Contacts of the helix formed by residues 114 - 140 (chain C) in PDB entry 3G4C
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 PRO 114 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112C THR 4.6 1.3 - - - +
113C ILE* 1.3 90.3 - - + +
115C PRO* 1.3 67.7 - - + +
116C GLU* 3.7 17.7 - - + +
117C ARG* 2.7 46.3 + - + +
118C VAL* 3.4 3.8 + - - +
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Residues in contact with PRO 115 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
103C PRO* 3.6 37.5 - - + +
106C LEU* 4.6 16.6 - - + +
107C GLU* 5.5 3.6 - - + +
111C THR* 4.9 8.3 - - - +
113C ILE 3.5 3.1 - - - +
114C PRO* 1.3 81.5 - - + +
116C GLU* 1.3 66.0 + - - +
118C VAL* 3.2 16.5 + - + +
119C THR* 3.0 28.6 + - - -
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Residues in contact with GLU 116 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
103C PRO* 4.3 17.2 - - + +
114C PRO* 3.1 19.1 - - + +
115C PRO* 1.3 86.9 - - - +
117C ARG* 1.3 60.2 + - + +
119C THR* 3.4 9.1 + - - -
120C GLU* 3.0 25.6 + - - +
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Residues in contact with ARG 117 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
113C ILE* 4.0 18.2 - - + -
114C PRO* 2.7 42.2 + - + +
116C GLU* 1.3 72.8 - - - +
118C VAL* 1.3 59.5 + - - +
120C GLU* 3.7 22.1 + - - +
121C LYS* 2.8 37.3 + - + +
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Residues in contact with VAL 118 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136B LEU* 4.1 7.0 - - + -
141B VAL* 3.9 26.5 - - + -
101C PRO* 6.2 0.9 - - + -
106C LEU* 3.4 29.4 - - + -
111C THR* 5.2 3.6 - - - +
113C ILE* 3.7 29.2 - - + +
114C PRO 3.4 4.0 + - - +
115C PRO* 3.2 14.3 + - + +
117C ARG* 1.3 77.6 - - - +
119C THR* 1.3 62.5 + - - +
121C LYS* 3.3 4.7 + - - +
122C ILE* 2.9 48.0 + - + +
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Residues in contact with THR 119 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100C ILE* 3.5 26.3 - - + +
101C PRO 3.3 17.3 + - - +
102C SER 4.3 0.3 - - - -
103C PRO* 3.9 17.6 - - + +
115C PRO 3.0 13.1 + - - -
116C GLU* 3.5 10.5 - - - +
118C VAL* 1.3 77.5 - - - +
120C GLU* 1.3 58.6 + - - +
122C ILE* 3.2 4.9 + - - +
123C SER* 2.8 34.8 + - - -
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Residues in contact with GLU 120 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
116C GLU 3.0 17.5 + - - +
117C ARG* 3.7 26.2 + - - +
118C VAL 3.3 0.2 - - - -
119C THR* 1.3 77.3 - - - +
121C LYS* 1.3 57.1 + - - +
123C SER* 3.7 5.2 - - - -
124C GLU* 2.9 35.1 + - + +
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Residues in contact with LYS 121 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132B THR* 4.3 12.6 + - + +
135B GLU* 2.4 47.1 + - - +
136B LEU* 4.1 21.3 - - + -
113C ILE* 4.8 9.4 - - + -
117C ARG* 2.8 33.0 + - + +
118C VAL 3.6 4.0 - - - +
120C GLU* 1.3 73.8 - - + +
122C ILE* 1.3 62.6 + - - +
124C GLU* 3.4 18.9 + - - +
125C ILE* 3.2 26.4 + - - +
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Residues in contact with ILE 122 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136B LEU* 3.9 21.3 - - + -
145B VAL* 4.5 10.5 - - + +
148B ILE* 4.6 5.4 - - + -
149B VAL* 3.8 17.7 - - + -
100C ILE* 4.0 11.9 - - + -
101C PRO* 3.9 33.2 - - + -
118C VAL* 2.9 39.5 + - + +
119C THR* 3.8 5.8 - - - +
121C LYS* 1.3 74.8 - - - +
123C SER* 1.3 64.0 + - - +
125C ILE* 3.2 12.2 - - - +
126C VAL* 3.2 21.8 + - + +
153C ASN* 3.9 20.0 - - - +
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Residues in contact with SER 123 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
96C TYR* 4.8 3.1 + - - -
100C ILE* 4.2 23.8 - - - +
119C THR* 2.8 21.2 + - - -
120C GLU* 3.7 6.3 - - - -
122C ILE* 1.3 78.1 - - - +
124C GLU* 1.3 62.2 + - - +
126C VAL* 3.4 4.1 + - - +
127C ASP* 3.1 23.4 + - - +
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Residues in contact with GLU 124 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132B THR* 6.1 0.4 - - - +
120C GLU* 2.9 21.8 + - + +
121C LYS* 3.5 22.0 - - - +
123C SER* 1.3 76.1 - - - +
125C ILE* 1.3 65.7 + - + +
127C ASP* 3.2 9.0 + - - +
128C LYS* 3.1 49.6 + - + +
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Residues in contact with ILE 125 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
125B ILE* 4.8 2.6 - - + +
128B LYS* 4.1 5.4 - - + +
129B ALA* 3.9 24.2 - - + +
132B THR* 2.8 55.0 - - + +
149B VAL* 3.1 37.2 - - + +
121C LYS 3.2 6.5 - - - +
122C ILE* 3.2 17.3 - - - +
124C GLU* 1.3 74.3 - - + +
126C VAL* 1.3 59.2 + - + +
128C LYS* 3.1 19.0 + - + +
129C ALA* 2.8 33.7 + - + +
151C PRO* 5.6 1.6 - - + -
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Residues in contact with VAL 126 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149B VAL* 5.7 1.1 - - + -
96C TYR* 3.9 12.3 - - + +
98C PHE* 3.2 38.3 - - + -
100C ILE* 3.9 11.2 - - + -
122C ILE* 3.2 18.1 + - + +
123C SER* 3.6 9.9 - - - +
125C ILE* 1.3 77.1 - - + +
127C ASP* 1.3 54.5 + - - +
129C ALA* 3.3 1.9 + - - +
130C TYR* 2.8 34.0 + - - +
151C PRO* 4.1 12.8 - - + +
153C ASN* 3.4 36.1 - - - +
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Residues in contact with ASP 127 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
96C TYR* 3.8 22.1 + - - +
123C SER* 3.1 10.7 + - - +
124C GLU* 3.5 10.9 - - - +
126C VAL* 1.3 78.2 - - - +
128C LYS* 1.3 60.6 + - - +
130C TYR* 3.5 3.6 + - - +
131C ARG* 2.9 52.0 + - - +
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Residues in contact with LYS 128 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
125B ILE* 3.7 13.7 - - + -
128B LYS* 4.1 35.9 - - + +
132B THR* 5.7 1.0 + - - -
124C GLU* 3.1 43.4 + - + +
125C ILE* 3.1 20.4 + - + +
127C ASP* 1.3 77.6 - - - +
129C ALA* 1.3 60.4 + - - +
131C ARG* 3.2 7.0 + - - +
132C THR* 2.9 34.5 + - - +
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Residues in contact with ALA 129 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
125B ILE* 3.5 20.1 - - + +
125C ILE* 2.8 20.4 + - + +
126C VAL 3.6 3.4 - - - +
128C LYS* 1.3 73.2 - - - +
130C TYR* 1.3 58.7 + - - +
132C THR* 3.2 2.8 + - - -
133C TYR* 2.9 28.8 + - - +
149C VAL* 3.7 26.1 - - - +
150C LEU* 4.2 2.9 - - - -
151C PRO* 3.8 19.1 - - + -
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Residues in contact with TYR 130 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93C LYS* 4.8 6.8 + - - -
94C LEU* 2.8 29.4 + - + -
95C SER* 4.1 3.7 - - - -
96C TYR* 3.3 56.4 + + + +
98C PHE* 3.8 19.7 - + + -
126C VAL 2.8 17.2 + - - +
127C ASP 3.8 3.4 - - - +
129C ALA* 1.3 78.2 - - - +
131C ARG* 1.3 63.0 + - - +
133C TYR* 3.3 19.8 + + - +
134C LEU* 3.0 57.2 + - + +
150C LEU* 4.1 8.4 - - + +
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Residues in contact with ARG 131 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
127C ASP* 2.9 39.5 + - - +
128C LYS* 3.2 6.5 + - - +
130C TYR* 1.3 77.4 - - - +
132C THR* 1.3 51.5 + - - +
134C LEU* 3.3 10.1 + - + +
135C GLU* 2.7 58.3 + - + +
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Residues in contact with THR 132 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121B LYS* 3.8 30.9 - - + +
125B ILE* 3.3 20.5 - - + +
128C LYS* 2.9 17.3 + - - +
129C ALA 3.4 4.3 - - - -
131C ARG* 1.3 73.1 - - - +
133C TYR* 1.3 58.5 + - - +
135C GLU* 3.3 17.2 + - - +
136C LEU* 2.8 51.5 + - + +
149C VAL* 4.2 6.7 - - + -
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Residues in contact with TYR 133 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
89C GLY 5.2 0.2 + - - -
92C SER 4.1 1.6 + - - -
93C LYS* 4.0 5.6 - - + +
94C LEU* 3.2 39.6 + - + +
129C ALA 2.9 13.4 + - - +
130C TYR* 3.4 33.7 - + - +
132C THR* 1.3 75.5 - - - +
134C LEU* 1.3 77.6 + - + +
136C LEU* 2.9 16.3 + - - +
137C ILE* 3.0 27.7 + - + +
143C ARG* 3.9 18.7 - - - +
146C ALA* 3.4 29.6 - - + -
147C ARG* 3.6 26.4 - - + +
149C VAL* 3.8 9.3 - - + +
150C LEU* 3.8 15.7 - - + -
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Residues in contact with LEU 134 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93C LYS* 4.2 19.7 - - + -
130C TYR* 3.0 61.0 + - + +
131C ARG* 3.7 8.1 - - + +
133C TYR* 1.3 85.5 - - + +
135C GLU* 1.3 67.8 + - - +
137C ILE* 3.3 6.1 + - + +
138C GLU* 2.9 41.1 + - - +
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Residues in contact with GLU 135 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
113B ILE* 6.1 0.4 - - - -
121B LYS* 3.6 33.9 + - + +
131C ARG* 2.7 47.3 + - + +
132C THR* 3.4 16.9 + - - +
134C LEU* 1.3 74.2 - - - +
136C LEU* 1.3 62.3 + - - +
138C GLU* 3.4 9.0 + - - +
139C SER* 3.2 22.5 + - - -
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Residues in contact with LEU 136 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
113B ILE* 4.7 5.2 - - + -
118B VAL* 4.1 37.7 - - + -
121B LYS* 4.4 18.4 - - + -
122B ILE* 4.1 25.1 - - + -
132C THR* 2.8 34.5 + - + +
133C TYR 2.9 6.9 + - - +
135C GLU* 1.3 72.5 - - + +
137C ILE* 1.3 63.3 + - - +
139C SER* 3.0 20.4 + - - -
141C VAL* 3.2 20.9 + - + +
146C ALA* 4.0 31.0 - - + +
149C VAL* 4.4 2.7 - - + -
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Residues in contact with ILE 137 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93C LYS* 5.4 9.9 - - + -
133C TYR* 3.0 32.7 + - + +
134C LEU* 3.6 10.5 - - + +
136C LEU* 1.3 75.7 - - - +
138C GLU* 1.3 71.5 + - - +
140C GLY* 3.1 14.7 + - - -
141C VAL 3.6 13.8 - - - +
143C ARG* 3.4 44.9 - - + +
146C ALA* 3.5 22.0 - - + -
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Residues in contact with GLU 138 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112B THR* 3.9 7.3 + - - -
93C LYS* 5.7 3.6 - - - -
134C LEU* 2.9 39.8 + - + +
135C GLU* 3.7 8.5 - - - +
137C ILE* 1.3 86.5 - - - +
139C SER* 1.3 61.2 + - - +
140C GLY* 3.3 1.0 + - - -
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Residues in contact with SER 139 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
110B LYS 3.8 0.7 - - - +
111B THR* 3.1 21.9 - - - -
112B THR* 2.7 43.6 + - - +
113B ILE* 3.3 30.3 - - - +
135C GLU 3.2 9.7 + - - -
136C LEU* 3.0 15.7 + - - -
138C GLU* 1.3 80.3 - - - +
140C GLY* 1.3 55.3 + - - +
141C VAL* 4.5 3.1 - - - -
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Residues in contact with GLY 140 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109B TYR* 3.9 17.7 - - - +
110B LYS 3.9 12.2 - - - +
111B THR* 4.5 3.6 - - - -
137C ILE 3.1 12.4 + - - -
138C GLU 3.2 2.3 - - - -
139C SER* 1.3 79.4 - - - +
141C VAL* 1.3 65.3 + - - +
142C PRO* 3.5 6.8 - - - +
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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