - - -
23H LEU* 4.5 8.3 - - + -
24H PRO* 4.2 9.0 - - + -
25H TYR* 2.9 49.6 + - + +
39H MSE 3.7 22.7 - - + -
42H HIS* 3.2 41.3 - + + -
43H HIS* 3.2 38.8 - + + -
47H HIS* 2.7 29.6 + + - -
90H HIS* 3.2 27.6 + + - -
91H SER* 4.9 2.5 - - - -
93H PHE* 1.3 99.0 - + - +
95H PRO* 1.3 65.1 - - + +
96H ASN 3.0 4.3 - - - -
97H MSE 3.0 17.1 + - + +
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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