Contacts of the helix formed by residues 88 - 113 (chain A) in PDB entry 2EVT
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 VAL 88 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
77A GLU* 3.6 1.7 - - - +
81A TYR* 3.3 60.3 - - + -
84A GLU* 4.2 20.0 - - + +
85A TRP* 3.9 25.8 - - + -
86A PRO 2.9 6.1 + - - -
87A LYS* 1.3 75.0 - - - +
89A GLY* 1.3 71.3 + - - +
91A THR* 3.3 6.6 + - - -
92A LEU* 3.0 23.5 + - - +
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Residues in contact with GLY 89 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55A LYS* 5.4 3.6 - - - +
59A VAL* 4.8 4.9 - - - -
77A GLU* 3.6 10.1 - - - -
81A TYR* 4.8 7.2 - - - -
88A VAL* 1.3 85.8 - - - +
90A ALA* 1.3 60.4 + - - -
92A LEU* 3.8 2.3 - - - +
93A ALA* 3.3 17.2 + - - +
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Residues in contact with ALA 90 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55A LYS 5.0 1.1 - - - -
56A ILE* 3.9 23.2 - - + +
59A VAL* 3.8 26.2 - - + +
73A ILE* 3.7 18.8 - - + +
77A GLU* 2.9 15.1 + - - +
89A GLY* 1.3 70.4 - - - -
91A THR* 1.3 59.7 + - - +
92A LEU 3.3 0.2 - - - -
93A ALA* 3.7 8.8 - - - +
94A LEU* 2.9 32.2 + - - +
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Residues in contact with THR 91 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73A ILE* 4.0 1.6 + - - +
74A LEU* 3.7 26.4 - - + +
77A GLU* 2.8 22.5 + - - +
85A TRP* 3.1 33.0 + - + +
86A PRO* 3.6 23.3 - - + +
88A VAL 3.6 5.8 - - - -
89A GLY 3.2 0.4 - - - -
90A ALA* 1.3 77.2 - - - +
92A LEU* 1.3 55.5 + - - +
95A MET* 3.0 14.4 + - - +
198A TYR* 2.5 38.2 + - + +
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Residues in contact with LEU 92 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
86A PRO 3.8 3.3 + - - +
87A LYS* 4.0 33.9 - - + +
88A VAL* 3.0 25.1 + - - +
89A GLY 3.8 4.0 - - - +
91A THR* 1.3 76.6 - - - +
93A ALA* 1.3 64.5 + - - +
95A MET* 3.2 36.6 + - + +
96A TRP* 3.2 28.7 + - + +
205A LEU* 4.8 0.2 - - + -
207A TYR* 3.5 25.1 - - + +
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Residues in contact with ALA 93 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52A ASN* 3.3 31.7 - - - +
55A LYS* 3.7 32.8 - - + -
56A ILE* 3.8 12.6 - - + -
89A GLY 3.3 10.4 + - - +
90A ALA* 3.7 8.7 - - - +
91A THR 3.4 0.4 - - - -
92A LEU* 1.3 80.6 - - - +
94A LEU* 1.3 56.1 + - - +
96A TRP* 3.3 1.5 + - - -
97A LEU 2.9 22.3 + - - -
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Residues in contact with LEU 94 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23A PHE* 4.0 18.8 - - + -
56A ILE* 3.8 12.3 - - + +
70A LEU* 4.3 23.1 - - + +
73A ILE* 5.3 6.1 - - + -
74A LEU* 4.3 6.7 - - + -
90A ALA 2.9 14.8 + - - +
93A ALA* 1.3 74.2 - - - +
95A MET* 1.3 59.6 + - - +
97A LEU* 3.9 23.3 - - + -
98A LYS* 2.9 32.3 + - + +
194A ILE* 4.3 14.1 - - + -
197A MET* 4.2 14.1 - - + -
198A TYR* 3.2 31.4 - - + +
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Residues in contact with MET 95 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
86A PRO 5.6 1.1 - - - +
91A THR 3.0 15.1 + - - +
92A LEU* 3.2 33.6 + - + +
94A LEU* 1.3 76.8 - - - +
96A TRP* 1.3 76.3 + - - +
98A LYS* 3.0 29.8 + - - +
99A ARG* 3.5 26.6 + - - +
198A TYR* 3.2 18.1 + - + -
203A ALA 4.0 7.9 - - - +
204A GLU* 3.6 18.8 - - - +
205A LEU* 3.4 34.3 - - + +
207A TYR* 3.8 14.8 - - + -
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Residues in contact with TRP 96 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48A VAL* 3.4 14.1 - - + +
52A ASN* 3.4 22.9 - - - +
92A LEU* 3.2 28.4 + - + -
93A ALA 3.8 2.5 - - - +
94A LEU 3.2 0.2 - - - -
95A MET* 1.3 85.5 - - + +
97A LEU* 1.3 66.0 + - - +
98A LYS 3.3 0.4 - - - -
99A ARG* 3.2 50.6 + - - +
100A GLY 3.2 9.4 + - - -
136A LEU* 4.3 9.0 - - + -
139A TYR* 3.6 30.3 - - + -
140A HIS* 4.0 17.5 - - - -
207A TYR* 2.9 35.1 + + - -
209A VAL* 3.6 29.4 - - + +
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Residues in contact with LEU 97 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23A PHE* 3.9 27.1 - - + -
24A LEU* 5.1 0.7 - - + -
27A VAL* 4.8 1.8 - - + -
48A VAL 4.0 6.3 - - - -
49A ILE* 3.6 45.5 - - + +
52A ASN* 3.9 5.6 - - + +
53A ILE* 4.0 15.0 - - + +
56A ILE* 3.6 23.8 - - + -
93A ALA 2.9 17.9 + - - +
94A LEU* 3.2 9.4 + - + +
96A TRP* 1.3 76.8 - - - +
98A LYS* 1.3 58.2 + - - +
100A GLY* 3.1 2.5 + - - +
101A LEU* 2.9 45.1 + - + +
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Residues in contact with LYS 98 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94A LEU* 2.9 15.4 + - + +
95A MET* 3.0 22.6 + - - +
97A LEU* 1.3 77.5 - - - +
99A ARG* 1.3 67.6 + - - +
101A LEU* 3.5 12.7 + - + +
102A ARG* 2.9 28.9 + - - +
191A ILE* 4.0 2.8 - - + +
194A ILE* 4.0 30.1 - - + -
195A TYR* 3.4 44.4 - - + +
198A TYR* 3.9 25.4 - - + -
204A GLU* 2.8 37.6 + - - -
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Residues in contact with ARG 99 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95A MET* 3.5 30.9 + - - +
96A TRP* 3.2 57.3 + - - +
97A LEU 3.1 0.2 - - - -
98A LYS* 1.3 83.7 - - - +
100A GLY* 1.3 60.4 + - - +
102A ARG 3.4 0.2 + - - -
103A PHE* 2.9 24.1 + - - +
135A ALA* 3.4 23.2 - - - +
136A LEU* 3.7 11.9 - - + +
139A TYR* 3.5 39.4 - - + +
195A TYR* 3.3 17.9 - - + +
204A GLU* 3.2 16.0 + - - -
205A LEU 2.9 28.7 + - - -
207A TYR 4.9 1.0 + - - -
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Residues in contact with GLY 100 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45A ILE* 5.6 2.2 - - - -
48A VAL* 4.0 19.3 - - - +
49A ILE* 3.9 17.4 - - - +
96A TRP 3.2 5.1 + - - -
97A LEU 3.1 6.3 + - - -
99A ARG* 1.3 78.0 - - - +
101A LEU* 1.3 61.7 + - - +
103A PHE* 3.2 9.6 + - - +
104A ILE* 3.1 25.6 + - - +
136A LEU* 4.8 4.0 - - - -
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Residues in contact with LEU 101 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23A PHE* 3.6 34.8 - - + -
27A VAL* 4.1 13.0 - - + -
30A LEU* 3.7 20.9 - - + -
49A ILE* 4.3 10.3 - - + -
94A LEU* 5.8 0.2 - - + -
97A LEU* 2.9 41.3 + - + +
98A LYS* 3.7 9.2 - - - +
100A GLY* 1.3 76.7 - - - +
102A ARG* 1.3 56.8 + - - +
104A ILE* 3.3 1.1 + - - -
105A GLN 3.0 18.4 + - - -
187A TYR* 2.6 33.9 + - + +
191A ILE* 3.5 21.5 - - + +
194A ILE* 5.2 2.5 - - + -
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Residues in contact with ARG 102 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
98A LYS 2.9 18.2 + - - +
99A ARG 3.5 4.0 - - - +
101A LEU* 1.3 74.2 - - - +
103A PHE* 1.3 65.3 + - - +
105A GLN* 3.2 28.4 + - - +
106A VAL* 3.0 35.1 + - + +
134A MET* 4.5 11.0 + - - +
135A ALA* 3.8 16.4 - - + -
191A ILE* 3.8 11.2 - - - +
192A ASP* 3.1 24.4 + - - +
195A TYR* 3.3 61.9 - - + +
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Residues in contact with PHE 103 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34A PHE* 5.3 4.5 - + - -
45A ILE* 3.8 31.6 - - + -
99A ARG 2.9 14.3 + - - +
100A GLY* 3.2 12.1 + - - +
102A ARG* 1.3 75.7 - - - +
104A ILE* 1.3 67.4 + - + +
107A PHE* 2.9 47.1 + + + +
128A ALA* 3.5 33.4 - - + -
131A ALA* 3.3 22.7 - - + +
132A TYR* 3.6 20.2 - + + -
135A ALA* 3.4 11.8 - - + +
136A LEU* 4.4 12.1 - - + -
152A LEU* 4.2 16.6 - - + -
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Residues in contact with ILE 104 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30A LEU* 4.0 23.1 - - + -
34A PHE* 3.9 22.9 - - + -
49A ILE* 3.4 28.9 - - + -
100A GLY 3.1 9.2 + - - +
101A LEU* 3.5 0.9 - - + +
102A ARG 3.3 0.2 - - - -
103A PHE* 1.3 87.7 - - + +
105A GLN* 1.3 57.7 + - - +
107A PHE* 3.6 4.8 - - + +
108A LEU* 2.9 52.4 + - + +
183A PHE* 5.2 0.2 - - + -
187A TYR* 3.4 22.2 - - + +
301A HEX 3.9 20.6 - - + -
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Residues in contact with GLN 105 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101A LEU 3.0 13.8 + - - +
102A ARG* 3.2 35.4 + - - +
104A ILE* 1.3 77.5 - - - +
106A VAL* 1.3 66.7 + - - +
108A LEU 3.8 0.2 - - - -
109A GLN* 2.8 46.2 + - - +
184A LEU* 3.9 10.6 - - + +
187A TYR* 3.6 15.5 - - + -
188A THR* 3.4 45.2 + - + +
191A ILE* 3.8 7.0 - - + +
192A ASP* 5.0 2.0 - - - +
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Residues in contact with VAL 106 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
102A ARG* 3.0 30.7 + - + +
103A PHE 4.0 1.8 - - - +
105A GLN* 1.3 91.9 - - - +
107A PHE* 1.3 61.2 + - - +
109A GLN* 4.0 2.8 - - - +
110A SER* 2.9 28.9 + - - -
130A LYS* 4.2 12.6 - - + -
131A ALA* 3.7 26.5 - - - +
134A MET* 3.6 43.5 - - + -
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Residues in contact with PHE 107 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
103A PHE* 2.9 33.4 + + + +
104A ILE* 3.6 5.8 - - + +
106A VAL* 1.3 77.9 - - - +
108A LEU* 1.3 72.7 + - + +
110A SER* 3.4 2.8 + - - -
111A ILE* 3.2 48.5 + - + +
124A ILE* 3.7 29.6 - - + -
127A ASN* 3.8 14.4 - - + -
128A ALA* 3.7 29.8 - - + -
131A ALA* 3.6 11.5 - - + +
161A PHE* 3.5 30.3 - + - -
301A HEX 5.4 6.5 - - + -
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Residues in contact with LEU 108 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
104A ILE* 2.9 38.8 + - + +
105A GLN 4.0 2.2 - - - +
107A PHE* 1.3 90.1 - - + +
109A GLN* 1.3 62.5 + - - +
111A ILE* 3.2 7.1 + - + +
112A CYS* 2.9 32.9 + - - -
161A PHE* 4.0 23.3 - - + -
165A LEU* 5.1 0.2 - - + -
180A ILE* 4.0 32.1 - - + -
183A PHE* 4.4 8.5 - - + -
184A LEU* 3.9 16.2 - - + -
301A HEX 3.8 25.4 - - + -
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Residues in contact with GLN 109 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
105A GLN* 2.8 32.0 + - - +
106A VAL* 4.0 3.6 - - - +
108A LEU* 1.3 77.4 - - - +
110A SER* 1.3 55.9 + - - +
112A CYS* 3.2 6.2 + - - +
113A ASP* 2.8 65.1 + - - +
181A ARG* 5.5 3.1 - - - +
184A LEU* 3.3 32.1 - - - +
188A THR* 4.4 9.5 + - - +
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Residues in contact with SER 110 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
106A VAL 2.9 19.5 + - - -
107A PHE 3.5 5.8 - - - -
109A GLN* 1.3 75.1 - - - +
111A ILE* 1.3 62.9 + - - +
113A ASP 3.3 5.0 + - - -
115A GLU* 2.7 59.4 + - - +
126A VAL* 5.2 0.5 - - - +
127A ASN* 2.7 33.6 + - - +
130A LYS* 4.0 12.3 - - - +
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Residues in contact with ILE 111 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
107A PHE* 3.2 53.2 + - + +
108A LEU* 3.2 9.6 + - + +
110A SER* 1.3 76.0 - - - +
112A CYS* 1.3 61.0 + - - +
114A GLY* 3.1 18.4 + - - -
115A GLU 4.8 2.5 - - - -
124A ILE* 4.2 11.9 - - + -
127A ASN* 3.8 20.9 - - - +
158A LYS* 5.1 20.2 + - + +
161A PHE* 3.9 14.4 - - + -
162A LEU* 4.6 10.1 - - + -
177A LEU* 3.8 28.1 - - + +
180A ILE* 5.7 2.0 - - + -
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Residues in contact with CYS 112 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
108A LEU 2.9 20.9 + - - +
109A GLN* 3.7 13.2 - - - +
111A ILE* 1.3 78.2 - - - +
113A ASP* 1.3 62.4 + - - +
114A GLY* 3.1 1.3 + - - -
177A LEU* 3.8 27.7 - - - +
180A ILE* 3.5 35.2 - - - -
181A ARG* 3.2 46.0 + - + +
184A LEU* 4.3 2.0 - - + -
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Residues in contact with ASP 113 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109A GLN* 2.8 47.7 + - - +
110A SER* 3.8 4.7 - - - +
111A ILE 3.2 0.4 - - - -
112A CYS* 1.3 76.8 - - - +
114A GLY* 1.3 61.8 + - - +
115A GLU* 3.2 22.3 + - + +
181A ARG* 5.7 0.5 + - - -
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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