Contacts of the helix formed by residues 147 - 168 (chain C) in PDB entry 1PL8
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 THR 147 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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90C ARG* 3.4 6.1 - - - +
142C LEU* 3.9 2.1 - - - +
145C ASN 5.3 2.2 - - - +
146C VAL* 1.3 78.1 - - - +
148C PHE* 1.3 60.0 + - - +
149C GLU* 3.5 5.2 + - - +
150C GLU* 2.9 39.9 + - - +
151C GLY* 2.9 23.2 + - - -
318C LYS* 4.4 17.7 - - - +
356C PRO* 3.7 26.1 + - + +
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Residues in contact with PHE 148 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39C HIS* 3.3 54.3 - + + +
40C SER* 3.6 1.8 - - - +
72C SER* 2.7 36.6 + - - +
73C GLY 3.7 23.3 - - - -
74C THR* 3.6 15.3 - - - -
90C ARG* 3.3 47.7 - - + +
142C LEU* 4.4 4.3 - - + -
147C THR* 1.3 74.1 - - - +
149C GLU* 1.3 58.9 + - - +
151C GLY* 3.0 2.1 + - - -
152C ALA* 2.8 18.2 + - - +
353C ASP* 3.8 9.2 - - - -
356C PRO* 3.3 11.2 + - - +
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Residues in contact with GLU 149 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40C SER* 3.8 7.6 - - - +
147C THR* 3.3 4.0 - - - +
148C PHE* 1.3 71.7 - - - +
150C GLU* 1.3 61.1 + - + +
152C ALA* 3.2 5.0 + - - +
153C LEU* 2.8 35.7 + - + +
321C VAL* 3.8 16.8 - - + +
324C ARG* 2.8 45.4 + - - -
346C MET* 3.7 22.8 - - + +
348C LYS* 2.9 30.0 + - - +
356C PRO* 2.9 29.8 + - + +
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Residues in contact with GLU 150 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
145C ASN 4.0 4.2 - - - +
146C VAL* 3.4 20.5 - - + -
147C THR* 2.9 47.5 + - - +
149C GLU* 1.3 76.8 - - + +
151C GLY* 1.3 63.8 + - - +
153C LEU* 3.1 19.7 + - + +
154C ILE* 3.2 17.1 + - - +
310C LEU* 3.8 32.8 - - + +
313C LYS* 4.7 5.7 + - - +
315C VAL 5.1 2.8 - - - +
316C ASN* 5.2 2.1 - - - +
317C VAL* 4.3 9.3 + - + +
318C LYS* 3.6 35.9 + - + +
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Residues in contact with GLY 151 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71C ALA 4.1 3.1 - - - +
72C SER* 4.0 6.5 - - - -
92C ALA* 3.8 9.0 - - - +
142C LEU* 4.0 18.6 - - - -
146C VAL* 4.5 0.4 - - - +
147C THR 2.9 14.1 + - - -
148C PHE 3.0 5.6 + - - -
150C GLU* 1.3 78.2 - - - +
152C ALA* 1.3 60.3 + - - +
154C ILE* 3.3 34.0 + - - +
155C GLU 4.5 0.5 + - - -
303C TRP* 4.8 1.0 + - - -
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Residues in contact with ALA 152 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40C SER* 3.6 19.1 - - - +
70C GLU* 3.4 32.4 - - - +
71C ALA 3.9 8.7 - - - -
72C SER* 3.9 0.8 - - - -
148C PHE 2.8 11.6 + - - +
149C GLU 3.5 7.6 - - - +
150C GLU 3.2 0.2 - - - -
151C GLY* 1.3 76.8 - - - +
153C LEU* 1.3 60.8 + - - +
154C ILE 3.1 1.8 + - - -
155C GLU* 3.4 9.7 + - - +
156C PRO* 3.6 7.3 - - - +
346C MET* 3.8 20.2 - - + -
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Residues in contact with LEU 153 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70C GLU* 5.7 0.2 - - - +
149C GLU* 2.8 23.8 + - + +
150C GLU* 3.1 8.2 + - + +
152C ALA* 1.3 71.8 - - - +
154C ILE* 1.3 64.1 + - - +
155C GLU 3.1 2.7 - - - -
156C PRO* 3.1 18.2 - - + +
157C LEU* 2.9 25.7 + - - +
186C VAL* 5.4 0.2 - - - +
317C VAL* 3.4 47.3 - - + +
318C LYS* 4.5 2.7 - - - +
320C LEU* 4.6 11.7 - - + -
321C VAL* 3.8 17.9 - - + -
344C LYS* 3.6 23.6 - - + -
346C MET* 3.6 18.6 - - + -
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Residues in contact with ILE 154 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
92C ALA* 3.7 15.3 - - + -
142C LEU* 4.2 2.0 - - + -
150C GLU 3.2 12.1 + - - +
151C GLY* 3.3 21.8 - - - +
152C ALA 3.1 1.2 - - - -
153C LEU* 1.3 78.0 - - - +
155C GLU* 1.3 54.1 + - - +
157C LEU* 3.7 7.8 - - - +
158C SER* 2.6 42.2 + - - +
303C TRP* 3.4 30.1 - - + +
306C ALA* 3.5 22.9 - - + -
307C ILE* 3.6 30.1 - - + -
310C LEU* 3.7 19.7 - - + -
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Residues in contact with GLU 155 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69C HIS* 3.4 40.7 + - - +
70C GLU* 3.2 34.5 - - + +
71C ALA 5.0 0.4 - - - +
93C ILE 5.4 0.7 - - - +
95C PRO* 4.0 6.3 - - + -
118C PHE* 4.2 2.4 - - - -
151C GLY 4.5 0.6 + - - -
152C ALA 3.4 2.9 + - - +
153C LEU 3.1 0.6 - - - -
154C ILE* 1.3 81.5 - - - +
156C PRO* 1.3 76.3 - - + +
158C SER* 3.2 12.0 + - - -
159C VAL* 3.5 8.2 + - - +
299C TYR* 2.5 39.0 + - - +
303C TRP* 3.7 12.9 - - + -
400C NAD 6.0 0.9 - - - -
402C ZN 3.5 2.9 - - - -
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Residues in contact with PRO 156 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70C GLU* 3.8 19.7 - - - +
152C ALA 3.6 5.2 - - - +
153C LEU* 3.1 35.4 - - + +
155C GLU* 1.3 104.3 - - + +
157C LEU* 1.3 60.9 + - - +
159C VAL* 3.0 24.9 + - + +
182C PRO* 5.5 4.0 - - + +
183C ILE* 4.6 13.2 - - + -
186C VAL* 3.4 24.3 - - + +
320C LEU* 5.9 0.2 - - + -
344C LYS* 4.4 10.3 - - - +
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Residues in contact with LEU 157 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
153C LEU 2.9 18.5 + - - +
154C ILE* 3.7 5.2 - - - +
156C PRO* 1.3 77.1 - - - +
158C SER* 1.3 56.8 + - - +
160C GLY* 2.9 6.4 + - - -
161C ILE* 2.9 34.0 + - + +
186C VAL* 3.9 19.0 - - + +
189C LEU* 5.1 0.9 - - + -
190C VAL* 3.7 21.5 - - + -
306C ALA* 4.0 25.8 - - + -
309C MET* 5.7 1.1 - - + -
310C LEU* 4.7 11.9 - - + -
315C VAL* 4.6 21.5 - - + -
317C VAL* 4.1 28.0 - - + -
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Residues in contact with SER 158 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
154C ILE* 2.6 29.9 + - - +
155C GLU 3.5 6.3 - - - -
156C PRO 3.1 0.2 - - - -
157C LEU* 1.3 74.5 - - - +
159C VAL* 1.3 59.4 + - - +
161C ILE* 3.7 9.3 - - - +
162C HIS* 2.8 32.6 + - - +
299C TYR* 3.6 8.7 - - - +
302C THR* 2.7 31.4 + - - +
303C TRP* 3.3 19.9 - - - -
306C ALA* 4.6 0.9 - - - +
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Residues in contact with VAL 159 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
155C GLU* 3.5 18.1 + - - +
156C PRO* 3.0 13.2 + - + +
158C SER* 1.3 75.6 - - - +
160C GLY* 1.3 58.5 + - - +
162C HIS* 3.8 1.4 - - - +
163C ALA* 2.8 32.0 + - + +
183C ILE* 4.1 21.1 - - + -
272C VAL* 3.7 29.4 - - + -
296C VAL* 4.8 4.1 - - + +
298C ARG* 4.1 12.7 - - - +
299C TYR* 3.8 16.8 - - + -
400C NAD 4.1 24.7 - - + -
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Residues in contact with GLY 160 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
156C PRO 3.4 3.8 + - - -
157C LEU 2.9 8.0 + - - -
159C VAL* 1.3 81.4 - - - +
161C ILE* 1.3 59.9 + - - +
163C ALA* 3.7 1.6 - - - +
164C CYS* 3.0 31.0 + - - -
186C VAL* 4.1 5.9 - - - +
187C THR* 3.8 29.6 - - - -
190C VAL* 3.9 7.9 - - - -
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Residues in contact with ILE 161 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
157C LEU* 2.9 25.6 + - + +
158C SER* 3.7 10.8 - - - +
160C GLY* 1.3 77.7 - - - +
162C HIS* 1.3 63.8 + - - +
164C CYS* 3.4 2.1 + - - +
165C ARG* 3.0 45.7 + - + +
190C VAL* 3.8 20.1 - - + +
194C MET* 5.3 0.3 - - - +
302C THR* 3.7 25.6 - - + +
305C VAL* 4.3 7.0 - - + -
306C ALA* 3.9 34.3 - - + +
309C MET* 6.0 1.1 - - + -
171D LEU* 4.1 18.4 - - + -
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Residues in contact with HIS 162 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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109C ARG* 6.0 3.3 + - - -
111C ASN* 3.9 15.8 + - - -
158C SER 2.8 20.2 + - - +
159C VAL 3.8 1.3 - - - +
161C ILE* 1.3 75.0 - - - +
163C ALA* 1.3 58.0 + - - +
165C ARG* 3.2 11.8 + - - +
166C ARG* 2.8 57.3 + - + +
296C VAL* 3.6 22.4 - - + -
297C PHE 4.4 3.6 + - - -
298C ARG 3.3 26.2 - - - +
299C TYR* 3.6 12.6 - - + -
300C CYS* 3.9 31.9 + - - -
302C THR* 4.5 2.4 - - + +
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Residues in contact with ALA 163 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
159C VAL 2.8 19.9 + - - +
160C GLY* 3.7 7.0 - - - +
162C HIS* 1.3 77.2 - - - +
164C CYS* 1.3 56.9 + - - +
166C ARG* 3.4 3.1 + - - +
167C GLY* 2.9 23.4 + - - -
187C THR* 4.6 2.2 - - - +
247C ILE* 4.0 16.1 - - + +
270C VAL* 3.7 10.0 - - + +
272C VAL* 3.8 28.5 - - + -
296C VAL* 3.8 13.7 - - + +
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Residues in contact with CYS 164 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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160C GLY 3.0 21.2 + - - +
161C ILE 4.0 0.7 - - - +
163C ALA* 1.3 73.6 - - - +
165C ARG* 1.3 60.2 + - - +
167C GLY 3.3 0.3 + - - -
168C GLY 3.0 21.3 + - - -
169C VAL* 3.0 29.7 + - + +
187C THR* 3.7 22.9 - - - -
190C VAL* 3.8 10.5 - - + -
191C ALA* 3.8 9.0 - - - -
194C MET* 3.5 23.8 - - - -
247C ILE* 3.6 22.0 - - - -
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Residues in contact with ARG 165 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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161C ILE* 3.0 39.1 + - + +
162C HIS* 3.5 10.7 + - - +
164C CYS* 1.3 75.5 - - - +
166C ARG* 1.3 67.4 + - + +
168C GLY* 2.9 15.6 + - - -
194C MET* 5.0 14.8 - - + -
300C CYS 3.2 16.6 + - - -
301C ASN* 2.8 33.5 + - - +
302C THR* 3.7 4.0 - - - +
305C VAL* 3.5 29.7 - - - +
170D THR* 6.0 5.3 - - - +
171D LEU* 5.1 5.8 + - + +
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Residues in contact with ARG 166 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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109C ARG* 3.9 29.8 - - - +
162C HIS* 2.8 50.6 + - + +
163C ALA 3.7 4.3 - - - +
165C ARG* 1.3 79.1 - - + +
167C GLY* 1.3 59.2 + - - +
168C GLY 3.5 0.5 + - - -
268C THR* 4.2 0.3 - - - +
270C VAL* 4.2 6.7 - - + -
294C LYS* 3.4 64.4 + - + +
295C GLY 2.9 29.9 + - - +
296C VAL* 4.1 10.5 - - + +
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Residues in contact with GLY 167 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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163C ALA 2.9 12.8 + - - -
164C CYS 3.3 2.2 + - - -
165C ARG 3.1 0.2 - - - -
166C ARG* 1.3 77.4 - - - +
168C GLY* 1.3 62.4 + - - +
169C VAL 3.2 2.5 - - - -
245C VAL* 3.3 25.5 - - - +
268C THR* 3.7 17.3 + - - -
270C VAL* 3.3 23.8 - - - +
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Residues in contact with GLY 168 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
164C CYS 3.0 0.6 + - - -
165C ARG* 2.9 16.8 + - - -
166C ARG 3.3 1.0 + - - -
167C GLY* 1.3 78.1 - - - +
169C VAL* 1.3 67.9 + - - +
170C THR* 3.2 8.5 + - - +
173C HIS* 3.3 16.1 - - - -
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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) + - + + + + + -
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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