Contacts of the helix formed by residues 146 - 164 (chain G) in PDB entry 3Q3G
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 ILE 146 (chain G).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
104B TYR 5.8 0.7 - - - +
105B GLY* 6.0 1.8 - - - -
105D GLY* 5.9 3.6 - - - +
146E ILE* 4.9 33.2 - - + -
147E PRO* 6.4 2.0 - - + -
148E HIS* 5.5 7.4 - - + +
627E EDO 6.0 2.9 - - - -
143G GLY 5.3 1.6 - - - +
144G SER 3.3 10.7 + - - +
145G ILE* 1.3 72.7 - - - +
147G PRO* 1.4 77.7 - - + +
148G HIS* 3.6 37.2 - - + +
149G ASP* 3.0 37.3 + - - +
150G PHE* 3.0 10.0 + - - +
152G ARG* 5.0 2.2 - - - +
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Residues in contact with PRO 147 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147E PRO* 5.8 11.4 - - + -
148E HIS* 5.9 4.5 - - - +
145G ILE 3.9 1.5 - - - +
146G ILE* 1.4 86.5 - - + +
148G HIS* 1.3 63.7 + - + +
150G PHE* 3.3 5.0 + - + +
151G ARG* 2.9 38.9 + - - +
204G GLN* 4.4 13.2 - - - +
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Residues in contact with HIS 148 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
103B HIS* 2.8 24.2 + - + +
104B TYR* 3.6 19.0 - - + +
105B GLY* 3.9 14.6 + - - -
146E ILE* 6.3 0.6 - - + +
147E PRO* 5.4 13.2 - - + -
146G ILE* 3.1 20.1 + - + +
147G PRO* 1.3 81.2 - - + +
149G ASP* 1.3 56.3 + - - +
151G ARG* 2.9 41.4 + - - +
152G ARG* 3.0 50.2 + - - +
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Residues in contact with ASP 149 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
145G ILE* 3.8 9.3 - - + -
146G ILE* 3.0 31.0 + - + +
148G HIS* 1.3 73.6 - - - +
150G PHE* 1.3 59.6 + - - +
152G ARG* 2.8 25.3 + - - +
153G MET* 3.0 24.3 + - - +
301G ASN* 5.7 1.7 - - - +
302G PHE* 3.4 50.8 + - + +
303G GLU* 4.7 0.7 + - - +
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Residues in contact with PHE 150 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139G ILE* 3.9 10.3 - - + -
140G ASP 4.2 1.8 - - - -
141G GLY* 4.0 4.0 - - - -
145G ILE* 3.5 9.0 - - + +
146G ILE 3.0 7.4 + - - +
147G PRO* 3.7 8.5 - - + +
149G ASP* 1.3 75.2 - - - +
151G ARG* 1.4 56.9 + - - +
153G MET* 3.3 30.5 + - + +
154G LYS* 3.0 58.7 + - + +
175G GLN* 3.6 35.0 - - - -
202G ILE* 3.8 16.6 - - + -
204G GLN* 3.6 53.4 - - + +
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Residues in contact with ARG 151 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
103B HIS 3.7 3.6 + - - +
104B TYR* 3.4 31.0 - - + -
147G PRO* 2.9 23.6 + - - +
148G HIS* 2.9 45.0 + - - +
149G ASP 3.2 0.2 - - - -
150G PHE* 1.4 75.1 - - - +
152G ARG* 1.4 58.7 + - + +
154G LYS* 3.2 16.0 + - - +
155G GLU* 2.9 31.3 + - + +
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Residues in contact with ARG 152 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
104B TYR* 3.2 33.6 + - + +
106B TYR* 3.5 26.6 + - - -
109B TYR* 5.8 0.6 + - - -
146G ILE* 5.0 2.0 - - - +
148G HIS* 3.0 35.0 + - - +
149G ASP* 2.8 33.1 + - - +
151G ARG* 1.4 72.1 - - + +
153G MET* 1.4 60.9 + - - +
155G GLU* 3.3 9.4 - - - +
156G PHE* 2.9 26.5 + - - +
302G PHE* 3.9 13.3 - - + +
303G GLU* 3.2 48.7 + - - +
305G LEU* 4.7 2.9 - - - +
306G LYS* 5.1 4.0 - - - +
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Residues in contact with MET 153 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139G ILE* 4.0 23.3 - - + -
140G ASP 3.2 26.0 - - - +
145G ILE* 4.9 2.2 - - + -
149G ASP 3.0 11.6 + - - +
150G PHE* 3.5 35.0 - - + +
151G ARG 3.3 0.2 - - - -
152G ARG* 1.4 71.7 - - - +
154G LYS* 1.4 61.0 + - - +
156G PHE* 3.1 3.6 + - - +
157G VAL* 2.9 43.9 + - + +
240G ILE* 3.9 35.2 - - + +
302G PHE* 4.1 18.4 - - + -
305G LEU* 4.2 11.1 - - + +
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Residues in contact with LYS 154 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139G ILE* 5.2 6.5 - - + -
150G PHE* 3.0 39.3 + - + +
151G ARG* 3.6 15.9 - - + +
153G MET* 1.4 74.5 - - + +
155G GLU* 1.3 57.4 + - - +
157G VAL* 3.2 6.2 + - - +
158G SER* 2.9 33.1 + - - -
199G VAL* 3.2 32.4 + - + +
200G LYS* 2.7 33.3 + - - +
202G ILE* 3.1 34.7 + - + +
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Residues in contact with GLU 155 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62A SER* 2.6 37.5 + - - +
113B TYR* 5.3 5.0 + - - +
151G ARG* 2.9 17.0 + - + +
152G ARG* 3.3 13.9 - - - +
154G LYS* 1.3 75.7 - - - +
156G PHE* 1.3 56.5 + - - +
158G SER* 3.4 5.0 + - - -
159G THR* 3.0 47.0 + - - -
196G ARG* 2.6 28.7 + - - +
306G LYS* 6.3 1.1 - - - -
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Residues in contact with PHE 156 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62A SER* 5.7 0.7 - - - -
137G PHE* 6.2 0.9 - + - -
152G ARG 2.9 13.6 + - - +
153G MET* 3.1 9.6 + - - +
155G GLU* 1.3 72.0 - - - +
157G VAL* 1.3 66.3 + - - +
159G THR 3.4 0.9 + - - -
160G VAL* 3.1 37.4 + - + +
238G VAL* 5.4 0.4 - - + -
240G ILE* 3.8 21.8 - - + -
269G ILE* 3.7 26.0 - - + -
305G LEU* 3.3 46.9 - - + -
306G LYS* 4.4 1.1 - - + -
308G ILE* 4.2 9.0 - - + -
309G GLN* 3.4 45.4 + - - -
312G LEU* 3.6 25.6 - - + -
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Residues in contact with VAL 157 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137G PHE* 3.7 25.7 - - + -
139G ILE* 4.0 26.5 - - + -
153G MET* 2.9 27.9 + - + +
154G LYS* 3.2 9.8 + - - +
156G PHE* 1.3 73.0 - - - +
158G SER* 1.4 61.0 + - - +
160G VAL* 3.4 8.4 + - - +
161G MET* 3.1 30.2 + - - +
173G LEU* 3.6 27.6 - - + -
199G VAL* 4.5 6.1 - - + -
240G ILE* 4.4 10.3 - - + -
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Residues in contact with SER 158 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
154G LYS 2.9 15.7 + - - -
155G GLU* 3.4 9.8 - - - -
157G VAL* 1.4 73.4 - - - +
159G THR* 1.3 59.9 + - - +
161G MET* 3.3 9.3 + - - +
162G GLU* 3.0 32.7 + - - +
195G PRO* 3.9 8.2 - - - +
196G ARG* 3.5 37.5 + - - +
199G VAL* 3.4 21.9 - - - +
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Residues in contact with THR 159 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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62A SER* 3.2 8.2 + - - +
63A GLY* 4.5 11.7 - - - +
155G GLU* 3.0 31.4 + - - -
156G PHE 3.8 0.9 - - - -
158G SER* 1.3 73.2 - - - +
160G VAL* 1.4 55.2 + - - +
162G GLU* 3.2 11.5 + - + +
163G GLN* 2.9 51.3 + - + +
196G ARG* 3.2 11.1 + - - +
309G GLN* 3.5 31.2 - - + +
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Residues in contact with VAL 160 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
135G ILE* 5.7 0.2 - - + -
137G PHE* 3.7 25.6 - - + -
156G PHE* 3.1 42.1 + - + +
157G VAL* 3.5 8.5 - - - +
159G THR* 1.4 72.4 - - - +
161G MET* 1.3 55.6 + - - +
163G GLN* 3.1 6.6 + - - +
164G LEU* 2.8 58.2 + - + +
238G VAL* 5.7 0.9 - - + -
309G GLN* 3.2 20.0 - - - +
312G LEU* 4.2 14.6 - - + -
313G ARG* 6.3 4.0 - - + +
316G ILE* 6.0 0.2 - - + -
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Residues in contact with MET 161 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137G PHE* 3.6 22.7 - - + -
157G VAL* 3.1 16.5 + - - +
158G SER 3.4 7.4 - - - +
160G VAL* 1.3 77.7 - - - +
162G GLU* 1.3 59.5 + - - +
165G LYS* 3.3 21.3 + - - +
171G PHE* 3.6 31.1 - - + -
184G PHE* 3.7 32.3 - - + -
189G PHE* 3.6 33.2 - - + -
195G PRO* 3.7 31.5 - - + +
198G LEU* 4.4 1.6 - - + -
199G VAL* 4.2 12.8 - - - -
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Residues in contact with GLU 162 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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158G SER 3.0 16.5 + - - +
159G THR* 3.2 10.0 + - + +
161G MET* 1.3 77.1 - - - +
163G GLN* 1.3 60.9 + - + +
165G LYS* 3.4 24.0 - - + +
195G PRO* 3.9 19.0 - - + +
196G ARG* 2.8 57.5 + - - +
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Residues in contact with GLN 163 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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63A GLY* 4.7 11.1 + - - -
159G THR* 2.9 38.5 + - + +
160G VAL* 3.7 5.1 - - - +
162G GLU* 1.3 77.6 - - + +
164G LEU* 1.3 57.4 - - - +
165G LYS 3.3 3.8 + - - +
309G GLN* 3.8 23.4 + - - +
310G ASN* 5.5 1.4 + - - -
313G ARG* 2.8 51.8 + - + +
317G PHE* 3.8 13.9 - - - -
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Residues in contact with LEU 164 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
135G ILE* 4.4 8.1 - - + -
160G VAL* 2.8 39.7 + - + +
161G MET 3.9 2.2 - - - -
163G GLN* 1.3 74.7 - - - +
165G LYS* 1.4 62.7 + - - +
166G LYS* 3.1 14.0 + - - +
169G THR* 3.5 15.4 - - - +
171G PHE* 3.7 21.1 - - + -
238G VAL* 6.5 0.4 - - + -
313G ARG* 3.8 27.8 - - + +
316G ILE* 3.8 34.8 - - + -
317G PHE* 3.4 33.4 - - + -
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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) + - + + + + + -
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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