Contacts of the helix formed by residues 126 - 151 (chain B) in PDB entry 4V2G
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 SER 126 (chain B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121B THR* 4.6 0.3 - - - +
124B GLY 3.7 3.8 + - - -
125B PHE* 1.3 75.8 - - - +
127B LEU* 1.3 64.2 + - - +
128B ARG* 3.1 11.7 + - - +
129B ASP* 3.2 31.4 + - - +
130B GLY* 2.8 20.3 + - - -
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Residues in contact with LEU 127 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
169A LEU* 4.0 34.1 - - + +
172A GLU* 3.0 51.8 - - + +
173A ALA* 4.6 6.1 - - + +
176A ILE* 4.7 7.0 - - + -
117B LEU* 4.1 29.4 - - + +
121B THR* 3.9 20.1 - - + +
125B PHE 3.5 1.4 + - - -
126B SER* 1.3 72.8 - - - +
128B ARG* 1.3 62.9 + - - +
130B GLY* 3.5 1.4 + - - -
131B LEU* 3.1 22.6 + - + +
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Residues in contact with ARG 128 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
176A ILE* 4.2 35.7 - - + +
179A SER* 5.9 1.8 + - - -
184A GLN* 3.8 25.7 + - - +
126B SER* 3.0 8.4 + - - +
127B LEU* 1.3 79.5 - - - +
129B ASP* 1.3 67.5 + - - +
131B LEU* 3.1 7.5 + - - +
132B TYR* 2.9 63.9 + - + -
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Residues in contact with ASP 129 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
188A HIS* 4.1 22.0 + - - +
125B PHE* 3.9 17.4 - - + -
126B SER* 3.2 22.4 + - - +
128B ARG* 1.3 90.4 - - - +
130B GLY* 1.3 56.9 + - - +
132B TYR* 3.6 8.2 + - - +
133B ALA* 3.0 27.9 + - - +
197B PHE* 5.7 0.7 - - - -
200B GLN* 3.5 22.9 - - + +
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Residues in contact with GLY 130 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
117B LEU* 4.9 3.8 - - - -
120B MET* 4.2 15.5 - - - +
121B THR* 6.2 0.4 - - - -
125B PHE* 3.8 20.5 - - - +
126B SER 2.8 16.1 + - - -
127B LEU* 3.9 1.3 - - - -
129B ASP* 1.3 76.3 - - - +
131B LEU* 1.3 58.8 + - - +
133B ALA* 3.5 3.4 + - - +
134B ILE* 3.0 32.9 + - - +
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Residues in contact with LEU 131 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
173A ALA* 3.8 35.7 - - + +
176A ILE* 4.0 24.5 - - + -
177A MET* 4.3 21.5 - - + -
117B LEU* 4.3 12.9 - - + +
127B LEU* 3.1 18.5 + - + +
128B ARG 3.5 3.1 - - - +
130B GLY* 1.3 74.5 - - - +
132B TYR* 1.3 60.6 + - + +
134B ILE* 3.1 3.3 + - + +
135B SER* 2.7 51.2 + - - +
222B CTC 4.4 27.6 - - + -
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Residues in contact with TYR 132 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
176A ILE* 4.3 19.0 - - + +
177A MET* 5.3 2.5 - - + -
184A GLN* 3.3 37.9 + - + +
185A ALA* 3.4 40.6 - - + +
188A HIS* 3.6 42.8 - + + -
189A GLY* 5.4 1.0 - - - +
128B ARG* 2.9 54.0 + - + +
129B ASP* 3.8 5.4 - - - +
131B LEU* 1.3 82.6 - - + +
133B ALA* 1.3 62.9 + - - +
135B SER* 3.8 3.7 - - - -
136B ALA* 2.9 26.7 + - - +
197B PHE* 4.4 2.4 - - - -
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Residues in contact with ALA 133 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79B LEU* 4.7 3.8 - - + -
120B MET* 4.2 18.2 - - + -
125B PHE* 4.7 5.8 - - + -
129B ASP 3.0 18.0 + - - +
130B GLY 3.7 4.5 - - - +
131B LEU 3.2 0.2 - - - -
132B TYR* 1.3 77.2 - - - +
134B ILE* 1.3 62.5 + - - +
136B ALA* 3.6 1.7 - - - +
137B VAL* 3.1 27.8 + - - +
197B PHE* 3.5 38.3 - - + -
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Residues in contact with ILE 134 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78B PHE* 5.4 3.4 - - + -
79B LEU* 4.1 21.8 - - + -
116B GLN* 4.1 29.2 - - + +
117B LEU* 4.6 10.8 - - + +
120B MET* 3.9 25.4 - - + -
130B GLY 3.0 16.7 + - - +
131B LEU* 3.1 5.6 + - - +
133B ALA* 1.3 76.6 - - - +
135B SER* 1.3 60.5 + - - +
137B VAL* 3.7 6.5 + - - +
138B SER* 3.1 20.4 + - - -
222B CTC 3.5 50.5 - - + -
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Residues in contact with SER 135 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
177A MET* 3.7 17.1 - - - +
185A ALA* 5.0 5.8 - - - -
131B LEU* 2.7 38.3 + - - +
132B TYR* 3.8 6.5 - - - -
134B ILE* 1.3 71.4 - - - +
136B ALA* 1.3 56.5 + - - +
138B SER* 2.8 9.8 + - - -
139B HIS* 2.7 55.3 + - - -
222B CTC 5.3 3.6 - - - +
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Residues in contact with ALA 136 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140A PHE* 3.7 26.4 - - + -
185A ALA 5.5 1.3 - - - +
189A GLY* 4.3 11.2 - - - -
132B TYR 2.9 18.8 + - - +
133B ALA 3.6 3.8 - - - +
135B SER* 1.3 73.2 - - - +
137B VAL* 1.3 66.3 + - - +
139B HIS* 4.7 0.9 - - - -
140B PHE* 3.0 27.2 + - - +
193B LEU* 4.2 8.3 - - + -
197B PHE* 3.7 19.1 - - + -
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Residues in contact with VAL 137 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79B LEU* 4.6 27.8 - - + +
82B ASN* 5.3 0.7 - - - +
83B ALA* 3.6 31.6 - - + +
133B ALA 3.1 11.6 + - - +
134B ILE* 3.8 9.4 - - - +
136B ALA* 1.3 77.9 - - - +
138B SER* 1.3 60.4 - - - +
140B PHE* 4.0 1.5 - - - +
141B THR* 2.7 35.5 + - - +
190B LEU* 4.6 11.0 - - + -
193B LEU* 4.1 19.9 - - + +
194B ILE* 5.4 2.0 - - + -
197B PHE* 4.5 8.3 - - + -
222B CTC 4.7 13.0 - - - -
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Residues in contact with SER 138 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147A GLU* 5.7 2.5 - - - -
86B PHE* 4.2 13.8 - - - -
134B ILE 3.1 14.6 + - - -
135B SER* 2.8 13.4 + - - -
137B VAL* 1.3 80.7 - - - +
139B HIS* 1.3 68.4 + - - -
141B THR* 3.4 2.6 + - - -
142B LEU* 3.0 25.1 + - - +
222B CTC 3.4 45.0 + - - +
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Residues in contact with HIS 139 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139A HIS 4.0 0.3 - - - +
140A PHE* 4.1 15.3 - - + +
143A GLY* 3.7 9.7 - - - -
144A ALA* 3.6 39.7 - - + +
147A GLU* 3.9 33.6 + - + +
177A MET* 5.4 9.0 - - + +
185A ALA* 5.8 4.9 - - + +
135B SER* 2.7 38.8 + - - +
136B ALA* 4.0 2.9 - - - +
138B SER* 1.3 75.6 - - - +
140B PHE* 1.3 66.4 + - - +
142B LEU* 3.3 5.9 + - + +
143B GLY* 3.0 20.8 + - - -
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Residues in contact with PHE 140 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136A ALA* 3.8 40.8 - - + -
139A HIS* 4.2 9.7 - - + +
140A PHE* 3.9 22.1 - - + +
193A LEU* 5.5 3.1 - - + -
136B ALA 3.0 18.6 + - - +
137B VAL 4.0 2.0 - - - +
139B HIS* 1.3 76.8 - - - +
141B THR* 1.3 66.6 + - - +
143B GLY* 3.4 0.9 + - - -
144B ALA* 3.0 25.3 + - + +
185B ALA 4.4 1.8 - - - -
186B PHE* 3.5 54.7 - + - -
189B GLY* 3.9 13.7 - - - -
190B LEU* 3.8 14.4 - - + -
193B LEU* 4.1 22.4 - - + -
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Residues in contact with THR 141 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83B ALA* 4.0 17.4 - - - +
86B PHE* 3.8 24.2 - - + -
87B ARG* 4.0 29.2 - - + +
90B LEU* 4.9 1.3 - - + -
137B VAL* 2.7 24.3 + - - +
138B SER 3.7 3.6 - - - -
140B PHE* 1.3 79.5 - - - +
142B LEU* 1.3 62.3 + - - +
144B ALA* 3.3 2.4 + - - +
145B VAL* 3.0 25.4 + - + +
186B PHE* 3.7 24.1 - - + -
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Residues in contact with LEU 142 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143A GLY* 4.8 5.6 - - - +
147A GLU* 3.7 29.2 - - + +
86B PHE* 3.7 20.6 - - + -
90B LEU* 3.4 30.3 - - + -
97B ALA* 4.6 6.4 - - + +
100B HIS* 4.0 13.9 - - + -
101B LEU* 3.4 32.5 - - + -
138B SER 3.0 15.3 + - - +
139B HIS* 3.5 6.3 - - + +
141B THR* 1.3 79.2 - - - +
143B GLY* 1.3 59.7 + - - +
145B VAL* 3.7 1.6 - - - +
146B LEU* 2.8 36.8 + - + +
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Residues in contact with GLY 143 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139A HIS* 3.6 27.9 - - - -
142A LEU* 4.9 4.1 - - - +
143A GLY* 4.2 10.1 - - - -
139B HIS 3.0 8.6 + - - -
142B LEU* 1.3 77.5 - - - +
144B ALA* 1.3 61.5 + - - +
146B LEU* 3.8 8.5 - - - +
147B GLU* 3.2 29.3 + - - +
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Residues in contact with ALA 144 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139A HIS* 3.6 27.9 - - + +
87B ARG* 5.8 2.6 + - - +
140B PHE* 3.0 21.9 + - + +
141B THR 3.7 3.8 - - - +
142B LEU 3.2 0.2 - - - -
143B GLY* 1.3 73.4 - - - +
145B VAL* 1.3 66.2 + - + +
147B GLU* 4.1 2.1 - - - +
148B GLN* 3.3 21.1 + - - +
182B GLY 5.9 0.4 - - - +
186B PHE* 4.2 28.5 - - + -
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Residues in contact with VAL 145 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
87B ARG* 3.7 46.0 - - + +
90B LEU* 4.0 17.0 - - + -
91B LEU* 4.1 13.0 - - + -
97B ALA* 3.8 19.5 - - + -
141B THR* 3.0 18.0 + - + +
142B LEU 3.7 3.1 - - - +
144B ALA* 1.3 76.4 - - - +
146B LEU* 1.3 60.3 + - - +
148B GLN* 3.1 8.1 + - - +
149B GLN* 2.9 42.7 + - - +
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Residues in contact with LEU 146 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101A LEU* 4.2 18.2 - - + -
142A LEU* 5.3 1.3 - - + -
143A GLY* 5.3 0.7 - - - -
146A LEU* 3.1 35.7 - - + -
97B ALA* 3.6 25.6 - - + -
98B LYS* 3.7 30.5 - - + +
101B LEU* 4.2 15.0 - - + -
142B LEU* 2.8 29.9 + - + +
143B GLY* 3.8 8.3 - - - +
145B VAL* 1.3 73.8 - - - +
147B GLU* 1.3 57.5 + - + +
149B GLN* 4.1 4.8 - - + +
150B GLU* 2.9 33.8 + - - +
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Residues in contact with GLU 147 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100A HIS* 4.6 13.5 + - - -
101A LEU* 4.6 9.0 - - + +
138A SER* 6.1 0.3 - - - -
139A HIS* 3.7 36.7 - - + +
142A LEU* 4.0 23.8 - - + +
222A ITC 4.5 21.2 - - + +
143B GLY 3.2 10.5 + - - +
144B ALA 4.3 2.5 - - - +
145B VAL 3.3 0.4 - - - -
146B LEU* 1.3 74.8 - - - +
148B GLN* 1.3 65.3 + - - +
150B GLU* 4.2 3.6 - - - -
151B HIS* 3.1 54.2 + - - +
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Residues in contact with GLN 148 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
87B ARG* 3.0 27.7 + - - -
91B LEU* 3.2 30.3 - - + +
144B ALA 3.3 13.9 + - - +
145B VAL* 3.1 10.3 + - - +
147B GLU* 1.3 78.2 - - - +
149B GLN* 1.3 65.2 + - - +
151B HIS 3.3 11.7 + - - +
152B THR* 3.3 18.0 + - - +
181B ASP* 3.0 43.5 + - + +
182B GLY* 4.9 0.5 - - - -
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Residues in contact with GLN 149 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
90B LEU 3.0 23.8 + - - -
91B LEU* 3.5 27.4 + - + +
93B TYR 3.2 14.8 + - - -
94B ARG* 4.8 1.2 - - - +
95B ASP* 3.8 19.6 - - - +
96B GLY 3.6 5.9 + - - -
97B ALA* 3.3 29.6 + - - +
98B LYS* 4.7 0.3 + - - +
145B VAL* 2.9 21.6 + - - +
146B LEU* 4.1 5.1 - - + +
148B GLN* 1.3 74.8 - - - +
150B GLU* 1.3 68.3 + - - +
152B THR* 3.7 11.3 + - - -
153B ALA* 5.2 0.9 - - - +
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Residues in contact with GLU 150 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101A LEU* 3.5 43.3 - - + +
102A GLY* 4.2 17.6 - - - -
98B LYS* 2.9 36.9 + - - -
146B LEU* 2.9 15.3 + - + +
147B GLU* 4.5 2.7 - - - +
149B GLN* 1.3 79.2 - - - +
151B HIS* 1.3 62.6 + - + +
152B THR 2.8 0.4 + - - -
153B ALA* 2.6 48.7 + - - +
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Residues in contact with HIS 151 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101A LEU 3.7 14.0 + - - -
102A GLY 4.7 2.7 - - - -
103A THR 3.1 34.8 + - - -
104A ARG* 3.0 46.7 + - + +
222A ITC 5.2 0.6 - + - -
147B GLU* 3.1 39.2 + - - +
148B GLN 3.3 8.1 + - - +
150B GLU* 1.3 81.3 + - + +
152B THR* 1.3 61.4 + - - +
153B ALA 3.5 8.4 + - - +
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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