Contacts of the helix formed by residues 125 - 148 (chain C) in PDB entry 3FZ7
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 GLY 125 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
316B ASN* 5.1 0.2 + - - -
318B SER 5.0 0.4 - - - -
123C THR* 2.8 20.2 + - - -
124C ILE* 1.3 80.2 - - - +
126C SER* 1.3 65.9 + - - -
127C SER* 3.2 2.6 + - - -
128C GLU* 3.7 3.8 + - - +
129C ALA* 3.4 9.4 + - - +
275C HIS* 3.8 8.3 - - - -
284C CYS 4.2 0.2 - - - -
285C GLY* 3.8 11.6 - - - -
467C PO4 3.7 15.3 - - - -
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Residues in contact with SER 126 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
125C GLY* 1.3 71.1 - - - -
127C SER* 1.3 56.5 + - - +
129C ALA* 3.2 7.8 + - - +
130C CYS* 2.7 47.4 + - - -
165C CYS* 4.9 2.9 - - - -
243C ASP* 4.5 2.0 + - - -
245C ALA* 3.6 21.1 + - - +
271C SER* 4.9 0.7 - - - -
272C ALA* 3.6 15.4 + - - -
273C SER* 2.6 22.1 + - - -
285C GLY* 4.5 1.0 - - - -
467C PO4 3.0 23.3 + - - -
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Residues in contact with SER 127 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
315B ILE 2.7 26.0 + - - -
316B ASN* 4.0 2.0 - - - -
317B PHE* 3.9 20.0 - - - -
125C GLY* 3.2 0.6 - - - -
126C SER* 1.3 77.3 - - - +
128C GLU* 1.3 62.8 + - - +
130C CYS* 3.3 3.1 + - - +
131C MET* 3.0 34.6 + - - +
165C CYS* 3.9 21.0 - - - +
168C LYS* 4.1 6.2 + - - -
467C PO4 2.8 17.3 + - - -
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Residues in contact with GLU 128 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
315B ILE* 4.5 5.0 + - + -
316B ASN* 3.9 15.3 + - - +
122C ASN 5.4 0.4 - - - -
123C THR* 3.3 21.7 - - + -
124C ILE 3.0 20.6 + - - +
125C GLY 3.7 4.0 + - - +
126C SER 3.4 0.4 - - - -
127C SER* 1.3 76.7 - - - +
129C ALA* 1.3 63.8 + - - +
131C MET* 3.0 21.7 + - - +
132C LEU* 3.0 22.7 + - + +
314C ALA* 3.6 9.2 - - - +
315C ILE* 2.8 38.5 + - + -
316C ASN* 2.9 33.4 + - - +
319C ARG* 4.7 2.5 + - - -
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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
----------------------------------------------------------
123C THR* 3.7 15.6 - - - +
125C GLY 3.4 13.6 + - - +
126C SER* 3.2 11.2 + - - +
128C GLU* 1.3 80.0 - - - +
130C CYS* 1.3 60.2 + - - +
132C LEU* 3.5 4.0 + - - +
133C GLY* 3.0 19.9 + - - -
241C HIS* 4.4 0.2 - - - -
271C SER* 3.7 14.0 - - - -
286C TRP 3.7 23.1 - - - +
287C VAL* 3.9 17.1 - - + +
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Residues in contact with CYS 130 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
126C SER* 2.7 28.3 + - - +
127C SER 3.5 3.6 - - - +
129C ALA* 1.3 71.3 - - - +
131C MET* 1.3 56.1 + - - +
133C GLY* 3.0 1.7 + - - -
134C GLY* 2.6 35.2 + - - -
165C CYS* 3.1 38.1 - - + +
166C TRP* 3.5 37.3 - - + -
169C PHE* 5.4 0.7 - - + -
241C HIS* 4.7 0.9 - - - -
243C ASP* 4.0 8.3 - - - -
271C SER* 3.8 15.9 - - - -
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Residues in contact with MET 131 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
315B ILE* 3.4 35.9 - - + +
127C SER* 3.0 23.8 + - - +
128C GLU* 3.0 8.5 + - - +
130C CYS* 1.3 76.2 - - - +
132C LEU* 1.3 54.3 + - - +
135C MET* 2.7 40.0 + - - +
165C CYS* 4.4 6.3 - - + +
168C LYS* 4.3 22.0 - - + -
169C PHE* 4.2 22.7 - - - -
172C TYR* 4.8 1.6 - - + -
173C TRP* 3.5 29.8 - - + -
315C ILE* 3.5 27.8 - - + -
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Residues in contact with LEU 132 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121C THR* 3.9 18.4 - - + -
123C THR* 3.9 19.3 - - + -
128C GLU* 3.0 20.1 + - + +
129C ALA 3.6 7.0 - - - +
131C MET* 1.3 77.6 - - - +
133C GLY* 1.3 56.4 + - - +
135C MET* 3.9 9.0 - - + -
136C ALA* 3.1 24.9 + - - +
287C VAL* 4.1 2.7 - - + -
289C TRP* 3.7 8.6 - - + -
313C PHE* 3.3 73.3 - - + +
314C ALA* 4.5 1.3 - - - -
315C ILE* 4.2 21.8 - - + +
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Residues in contact with GLY 133 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
129C ALA 3.0 11.0 + - - -
130C CYS 3.0 6.5 + - - -
132C LEU* 1.3 74.4 - - - +
134C GLY* 1.3 54.2 + - - +
136C ALA* 3.3 3.5 + - - +
137C MET* 2.8 43.1 + - - +
140C ARG* 5.2 0.2 + - - -
166C TRP* 4.9 0.2 - - - -
241C HIS* 4.0 20.9 - - - -
269C SER* 4.3 6.7 + - - -
287C VAL* 4.8 1.1 - - - -
289C TRP* 4.4 7.6 - - - -
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Residues in contact with GLY 134 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
130C CYS 2.6 19.9 + - - -
133C GLY* 1.3 69.0 - - - +
135C MET* 1.3 58.5 + - - +
137C MET* 3.2 11.0 - - - +
138C LYS* 2.9 25.5 + - - +
166C TRP* 4.1 10.6 - - - -
169C PHE* 3.3 33.9 - - - -
203C ILE* 3.9 0.2 - - - +
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Residues in contact with MET 135 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
172B TYR* 3.4 48.5 - - + -
131C MET 2.7 29.4 + - - +
132C LEU* 3.9 14.6 - - + +
134C GLY* 1.3 70.9 - - - -
136C ALA* 1.3 57.8 + - - +
138C LYS* 3.2 5.6 + - - +
139C TRP* 2.9 40.0 + - + -
169C PHE* 3.4 4.2 - - - -
173C TRP* 3.5 40.6 - - + +
299C LEU* 4.2 7.0 - - + -
313C PHE* 3.7 27.8 - - + -
315C ILE* 4.3 5.4 - - + -
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Residues in contact with ALA 136 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132C LEU 3.1 19.8 + - - +
133C GLY 3.6 2.2 - - - +
135C MET* 1.3 74.0 - - - +
137C MET* 1.3 66.9 + - - +
139C TRP* 3.2 1.4 + - - +
140C ARG* 2.9 36.2 + - - +
289C TRP* 3.4 27.4 - - + +
295C LEU* 4.4 1.8 - - + -
296C PRO* 4.1 13.0 - - + -
299C LEU* 3.8 15.0 - - + +
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Residues in contact with MET 137 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
133C GLY 2.8 15.5 + - - +
134C GLY* 3.2 24.0 - - - +
136C ALA* 1.3 72.7 - - - +
138C LYS* 1.3 64.2 + - - +
140C ARG* 3.0 28.2 + - - +
141C TRP* 2.9 23.9 + - - +
157C LEU* 3.8 11.9 - - + -
166C TRP* 4.2 3.4 - - + -
203C ILE* 3.8 14.8 - - + +
204C GLY* 3.8 31.4 - - - -
206C VAL* 3.6 21.5 - - + -
239C ASP 5.1 0.7 - - - +
240C MET 4.7 1.3 - - - -
241C HIS* 3.4 37.7 - - + -
269C SER* 5.5 0.9 - - - +
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Residues in contact with LYS 138 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
174B ASP* 3.8 9.1 + - - -
134C GLY 2.9 15.1 + - - +
135C MET* 3.4 11.7 - - - +
137C MET* 1.3 71.9 - - - +
139C TRP* 1.3 65.6 + - + +
141C TRP* 3.4 7.3 + - + +
142C ARG* 2.8 68.2 + - + +
152C THR 5.9 0.9 - - - -
155C PRO* 4.7 13.7 - - + -
169C PHE* 4.8 2.0 - - + -
173C TRP* 3.0 38.2 + - + +
174C ASP* 5.0 4.0 + - - +
175C VAL* 4.1 17.5 - - + -
203C ILE* 3.7 19.9 - - + +
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Residues in contact with TRP 139 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
171B ARG* 3.2 34.4 - - + +
172B TYR* 3.8 19.3 - - - -
174B ASP* 4.0 5.2 - - - -
135C MET* 2.9 41.3 + - + +
136C ALA 3.7 0.2 - - - +
137C MET 3.2 0.2 - - - -
138C LYS* 1.3 90.4 - - + +
140C ARG* 1.3 65.7 + - - +
142C ARG* 3.2 40.3 + - + +
143C LYS* 3.0 28.4 + - + +
173C TRP* 5.1 1.1 - + - -
296C PRO* 3.6 21.1 - - + -
298C GLU* 3.8 40.1 - - + +
299C LEU* 3.8 25.9 - - + +
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Residues in contact with ARG 140 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
133C GLY 5.2 0.2 + - - -
136C ALA* 2.9 31.4 + - - +
137C MET* 3.5 34.8 - - - +
139C TRP* 1.3 72.7 - - - +
141C TRP* 1.3 64.0 + - - +
143C LYS* 3.1 7.9 + - - +
144C ARG* 3.0 23.0 + - - +
203C ILE 5.2 1.8 + - - -
239C ASP* 4.2 18.9 + - - +
240C MET 4.8 2.4 + - - -
268C LYS* 3.6 36.9 - - - +
269C SER* 5.0 3.6 + - - -
289C TRP* 4.3 5.1 - - - -
293C GLU 4.2 6.5 - - - +
294C ALA* 2.8 44.4 + - - +
296C PRO* 4.0 16.1 - - + +
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Residues in contact with TRP 141 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137C MET 2.9 14.5 + - - +
138C LYS* 3.6 10.1 - - + +
140C ARG* 1.3 76.5 - - - +
142C ARG* 1.3 82.0 + - + +
144C ARG* 3.2 27.9 + - - +
145C MET* 3.0 37.5 + - + +
152C THR* 3.5 47.6 - - + -
154C LYS 4.5 0.9 - - - -
155C PRO* 3.5 23.1 - - + -
200C GLU 3.0 18.6 + - - -
201C ASN* 3.6 38.4 - - + -
202C THR 3.4 19.3 - - - -
203C ILE* 3.6 27.4 - - + +
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Residues in contact with ARG 142 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
174B ASP* 2.8 41.9 + - - -
138C LYS* 2.8 47.6 + - + +
139C TRP* 3.2 42.1 + - + +
141C TRP* 1.3 92.9 - - + +
143C LYS* 1.3 61.9 + - + +
145C MET 3.4 0.3 + - - -
146C GLU* 3.0 41.3 + - - +
152C THR* 3.9 28.3 - - + +
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Residues in contact with LYS 143 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139C TRP* 3.0 18.6 + - + +
140C ARG* 3.7 8.5 - - - +
142C ARG* 1.3 75.1 - - + +
144C ARG* 1.3 58.8 + - - +
146C GLU* 3.2 14.8 + - - +
147C ALA* 2.9 32.2 + - - +
296C PRO* 4.2 21.7 - - + +
297C GLN* 4.6 1.8 - - - +
298C GLU* 2.8 44.0 + - - +
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Residues in contact with ARG 144 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140C ARG 3.0 12.9 + - - +
141C TRP* 3.2 29.3 + - - +
143C LYS* 1.3 76.8 - - - +
145C MET* 1.3 74.5 + - - +
147C ALA* 3.5 7.9 + - - +
148C ALA* 3.2 21.1 + - - +
200C GLU* 3.6 27.3 + - - +
202C THR 4.7 5.7 + - - -
236C ILE* 4.4 12.9 - - - +
237C ASP* 2.9 40.6 + - - -
238C ILE* 5.0 1.2 - - - +
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Residues in contact with MET 145 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
141C TRP* 3.0 35.2 + - + +
144C ARG* 1.3 88.6 - - - +
146C GLU* 1.3 60.1 + - - +
148C ALA* 2.9 16.7 + - - +
149C GLY 3.1 0.2 + - - -
150C LYS* 2.9 60.9 + - + +
151C PRO* 4.0 7.9 - - + +
152C THR* 3.8 17.0 - - + -
200C GLU* 3.2 37.9 - - + +
201C ASN* 3.8 15.9 - - - +
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Residues in contact with GLU 146 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
142C ARG* 3.0 39.2 + - - +
143C LYS* 3.7 15.8 + - - +
145C MET* 1.3 69.1 - - - +
147C ALA* 1.3 66.1 + - - +
148C ALA 3.0 2.0 + - - -
149C GLY* 3.2 12.4 + - - +
150C LYS 4.6 5.8 - - - +
152C THR* 4.2 14.3 + - + +
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Residues in contact with ALA 147 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143C LYS 2.9 14.0 + - - +
144C ARG* 3.5 13.5 - - - +
146C GLU* 1.3 75.8 - - - +
148C ALA* 1.3 57.9 + - + +
149C GLY 3.3 2.3 + - - -
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Residues in contact with ALA 148 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
144C ARG 3.2 13.8 + - - +
145C MET* 2.9 10.5 + - - +
147C ALA* 1.3 79.6 - - + +
149C GLY* 1.3 62.5 + - - +
150C LYS* 3.3 27.0 + - + +
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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