Contacts of the helix formed by residues 132 - 160 (chain F) in PDB entry 5VOT
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 HIS 132 (chain F).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
130F THR 2.8 5.5 + - - -
131F ARG* 1.3 81.2 - - + +
133F ASN* 1.3 72.9 + - - +
134F ILE 3.5 1.9 + - - -
135F ILE* 4.2 2.0 + - - +
136F LEU* 3.3 28.0 + - + +
205F HIS* 4.2 23.8 - - + -
208F LEU* 5.4 6.1 - - + -
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Residues in contact with ASN 133 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
130F THR* 3.6 9.6 + - - +
132F HIS* 1.3 84.7 - - - +
134F ILE* 1.3 69.0 + - + +
136F LEU* 3.8 3.9 - - - +
137F SER* 2.9 30.7 + - - -
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Residues in contact with ILE 134 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121F CYS* 3.7 27.8 - - + +
124F ALA* 5.0 4.3 - - + -
125F SER* 3.8 19.1 - - - +
128F TYR* 5.3 8.5 - - + +
129F LYS 5.3 0.9 - - - +
130F THR* 3.2 34.2 + - + +
132F HIS 3.5 0.6 - - - -
133F ASN* 1.3 81.2 - - + +
135F ILE* 1.3 68.5 + - - +
137F SER* 2.4 27.1 + - - +
138F ALA* 2.9 8.5 + - + +
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Residues in contact with ILE 135 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
122F ILE* 6.6 0.2 - - - -
125F SER* 4.9 11.8 - - - -
130F THR 5.4 1.0 + - - -
131F ARG 5.3 7.4 + - - +
132F HIS 4.2 3.7 + - - +
133F ASN 3.6 0.2 - - - -
134F ILE* 1.3 79.2 - - - +
136F LEU* 1.3 64.1 + - - +
138F ALA* 3.6 4.0 + - - +
139F GLY* 2.9 21.7 + - - -
197F ALA* 5.3 8.2 - - - +
198F VAL* 6.0 0.3 - - - +
200F MET* 6.5 0.7 - - + -
201F PHE* 4.6 18.6 - - + +
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Residues in contact with LEU 136 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
542A LEU* 5.5 3.8 - - + -
546A PHE* 3.5 40.8 - - + -
132F HIS* 3.3 23.0 + - + +
133F ASN* 3.6 4.0 + - - +
134F ILE 3.2 0.4 - - - -
135F ILE* 1.3 77.9 - - - +
137F SER* 1.3 63.4 + - - +
139F GLY* 3.3 2.4 + - - -
140F ILE* 2.9 34.5 + - + +
198F VAL* 5.2 14.2 - - + +
201F PHE* 3.4 26.2 - - + -
202F ILE* 5.2 4.7 - - + +
205F HIS* 3.3 29.2 - - + +
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Residues in contact with SER 137 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121F CYS* 5.6 2.4 - - - +
133F ASN* 2.9 15.5 + - - -
134F ILE* 2.4 36.5 + - - +
136F LEU* 1.3 74.6 - - - +
138F ALA* 1.3 65.4 + - - +
140F ILE* 2.9 21.8 + - - +
141F PHE* 3.0 30.7 + - - -
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Residues in contact with ALA 138 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
117F MET 4.8 1.6 - - - +
118F GLY* 4.5 6.1 - - - +
121F CYS* 3.7 33.9 - - + +
122F ILE* 4.2 21.3 - - + -
125F SER* 6.4 0.2 - - - -
134F ILE 2.9 11.9 + - - +
135F ILE* 4.2 3.8 - - - +
137F SER* 1.3 79.6 + - - +
139F GLY* 1.3 57.5 + - - +
141F PHE* 3.8 6.6 - - - +
142F PHE* 2.8 33.2 + - - +
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Residues in contact with GLY 139 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
135F ILE 2.9 19.3 + - - -
136F LEU 3.6 1.3 - - - -
137F SER 3.1 0.2 - - - -
138F ALA* 1.3 77.2 - - - +
140F ILE* 1.3 62.2 + - - +
142F PHE* 3.2 5.7 + - - +
143F VAL* 2.9 31.2 + - - +
197F ALA* 4.4 20.0 - - - -
198F VAL* 4.7 11.2 - - - -
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Residues in contact with ILE 140 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
542A LEU* 4.1 27.1 - - + -
546A PHE* 5.6 9.2 - - + -
808B LEU* 5.5 4.7 - - + -
811B LEU* 3.7 39.9 - - + -
136F LEU* 2.9 30.8 + - + +
137F SER* 2.9 8.9 + - - +
139F GLY* 1.3 76.1 - - - +
141F PHE* 1.3 79.7 + - + +
142F PHE 3.0 0.5 + - - -
143F VAL* 3.2 2.3 + - - +
144F SER* 2.9 31.8 + - - +
198F VAL* 5.8 0.7 - - + -
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Residues in contact with PHE 141 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
808B LEU* 5.1 13.5 - - + -
114F LEU* 4.1 26.2 - - + +
117F MET* 5.6 14.6 - - + -
118F GLY* 6.3 0.9 - - - +
121F CYS* 6.3 3.4 - - - -
137F SER* 3.0 29.6 + - - +
138F ALA* 4.3 5.8 - - - +
140F ILE* 1.3 92.6 - - + +
142F PHE* 1.3 56.2 + - - +
144F SER* 3.1 9.1 + - - -
145F ALA* 2.9 26.5 + - - +
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Residues in contact with PHE 142 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16F GLY 5.2 8.7 - - - -
17F ALA* 5.6 6.3 - - - -
20F ALA* 5.7 0.4 - - + -
114F LEU 5.3 2.7 - - - -
115F LEU* 3.6 30.9 - - + +
118F GLY* 4.5 19.5 - - - -
122F ILE* 5.5 10.5 - - + -
138F ALA 2.8 22.3 + - - +
139F GLY* 3.4 5.2 - - - +
140F ILE 3.0 0.2 - - - -
141F PHE* 1.3 77.2 - - - +
143F VAL* 1.3 65.8 + - + +
145F ALA* 3.0 7.9 - - - +
146F GLY* 3.0 17.0 + - - -
190F ALA* 2.9 42.5 - - + +
193F VAL* 3.5 16.2 - - + -
194F GLY* 3.2 28.0 - - - -
197F ALA* 5.4 2.5 - - + -
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Residues in contact with VAL 143 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
538A VAL* 3.9 22.0 - - + -
539A VAL* 4.4 19.1 - - + -
542A LEU* 5.9 7.4 - - + -
139F GLY 2.9 20.7 + - - +
140F ILE* 4.0 3.6 - - - +
142F PHE* 1.3 71.8 - - - +
144F SER* 1.3 60.6 + - - +
146F GLY* 2.7 22.5 + - - -
147F LEU* 2.9 12.2 + - + +
190F ALA 6.2 0.2 - - - -
191F GLU* 3.5 26.0 - - - +
194F GLY* 3.8 31.2 - - - +
198F VAL* 5.3 5.4 - - + -
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Residues in contact with SER 144 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
804B GLY* 6.4 0.7 - - - -
114F LEU* 4.7 5.4 - - - +
140F ILE* 2.9 24.2 + - - -
141F PHE* 3.1 17.3 + - - -
143F VAL* 1.3 77.1 - - - +
145F ALA* 1.3 58.8 + - - +
147F LEU* 3.0 22.4 + - - +
148F SER* 2.9 26.2 + - - -
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Residues in contact with ALA 145 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
111F SER* 4.1 3.5 - - - +
114F LEU* 3.4 32.8 - - + -
115F LEU* 4.3 14.1 - - + +
141F PHE 2.9 20.1 + - - +
142F PHE* 3.0 17.3 - - - +
143F VAL 3.1 0.2 - - - -
144F SER* 1.3 76.5 + - - +
146F GLY* 1.3 59.9 + - - +
148F SER* 2.2 30.7 + - - +
149F ASN* 2.9 7.2 + - - +
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Residues in contact with GLY 146 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
115F LEU* 5.6 1.2 - - - +
142F PHE 3.0 9.9 + - - -
143F VAL 2.7 9.9 + - - -
145F ALA* 1.3 71.1 - - - +
147F LEU* 1.3 61.2 + - - -
149F ASN* 2.9 18.9 + - - +
150F ILE* 3.0 18.0 + - - +
187F PHE* 4.7 6.9 - - - +
190F ALA* 5.2 6.7 - - - -
191F GLU* 3.0 24.7 - - - -
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Residues in contact with LEU 147 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
535A GLY* 4.5 22.4 - - - -
539A VAL* 4.0 25.1 - - + -
800B VAL* 5.7 9.0 - - + +
803B LEU* 5.8 6.3 - - + -
804B GLY* 4.4 24.5 - - - +
143F VAL* 2.9 15.1 + - + +
144F SER* 3.0 23.1 + - - +
146F GLY* 1.3 74.3 - - - +
148F SER* 1.3 62.8 + - - +
149F ASN 3.3 0.2 + - - -
150F ILE* 3.3 10.1 + - + +
151F ILE* 2.9 42.0 + - + +
191F GLU* 5.2 4.0 - - - +
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Residues in contact with SER 148 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
107F PHE* 4.1 14.9 - - - +
110F LEU* 4.6 7.2 - - - -
111F SER* 3.4 22.8 - - - -
114F LEU* 3.8 12.9 - - - +
144F SER 2.9 10.7 + - - -
145F ALA* 2.2 31.1 + - - -
147F LEU* 1.3 75.6 - - - +
149F ASN* 1.3 56.2 + - - +
151F ILE* 3.9 8.2 - - - +
152F GLY* 2.9 26.5 + - - -
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Residues in contact with ASN 149 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
107F PHE 5.4 0.2 - - - -
108F PRO* 5.4 3.9 - - - +
111F SER* 4.0 18.8 - - - +
115F LEU* 6.5 0.7 - - + -
145F ALA 2.9 10.3 + - - +
146F GLY* 2.9 13.5 + - - +
148F SER* 1.3 77.6 + - - +
150F ILE* 1.3 63.5 + - - +
152F GLY* 3.1 3.6 + - - -
153F ILE* 2.9 30.0 + - + +
183F GLY 5.7 1.6 - - - +
187F PHE* 4.0 20.2 - - + -
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Residues in contact with ILE 150 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
528A CYS 5.4 0.9 - - - +
531A PHE* 3.6 59.9 - - + +
532A ALA* 4.8 4.3 - - + +
534A ILE* 4.2 13.0 - - + -
535A GLY* 5.4 1.6 - - - -
146F GLY 3.0 18.0 + - - +
147F LEU* 4.0 12.3 - - + +
149F ASN* 1.3 74.4 - - - +
151F ILE* 1.3 66.0 + - + +
153F ILE* 3.0 12.7 + - + +
154F ILE* 2.9 38.5 + - + +
187F PHE* 4.2 17.7 - - + -
188F ILE* 6.3 0.9 - - + -
191F GLU* 4.7 10.1 - - + +
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Residues in contact with ILE 151 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
797B TYR* 4.7 21.1 - - + +
800B VAL* 4.3 20.4 - - + +
801B GLY* 4.3 24.7 - - - +
107F PHE* 3.6 29.4 - - + -
147F LEU* 2.9 34.5 + - + +
148F SER* 3.9 6.1 - - - +
150F ILE* 1.3 76.2 - - + +
152F GLY* 1.3 62.5 + - - +
154F ILE* 3.1 16.2 + - + +
155F VAL* 2.9 19.4 + - - +
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Residues in contact with GLY 152 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
107F PHE* 3.6 27.3 - - - +
108F PRO* 4.4 13.4 - - - +
148F SER 2.9 13.0 + - - -
149F ASN 3.5 3.8 - - - -
151F ILE* 1.3 77.2 - - - +
153F ILE* 1.3 62.8 + - - +
155F VAL* 2.9 14.5 + - - +
156F TYR* 2.9 13.7 + - - +
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Residues in contact with ILE 153 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
528A CYS* 5.3 2.0 - - - -
531A PHE* 4.7 16.4 - - + -
149F ASN* 2.9 18.0 + - + +
150F ILE* 3.0 18.6 + - + +
152F GLY* 1.3 73.5 - - - +
154F ILE* 1.3 64.0 + - + +
156F TYR* 3.1 7.9 + - - +
157F ILE* 2.9 35.0 + - + +
180F PHE* 3.6 33.4 - - + -
183F GLY* 4.7 4.7 - - - +
184F ALA* 4.1 32.3 - - + +
187F PHE* 5.1 2.2 - - + -
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Residues in contact with ILE 154 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
528A CYS* 4.7 17.0 - - + -
531A PHE* 6.1 0.2 - - + -
532A ALA* 6.4 1.3 - - + -
793B ALA* 4.5 14.6 - - + +
796B PHE* 3.9 48.7 - - + -
797B TYR* 4.5 11.4 - - + +
800B VAL* 5.1 7.0 - - + -
150F ILE* 2.9 34.9 + - + +
151F ILE* 3.2 22.9 - - + +
153F ILE* 1.3 77.0 - - + +
155F VAL* 1.3 63.2 + - - +
157F ILE* 4.3 3.7 - - - +
158F SER* 2.9 28.4 + - - -
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Residues in contact with VAL 155 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
797B TYR* 5.7 7.8 - - + +
98F LEU* 6.2 4.0 - - + -
101F VAL* 5.8 4.0 - - + +
102F ARG* 4.5 16.9 - - + +
107F PHE* 4.5 13.5 - - + -
108F PRO* 6.4 0.2 - - + -
151F ILE 2.9 11.4 + - - +
152F GLY* 2.9 14.6 + - - +
154F ILE* 1.3 76.6 - - - +
156F TYR* 1.3 60.1 + - - +
158F SER* 2.2 25.3 + - - -
159F ALA* 2.9 12.5 + - - +
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Residues in contact with TYR 156 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32F TYR* 3.8 23.2 + - + +
33F TRP* 3.1 27.8 - - + +
61F SER* 4.8 1.9 + - - -
63F LEU* 3.6 49.6 + - + -
102F ARG* 5.5 3.6 - - + -
152F GLY 2.9 11.6 + - - +
153F ILE* 3.1 9.6 + - - +
155F VAL* 1.3 77.9 - - - +
157F ILE* 1.3 68.8 + - + +
158F SER 3.1 0.9 + - - -
159F ALA* 3.2 3.7 + - + +
160F ASN* 2.6 66.6 + - - -
176F TYR* 4.9 10.5 - + - -
180F PHE* 4.8 12.8 - + - -
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Residues in contact with ILE 157 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
524A GLU* 4.5 17.9 - - + +
527A MET* 6.4 0.4 - - + -
528A CYS* 4.2 22.2 - - - -
531A PHE* 6.0 0.7 - - + -
790B SER* 5.2 6.0 - - - -
153F ILE* 2.9 39.6 + - + +
154F ILE* 4.3 3.1 - - - +
156F TYR* 1.3 78.2 - - + +
158F SER* 1.3 64.6 + - - +
160F ASN* 3.6 16.6 + - - +
161F ALA* 4.4 2.8 + - - +
174F TYR* 5.3 2.2 - - - +
176F TYR* 3.5 33.7 - - + +
180F PHE* 3.9 13.9 - - + -
----------------------------------------------------------
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Residues in contact with SER 158 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
790B SER* 4.7 14.1 + - - -
793B ALA* 4.3 20.4 - - - -
797B TYR* 5.8 6.3 - - - -
98F LEU* 4.9 15.4 - - - +
154F ILE* 2.9 16.5 + - - -
155F VAL* 2.2 33.8 + - - -
157F ILE* 1.3 79.1 - - - +
159F ALA* 1.3 66.1 + - - +
160F ASN 3.0 1.7 + - - -
161F ALA* 3.2 16.5 + - - +
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Residues in contact with ALA 159 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
98F LEU* 5.3 14.1 - - + +
99F ARG* 5.5 4.7 - - - -
102F ARG* 3.5 31.9 - - + -
155F VAL 2.9 8.9 + - - +
156F TYR* 4.1 3.1 - - + +
158F SER* 1.3 80.3 + - - +
160F ASN* 1.3 58.3 + - - +
161F ALA 2.9 12.6 + - - -
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Residues in contact with ASN 160 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63F LEU* 5.3 0.9 - - - +
156F TYR* 2.6 71.9 + - - +
157F ILE* 3.6 11.7 - - - +
158F SER 3.0 2.0 + - - -
159F ALA* 1.3 76.6 - - - +
161F ALA* 1.3 58.3 + - - +
174F TYR* 5.5 10.0 + - + +
176F TYR* 5.7 1.8 - - - -
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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