Contacts of the helix formed by residues 127 - 154 (chain I) in PDB entry 2ONK
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 ALA 127 (chain I).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
123I LYS* 3.5 22.7 - - + +
124I PHE 2.8 14.2 + - - +
125I VAL 2.6 9.2 + - - +
126I ASP* 1.3 73.8 - - - +
128I LEU* 1.4 66.5 + - - +
129I PRO* 3.3 4.7 - - + -
130I GLY* 2.9 14.4 + - - -
131I ILE* 3.5 5.8 + - - +
207I ALA* 3.6 4.9 - - - +
210I PRO* 3.6 9.6 - - - +
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Residues in contact with LEU 128 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53I THR* 4.6 12.1 - - + -
56I TYR* 4.1 31.6 - - + +
57I ALA* 4.2 22.2 - - + -
60I ILE* 4.3 11.9 - - + -
127I ALA* 1.4 69.0 - - - +
129I PRO* 1.3 63.5 - - + +
131I ILE* 2.8 37.2 + - + +
132I VAL* 3.0 18.9 + - + +
210I PRO* 4.3 6.3 - - + +
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Residues in contact with PRO 129 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
122I LEU* 3.6 34.1 - - + -
123I LYS 3.9 4.0 - - - +
124I PHE* 3.2 31.2 - - + -
127I ALA* 3.4 11.9 - - + -
128I LEU* 1.3 97.8 - - + +
130I GLY* 1.3 61.3 + - - +
132I VAL* 3.3 9.4 + - + +
133I VAL* 3.0 28.2 + - - +
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Residues in contact with GLY 130 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
110I PHE* 6.1 0.4 - - - -
124I PHE* 3.4 15.8 + - - +
127I ALA 2.9 10.6 + - - -
129I PRO* 1.3 78.6 - - - +
131I ILE* 1.3 56.4 + - - +
133I VAL* 4.0 3.4 - - - +
134I ALA* 3.0 27.4 + - - +
206I ILE* 3.4 35.5 - - - +
207I ALA* 5.0 0.9 - - - -
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Residues in contact with ILE 131 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53I THR* 4.7 2.9 - - + -
57I ALA* 3.6 13.2 - - + -
127I ALA 3.9 7.0 - - - +
128I LEU* 2.8 29.8 + - + +
130I GLY* 1.3 74.7 - - - +
132I VAL* 1.3 59.9 + - - +
134I ALA* 3.0 7.2 + - - +
135I MET* 2.8 41.8 + - + +
203I VAL* 4.2 15.3 - - + -
207I ALA* 4.0 11.9 - - + -
210I PRO* 3.0 34.1 - - + +
212I ILE* 3.1 37.7 - - + -
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Residues in contact with VAL 132 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57I ALA* 3.9 17.5 - - + +
60I ILE* 3.8 27.8 - - + -
61I SER* 4.3 9.4 - - - -
64I ILE* 3.4 31.4 - - + -
128I LEU* 3.0 21.7 + - + +
129I PRO* 3.6 10.8 - - + +
131I ILE* 1.3 74.4 - - - +
133I VAL* 1.3 63.1 + - + +
134I ALA 2.8 1.6 + - - -
135I MET* 2.8 6.4 + - - +
136I LEU* 2.6 36.9 + - + +
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Residues in contact with VAL 133 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19H PHE* 3.2 40.0 - - + -
106I LEU* 3.2 38.5 - - + +
110I PHE* 3.9 33.9 - - + -
124I PHE* 4.8 5.8 - - + -
129I PRO 3.0 16.5 + - - +
130I GLY* 4.0 5.6 - - - +
132I VAL* 1.3 82.6 - - + +
134I ALA* 1.3 64.4 + - - +
136I LEU* 4.2 1.6 - - + -
137I PHE 3.3 4.3 + - - -
206I ILE* 4.9 1.3 - - + -
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Residues in contact with ALA 134 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
106I LEU* 3.4 11.6 - - - +
130I GLY 3.0 15.9 + - - +
131I ILE* 3.0 9.4 + - - +
132I VAL 2.8 1.4 + - - -
133I VAL* 1.3 80.7 - - - +
135I MET* 1.3 61.7 + - - +
137I PHE* 3.5 2.6 + - - +
138I VAL* 2.8 28.3 + - - +
202I ALA* 4.1 2.2 - - - +
203I VAL* 3.5 30.5 - - + +
206I ILE* 3.5 14.1 - - + -
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Residues in contact with MET 135 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54I THR* 4.2 2.9 - - + +
57I ALA 3.7 6.1 - - - -
58I ALA* 3.3 36.6 - - + +
61I SER* 3.9 9.6 - - - -
131I ILE* 2.8 30.2 + - + +
132I VAL 2.8 3.0 + - - +
134I ALA* 1.3 68.4 - - - +
136I LEU* 1.3 70.2 + - - +
138I VAL* 3.1 9.0 + - - +
139I SER* 2.8 22.5 + - - -
196I GLY* 2.9 44.4 - - - +
197I ILE* 4.0 3.6 - - - +
199I GLU* 4.8 2.2 - - + -
203I VAL* 4.2 11.4 - - + -
212I ILE* 3.5 33.7 - - + -
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Residues in contact with LEU 136 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16H ILE* 4.8 4.9 - - + -
19H PHE* 3.3 35.9 - - + -
61I SER* 3.2 35.5 - - - +
64I ILE* 3.8 26.7 - - + -
65I ALA* 3.9 14.4 - - + +
132I VAL* 2.6 21.8 + - + +
133I VAL* 5.1 2.0 - - + -
135I MET* 1.3 69.6 - - - +
137I PHE* 1.3 55.4 + - - +
139I SER* 2.6 29.7 + - - +
140I VAL* 2.8 37.4 + - + -
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Residues in contact with PHE 137 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19H PHE* 3.2 20.5 - + + -
20H VAL* 3.4 46.1 - - + +
23H PRO* 4.2 9.0 - - + -
24H VAL* 3.8 20.9 - - + -
94I PRO* 3.0 63.1 - - + +
97I ILE* 3.9 8.1 - - + -
102I ALA* 3.9 31.2 - - + -
105I ALA* 6.4 0.4 - - + -
106I LEU* 4.2 11.0 - - + -
133I VAL 3.3 15.1 + - - +
134I ALA 3.7 3.4 - - - +
136I LEU* 1.3 77.3 - - - +
138I VAL* 1.3 64.8 + - + +
140I VAL* 4.4 3.0 - - - +
141I PRO* 3.8 4.0 - - - +
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Residues in contact with VAL 138 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94I PRO* 4.5 11.8 - - - +
99I HIS* 4.8 5.8 - - + +
102I ALA* 5.4 0.4 - - + -
134I ALA 2.8 22.9 - - - +
135I MET* 3.7 5.6 - - - +
136I LEU 2.7 4.9 + - - -
137I PHE* 1.3 85.1 - - + +
139I SER* 1.3 57.0 + - - +
141I PRO* 4.0 11.5 - - - +
142I ILE* 4.7 3.5 - - - +
195I ARG* 2.7 54.1 + - + +
196I GLY* 6.3 0.2 - - - -
199I GLU* 4.0 9.2 - - + +
202I ALA* 3.9 20.6 - - + -
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Residues in contact with SER 139 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61I SER* 3.9 8.3 + - - -
65I ALA* 5.8 0.4 - - - -
135I MET 2.8 18.2 + - - -
136I LEU* 2.6 15.7 + - - +
138I VAL* 1.3 72.9 - - - +
140I VAL* 1.3 65.5 + - - +
141I PRO* 3.3 3.8 - - - -
142I ILE* 2.9 16.6 + - - +
143I TYR 3.1 8.8 + - - -
192I SER* 3.4 37.4 + - - -
195I ARG* 3.6 17.0 - - - -
196I GLY 4.4 1.6 + - - -
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Residues in contact with VAL 140 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16H ILE* 3.8 25.1 - - + -
19H PHE* 4.7 2.0 - - + -
20H VAL* 4.4 11.9 - - + -
65I ALA* 4.8 12.6 - - + -
69I GLY* 5.8 1.6 - - - -
91I VAL* 5.4 3.4 - - + +
136I LEU* 2.8 56.2 + - + +
137I PHE* 4.3 4.3 - - - +
139I SER* 1.3 69.7 + - - +
141I PRO* 1.3 72.8 - - + +
143I TYR* 3.1 4.7 + - - +
144I ILE* 3.0 43.2 + - + +
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Residues in contact with PRO 141 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91I VAL* 3.2 34.5 - - + +
92I ASP* 4.5 5.4 - - - +
94I PRO* 3.8 17.7 - - + -
95I VAL* 4.2 20.9 - - + -
137I PHE 3.8 12.6 - - - +
138I VAL 4.0 11.2 - - - +
139I SER 3.3 0.9 - - - -
140I VAL* 1.3 97.8 - - + +
142I ILE* 1.3 72.1 + - + +
143I TYR 3.0 0.7 + - - -
145I ASN* 3.0 31.0 + - - +
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Residues in contact with ILE 142 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95H VAL* 6.0 5.6 - - + -
95I VAL* 6.5 0.4 - - + -
138I VAL 4.7 4.3 - - - +
139I SER* 2.9 14.7 + - - +
141I PRO* 1.3 85.6 - - + +
143I TYR* 1.3 61.8 + - - +
145I ASN* 4.3 4.1 - - - +
146I GLN* 3.6 17.8 + - - +
188I GLY 4.8 0.3 - - - +
191I MET* 3.8 18.6 - - + +
192I SER* 3.8 25.6 - - - +
195I ARG* 4.0 33.2 - - + +
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Residues in contact with TYR 143 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65I ALA* 4.2 15.3 - - + -
66I VAL* 3.5 36.6 - - + +
69I GLY* 4.5 3.1 - - - -
70I THR* 2.6 40.7 + - - -
139I SER 3.1 4.8 + - - +
140I VAL 3.1 7.6 + - - +
142I ILE* 1.3 74.6 - - - +
144I ILE* 1.3 82.4 + - + +
146I GLN* 2.8 15.2 + - - +
147I ALA* 2.8 26.6 + - + +
185I ILE* 3.0 47.4 - - + +
188I GLY* 3.4 26.5 - - - -
189I ALA* 3.4 5.4 - - - -
192I SER* 4.0 14.8 - - - -
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Residues in contact with ILE 144 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16H ILE* 5.6 2.0 - - + -
69I GLY* 4.0 25.4 - - - +
72I LEU* 3.6 27.6 - - + -
73I ALA* 3.6 17.8 - - + +
76I LEU* 4.4 13.5 - - + -
91I VAL* 4.0 23.1 - - + -
140I VAL* 3.0 35.3 + - + +
141I PRO* 3.7 4.5 - - + +
143I TYR* 1.3 82.9 - - + +
145I ASN* 1.3 58.1 + - - +
147I ALA* 3.0 6.2 + - - +
148I LYS* 2.7 36.3 + - + +
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Residues in contact with ASN 145 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
191H MET* 5.6 8.1 - - - +
91I VAL* 4.4 6.2 - - - +
92I ASP* 4.2 19.1 + - - +
141I PRO* 3.0 19.5 + - - +
142I ILE* 4.3 4.3 - - - +
144I ILE* 1.3 83.9 - - - +
146I GLN* 1.3 62.8 + - - +
148I LYS* 3.2 23.9 + - - +
149I GLU* 3.1 29.5 + - - +
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Residues in contact with GLN 146 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
142I ILE 3.6 8.1 + - - +
143I TYR 2.8 11.5 + - - +
145I ASN* 1.3 76.5 - - - +
147I ALA* 1.3 63.2 + - - +
149I GLU* 3.3 24.1 + - - +
150I GLY 3.1 16.3 + - - -
184I HIS* 3.7 35.1 + - - +
187I ALA* 4.1 8.8 - - - +
188I GLY* 3.5 16.2 - - - -
191I MET* 3.3 34.8 - - + +
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Residues in contact with ALA 147 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70I THR* 5.0 0.9 - - - -
73I ALA* 3.6 15.7 - - + -
143I TYR* 2.8 39.2 + - + +
144I ILE 3.4 7.2 - - - +
146I GLN* 1.3 77.5 - - - +
148I LYS* 1.3 62.8 + - - +
150I GLY* 3.1 9.7 + - - -
151I PHE* 3.1 29.5 + - + -
181I SER* 5.2 0.5 - - - -
184I HIS* 4.6 9.6 + - - -
185I ILE* 4.9 5.6 - - + +
188I GLY* 5.1 0.4 - - - -
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Residues in contact with LYS 148 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73I ALA* 3.8 24.2 - - + +
76I LEU* 4.5 21.3 - - + +
77I ALA* 3.8 20.4 - - + +
88I GLU* 4.4 14.2 + - - +
144I ILE* 2.7 17.6 + - + +
145I ASN* 3.3 29.4 + - - +
147I ALA* 1.3 68.5 - - - +
149I GLU* 1.3 66.2 + - + +
150I GLY 2.8 4.9 + - - -
151I PHE* 3.0 4.8 + - - +
152I ALA* 2.7 26.8 + - + +
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Residues in contact with GLU 149 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149H GLU* 4.2 24.3 - - - +
145I ASN* 3.1 14.6 + - - +
146I GLN* 3.7 25.9 + - - +
148I LYS* 1.3 80.9 - - + +
150I GLY* 1.3 64.4 + - - +
152I ALA* 3.6 10.0 - - + +
153I SER* 3.0 20.8 + - - -
184I HIS* 4.2 14.5 + - + +
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Residues in contact with GLY 150 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146I GLN 3.1 6.1 + - - -
147I ALA 3.1 6.8 + - - -
148I LYS 2.8 2.8 + - - -
149I GLU* 1.3 76.2 - - - +
151I PHE* 1.3 53.9 + - - -
153I SER* 2.6 35.2 + - - -
154I VAL 3.6 1.7 + - - -
181I SER* 3.4 12.3 - - - -
184I HIS* 3.2 35.2 - - - -
----------------------------------------------------------
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Residues in contact with PHE 151 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70I THR* 3.8 20.9 - - + -
73I ALA* 4.2 6.7 - - + -
74I TYR* 3.7 42.4 - + + -
77I ALA* 4.0 12.8 - - + -
78I ARG* 2.9 30.5 + - - +
147I ALA* 3.1 30.3 + - + -
148I LYS 3.0 4.5 + - - +
150I GLY* 1.3 73.4 - - - +
152I ALA* 1.3 62.4 + - - +
154I VAL* 3.1 11.5 + - - +
173I PHE* 3.8 13.7 - + - -
177I SER* 4.3 9.6 - - - -
178I LEU* 3.5 36.3 - - + -
181I SER* 3.5 20.3 - - - -
185I ILE* 4.4 6.3 - - + -
----------------------------------------------------------
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Residues in contact with ALA 152 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
77I ALA* 4.2 11.6 - - + +
78I ARG* 4.8 5.1 + - - +
148I LYS* 2.7 25.5 + - + +
149I GLU* 3.6 12.6 - - + +
151I PHE* 1.3 73.6 - - - +
153I SER* 1.3 60.1 + - - +
154I VAL 3.5 5.2 + - - +
----------------------------------------------------------
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Residues in contact with SER 153 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149I GLU 3.0 11.2 + - - -
150I GLY 2.6 20.4 + - - -
152I ALA* 1.3 78.6 - - - +
154I VAL* 1.3 62.9 + - - +
155I ASP 3.5 2.6 + - - -
180I LEU 4.9 3.5 + - - -
184I HIS* 3.7 20.6 + - - -
----------------------------------------------------------
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Residues in contact with VAL 154 (chain I).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78I ARG* 3.4 14.4 + - - +
150I GLY 4.2 9.0 - - - +
151I PHE* 3.1 11.9 + - - +
152I ALA 4.1 4.2 - - - +
153I SER* 1.3 79.5 - - - +
155I ASP* 1.3 73.7 + - - +
156I VAL* 3.0 6.8 + - - +
158I LEU* 4.2 5.2 - - + -
159I GLU* 3.8 17.9 - - - +
176I VAL* 4.7 3.4 - - + -
177I SER* 4.0 11.7 - - - +
180I LEU* 3.4 54.5 - - + -
181I SER* 4.2 2.7 - - - +
----------------------------------------------------------
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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