Contacts of the helix formed by residues 144 - 163 (chain E) in PDB entry 6F0X
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 GLU 144 (chain E).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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141E TYR* 2.7 19.4 + - - +
142E ASP* 3.0 15.6 - - - +
143E VAL* 1.3 79.3 - - - +
145E VAL* 1.3 61.8 + - - +
146E LYS* 2.9 14.2 + - + +
147E SER* 3.5 19.5 + - - +
148E HIS* 3.5 15.1 - - - +
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Residues in contact with VAL 145 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
141E TYR* 4.7 7.5 + - + +
143E VAL* 3.7 26.0 - - + -
144E GLU* 1.3 76.8 - - - +
146E LYS* 1.3 58.0 + - - +
148E HIS* 3.2 19.2 - - + +
149E LEU* 2.8 42.1 + - + +
177E LEU* 4.9 13.0 - - + -
188E LEU* 5.4 8.7 - - + -
315E ILE* 6.0 4.7 - - + -
317E GLN* 3.8 32.3 - - + +
319E ILE* 3.9 14.8 - - + -
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Residues in contact with LYS 146 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
77E ASP 5.3 1.9 + - - -
136E TRP* 3.2 67.8 + - + +
137E ASP* 3.4 16.4 + - - +
139E LEU* 4.4 14.2 + - + +
140E VAL* 5.5 0.4 - - - -
141E TYR* 5.0 17.0 - - + +
144E GLU* 2.9 8.5 - - + -
145E VAL* 1.3 77.8 - - - +
147E SER* 1.3 65.1 + - - +
149E LEU* 3.0 8.4 + - - +
150E LEU* 2.9 24.9 + - - +
188E LEU* 4.6 22.4 - - + +
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Residues in contact with SER 147 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
401D GLN* 4.2 11.8 + - - -
77E ASP 5.6 5.5 - - - -
136E TRP* 6.1 0.2 - - - -
144E GLU* 3.5 15.9 + - - +
145E VAL 3.5 0.4 - - - -
146E LYS* 1.3 78.0 - - - +
148E HIS* 1.3 59.3 + - - +
150E LEU* 3.5 9.3 - - - +
151E ASP* 2.7 40.2 + - - +
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Residues in contact with HIS 148 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
398D LEU* 3.6 35.4 + - + +
399D TYR* 6.0 3.5 - + - -
420D LYS* 4.2 18.5 + - - +
143E VAL* 3.8 20.4 + - + -
144E GLU* 3.5 18.1 + - - +
145E VAL* 3.2 23.1 - - + +
147E SER* 1.3 78.5 - - - +
149E LEU* 1.3 59.2 + - - +
151E ASP* 2.6 22.3 - - - +
152E TYR* 2.9 16.9 + - - +
315E ILE* 5.9 2.2 - - + -
317E GLN* 5.6 1.6 + - - -
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Residues in contact with LEU 149 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136E TRP* 6.0 0.9 - - + -
145E VAL* 2.8 28.2 + - + +
146E LYS* 3.6 5.6 - - - +
148E HIS* 1.3 74.3 - - - +
150E LEU* 1.3 59.9 + - - +
152E TYR* 3.1 22.7 - - + +
153E VAL* 3.7 8.1 + - - +
175E VAL* 3.6 39.0 - - + -
177E LEU* 5.2 8.1 - - + -
188E LEU* 4.9 21.1 - - + +
189E CYS* 5.9 0.7 - - - -
192E LEU* 3.5 44.6 - - + +
296E LEU* 4.9 4.5 - - + -
315E ILE* 5.7 5.6 - - + -
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Residues in contact with LEU 150 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
77E ASP 5.0 10.5 - - - +
136E TRP* 4.6 17.9 - - + -
146E LYS 2.9 16.1 + - - +
147E SER* 3.5 9.0 - - - +
148E HIS 3.1 0.4 - - - -
149E LEU* 1.3 73.9 - - - +
151E ASP* 1.3 66.0 - - + +
152E TYR 2.9 4.8 + - - -
153E VAL* 3.0 16.1 + - - +
154E MET* 3.0 11.2 + - + +
192E LEU* 4.2 4.7 - - + +
195E LYS* 4.2 21.8 - - + -
196E LEU* 3.6 28.0 - - + +
199E ARG* 4.0 35.2 - - + +
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Residues in contact with ASP 151 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
397D ALA 2.9 21.6 - - - +
398D LEU* 4.5 4.2 - - - +
401D GLN* 2.1 54.2 + - + +
147E SER 2.7 8.8 + - - +
148E HIS* 2.6 32.6 - - - +
150E LEU* 1.3 79.7 - - + +
152E TYR* 1.3 56.4 + - - +
154E MET* 3.5 15.0 - - + -
155E THR* 2.8 38.3 + - - +
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Residues in contact with TYR 152 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
393D PHE* 3.7 24.4 - + - -
394D LEU* 4.0 14.1 - - + -
397D ALA* 3.9 15.7 - - + +
398D LEU* 5.2 0.4 - - + -
148E HIS 2.9 10.1 + - - +
149E LEU* 3.1 19.1 - - + +
150E LEU 2.9 0.4 - - - -
151E ASP* 1.3 83.5 + - - +
153E VAL* 1.3 80.9 + - + +
155E THR* 3.4 2.3 + - - -
156E THR* 2.5 40.4 + - + -
171E TRP* 4.0 16.3 - + - -
173E ARG* 4.3 3.3 - - - -
174E VAL 3.7 3.3 + - - -
175E VAL* 3.7 23.1 - - + -
294E VAL* 5.1 9.9 - - + -
314E ASP* 3.3 25.4 + - + +
315E ILE* 3.7 23.8 - - + -
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Residues in contact with VAL 153 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149E LEU 4.0 5.4 - - - +
150E LEU 3.0 2.0 + - - -
152E TYR* 1.3 93.3 - - + +
154E MET* 1.3 66.1 + - - +
156E THR* 3.0 13.1 - - + +
157E LEU* 3.0 34.6 + - + +
192E LEU* 5.0 3.1 - - + -
196E LEU* 3.6 42.6 - - + -
200E LEU* 5.1 6.5 - - + -
246E LEU* 5.6 4.7 - - + -
294E VAL* 4.2 27.4 - - + -
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Residues in contact with MET 154 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22E HIS* 6.2 3.6 - - + -
150E LEU* 3.0 9.2 + - + +
151E ASP* 3.5 23.1 - - + +
152E TYR 3.2 0.2 - - - -
153E VAL* 1.3 80.5 - - - +
155E THR* 1.3 64.3 + - - +
157E LEU* 3.1 10.6 + - + +
158E LEU* 2.9 19.8 + - + +
196E LEU* 4.9 5.0 - - + +
199E ARG* 5.0 22.4 - - - +
200E LEU* 6.5 1.3 - - - -
203E ARG* 6.4 0.2 - - - +
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Residues in contact with THR 155 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
396D HIS* 3.2 34.6 + - + +
397D ALA* 3.5 26.0 + - + -
401D GLN* 5.5 4.5 - - - -
151E ASP* 2.8 24.2 + - - +
154E MET* 1.3 73.2 - - - +
156E THR* 1.3 62.8 + - - +
158E LEU* 3.2 14.8 - - + +
159E PHE* 2.9 49.4 + - + -
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Residues in contact with THR 156 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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393D PHE* 3.7 20.4 - - - -
152E TYR* 2.5 30.5 + - + -
153E VAL* 3.0 21.6 - - + -
155E THR* 1.3 76.8 - - - +
157E LEU* 1.3 69.5 + - + +
159E PHE* 3.3 3.3 + - - +
160E SER* 2.9 22.9 + - - -
171E TRP* 3.4 40.2 - - + -
291E SER 5.8 3.4 - - - +
294E VAL* 6.0 4.3 - - + -
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Residues in contact with LEU 157 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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153E VAL* 3.0 17.8 + - + +
154E MET* 3.7 12.6 - - + +
156E THR* 1.3 84.1 - - + +
158E LEU* 1.3 62.7 + - - +
160E SER* 3.6 11.4 - - - +
161E ASP* 2.8 25.1 + - - +
200E LEU* 3.5 40.6 - - + -
203E ARG* 2.9 38.2 + - - +
204E TYR* 4.2 15.3 - - + +
246E LEU* 6.0 0.9 - - + -
291E SER* 4.5 13.2 - - - +
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Residues in contact with LEU 158 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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343D ILE* 5.1 9.2 - - + -
396D HIS* 4.1 17.7 - - + -
403D PRO* 3.6 40.8 - - + +
154E MET* 2.9 9.1 + - + +
155E THR* 3.2 23.3 - - + +
156E THR 3.1 0.2 - - - -
157E LEU* 1.3 74.5 - - - +
159E PHE* 1.3 66.3 + - + +
161E ASP* 3.0 10.7 + - + +
162E LYS* 3.0 38.9 + - + +
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Residues in contact with PHE 159 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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338D LEU* 3.9 17.7 - - + -
343D ILE* 3.5 29.4 - - + -
392D PRO 5.0 0.9 - - - -
393D PHE* 3.8 45.3 - + + -
396D HIS* 4.1 25.6 - + + -
155E THR* 2.9 47.4 + - + -
156E THR 3.7 4.3 - - - +
158E LEU* 1.3 72.1 - - + +
160E SER* 1.3 57.1 + - - +
162E LYS* 2.7 28.5 + - - +
163E ASN 2.9 9.7 + - - -
164E VAL* 3.4 32.6 + - + -
169E ILE* 6.1 3.4 - - + -
171E TRP* 5.5 3.8 - - - +
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Residues in contact with SER 160 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
156E THR* 2.9 19.8 + - - -
157E LEU* 3.6 16.6 - - - +
159E PHE* 1.3 75.3 - - - +
161E ASP* 1.3 60.7 + - - +
163E ASN* 3.4 12.8 + - - +
164E VAL 5.3 0.9 - - - +
171E TRP* 6.0 3.6 - - - -
291E SER* 4.8 17.2 + - - -
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Residues in contact with ASP 161 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
157E LEU 2.8 13.6 + - - +
158E LEU* 3.0 12.1 + - + +
160E SER* 1.3 74.6 - - - +
162E LYS* 1.3 66.0 + - + +
163E ASN* 3.0 12.8 + - - +
203E ARG* 5.2 11.3 + - - +
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Residues in contact with LYS 162 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
341D CYS* 3.4 24.9 - - - +
342D GLN 5.2 6.0 + - - -
343D ILE* 3.5 33.7 - - + -
403D PRO* 6.5 0.2 - - - -
158E LEU* 3.0 27.4 + - + +
159E PHE 2.7 13.2 + - - +
161E ASP* 1.3 78.1 - - + +
163E ASN* 1.3 69.4 + - - +
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Residues in contact with ASN 163 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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341D CYS* 3.2 10.9 - - - -
159E PHE 2.9 4.8 + - - -
160E SER* 3.4 10.7 + - - +
161E ASP 3.0 8.4 - - - +
162E LYS* 1.3 81.1 - - - +
164E VAL* 1.3 73.7 + - - +
165E ASN* 3.3 3.3 + - - +
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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