Contacts of the helix formed by residues 191 - 212 (chain G) in PDB entry 2VUT
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 ASP 191 (chain G).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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154G ASN* 3.3 30.3 + - - +
155G ASN* 5.6 2.7 - - - +
190G LEU* 1.3 75.0 - - - +
192G ALA* 1.3 55.0 + - - +
193G GLU* 3.8 3.1 + - - +
194G HIS* 3.2 11.9 + - + +
195G ASP* 2.8 53.8 + - - +
196G VAL 3.8 1.0 + - - -
220G PHE* 5.4 0.6 - - - -
329G ARG* 2.7 53.1 + - - +
334G TYR* 3.7 12.8 - - - +
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Residues in contact with ALA 192 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16G ARG* 3.9 32.8 - - + +
17G GLN 5.0 0.2 - - - +
20G SER* 3.0 19.2 + - - -
153G TYR* 4.0 28.4 - - + +
154G ASN 5.1 0.8 - - - +
155G ASN* 4.7 6.0 + - - +
190G LEU* 3.3 6.8 + - - -
191G ASP* 1.3 71.4 + - - +
193G GLU* 1.3 61.9 + - + +
196G VAL* 3.2 29.8 + - + +
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Residues in contact with GLU 193 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16G ARG* 3.3 35.6 - - + +
19G ALA* 4.4 2.3 - - - +
20G SER* 3.0 18.7 + - - -
23G ARG* 3.4 29.2 + - - +
43G ILE* 5.2 3.8 - - - +
155G ASN* 4.6 18.8 - - + +
191G ASP* 3.6 5.0 + - - +
192G ALA* 1.3 79.5 - - - +
194G HIS* 1.3 59.1 + - - +
198G PRO* 5.4 0.7 - - - +
329G ARG* 4.6 7.6 - - - +
342G GLU* 5.6 2.2 - - - +
1353G GOL 4.5 7.1 + - - +
708O ARG* 5.5 0.3 + - - -
711O SER 3.3 26.0 - - - +
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Residues in contact with HIS 194 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
191G ASP* 3.2 20.6 + - - +
193G GLU* 1.3 80.5 - - - +
195G ASP* 1.3 83.9 + - - +
198G PRO* 3.5 20.1 - - - +
325G TRP* 4.2 2.7 + + - -
327G GLY 3.0 26.9 - - - -
328G TRP 3.9 0.7 - - - -
329G ARG* 3.4 36.2 - - + +
333G GLU* 4.3 7.2 + - - -
1353G GOL 3.2 33.0 + - - +
696O ALA* 3.6 20.0 - - + +
708O ARG* 3.5 20.7 + - - +
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Residues in contact with ASP 195 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
190G LEU* 4.4 1.3 - - + -
191G ASP* 2.8 33.3 + - - +
194G HIS* 1.3 96.3 + - - +
196G VAL* 1.3 64.6 + - - +
197G GLY 3.4 2.2 - - - -
198G PRO* 3.6 3.3 - - - +
199G ALA* 3.2 25.5 + - - +
220G PHE* 3.6 24.1 - - + +
325G TRP* 2.8 23.8 + - + +
328G TRP* 3.1 17.5 - - - +
329G ARG 2.9 20.4 + - - +
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Residues in contact with VAL 196 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17G GLN* 3.7 39.7 - - + +
20G SER* 4.0 1.6 - - - +
78G PHE* 4.7 1.1 - - + -
190G LEU* 3.7 32.3 - - + -
191G ASP 3.8 0.6 + - - -
192G ALA* 3.2 23.4 + - - +
195G ASP* 1.3 77.0 - - - +
197G GLY* 1.3 65.8 + - - +
199G ALA* 3.7 4.1 - - - +
200G LEU* 3.0 46.2 + - + +
218G LEU* 4.4 13.0 - - + -
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Residues in contact with GLY 197 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20G SER* 2.9 37.5 + - - -
21G LEU* 3.9 10.7 - - - +
24G VAL* 3.9 9.1 - - - +
196G VAL* 1.3 77.6 - - - +
198G PRO* 1.3 68.0 - - - +
200G LEU* 3.3 2.1 + - - +
201G LEU* 3.0 23.0 + - - +
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Residues in contact with PRO 198 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20G SER* 4.5 1.3 - - - +
24G VAL* 4.0 11.9 - - + -
193G GLU 5.4 0.4 - - - +
194G HIS 3.5 26.0 - - - +
195G ASP 3.6 3.6 - - - +
197G GLY* 1.3 87.1 - - - +
199G ALA* 1.3 63.0 + - - +
201G LEU* 3.2 8.7 + - + +
202G GLN* 3.0 22.7 + - - +
325G TRP* 3.4 45.9 - - + +
700O PHE* 4.2 20.6 - - + -
704O HIS* 5.0 5.1 + - - +
708O ARG* 5.3 4.3 - - + -
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Residues in contact with ALA 199 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
195G ASP 3.2 17.2 + - - +
196G VAL 3.7 2.5 - - - +
198G PRO* 1.3 77.7 - - - +
200G LEU* 1.3 63.3 + - - +
202G GLN* 3.2 6.8 + - - +
203G ILE* 3.1 27.1 + - + +
218G LEU* 3.5 32.3 - - + -
220G PHE* 3.9 11.9 - - + -
324G LEU* 4.4 9.7 - - + +
325G TRP* 4.0 11.1 - - + +
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Residues in contact with LEU 200 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21G LEU* 3.9 20.4 - - + -
78G PHE* 3.5 55.0 - - + -
109G ILE* 4.1 21.9 - - + +
148G VAL* 4.2 17.5 - - + -
196G VAL* 3.0 34.9 + - + +
197G GLY 3.8 3.1 - - - +
199G ALA* 1.3 73.5 - - - +
201G LEU* 1.3 68.1 + - - +
203G ILE* 3.0 8.7 + - + +
204G PHE* 3.0 31.9 + - + -
218G LEU* 4.5 6.3 - - + -
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Residues in contact with LEU 201 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8G ILE* 5.0 0.7 - - + -
21G LEU* 4.6 6.5 - - + +
24G VAL* 3.1 33.4 - - + -
25G ALA* 4.3 10.8 - - + +
28G VAL* 3.8 26.0 - - + -
30G HIS* 3.9 30.7 - - + +
197G GLY 3.0 9.3 + - - +
198G PRO* 3.2 10.1 + - + +
200G LEU* 1.3 76.3 - - - +
202G GLN* 1.3 58.5 + - - +
204G PHE* 3.3 11.3 + - + +
205G LYS* 2.9 30.6 + - - +
704O HIS* 4.2 25.6 - - + +
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Residues in contact with GLN 202 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
198G PRO 3.0 12.3 + - - +
199G ALA 3.5 8.3 - - - +
200G LEU 3.1 0.2 - - - -
201G LEU* 1.3 79.5 - - - +
203G ILE* 1.3 55.9 + - - +
205G LYS* 3.3 16.1 + - - +
206G ASP* 2.8 58.3 + - - +
323G LYS 5.4 0.4 - - - +
324G LEU* 3.3 45.3 + - + +
325G TRP* 6.5 0.2 - - + -
703O LEU* 4.6 15.6 - - - +
704O HIS* 4.3 19.2 + - - +
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Residues in contact with ILE 203 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
107G HIS* 3.7 17.0 + - + +
109G ILE* 3.5 21.8 - - + -
146G THR* 4.3 4.3 - - + -
148G VAL* 3.8 23.8 - - + -
199G ALA* 3.1 17.8 + - + +
200G LEU* 3.0 16.4 + - + +
202G GLN* 1.3 75.8 - - - +
204G PHE* 1.3 61.8 + - - +
206G ASP 3.2 1.9 + - - -
207G GLY* 3.0 19.4 + - - -
211G TRP* 3.5 25.9 - - + +
216G ILE* 3.7 23.3 - - + -
218G LEU* 5.7 1.1 - - + -
324G LEU* 3.7 21.1 - - + -
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Residues in contact with PHE 204 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8G ILE* 4.2 21.8 - - + -
21G LEU* 4.4 17.0 - - + -
30G HIS* 5.6 2.5 - - + -
76G LEU* 3.8 40.7 - - + +
77G ALA 3.6 24.7 - - - -
78G PHE* 4.4 2.9 - - + -
107G HIS* 3.6 32.5 - + + -
109G ILE* 3.4 29.2 - - + -
200G LEU* 3.0 23.7 + - + -
201G LEU* 3.6 14.4 - - + +
203G ILE* 1.3 77.3 - - - +
205G LYS* 1.3 63.1 + - - +
207G GLY* 3.0 15.1 + - - -
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Residues in contact with LYS 205 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
5G LYS* 6.1 5.6 - - - +
201G LEU 2.9 16.8 + - - +
202G GLN* 3.5 24.6 - - - +
204G PHE* 1.3 77.8 - - - +
206G ASP* 1.3 65.6 + - - +
207G GLY* 4.3 0.5 - - - -
65H PRO* 5.8 0.8 - - - +
703O LEU* 2.8 30.5 + - - +
704O HIS* 3.2 24.1 + - + +
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Residues in contact with ASP 206 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
202G GLN* 2.8 36.7 + - - +
203G ILE 3.2 0.2 + - - -
205G LYS* 1.3 77.0 - - - +
207G GLY* 1.3 60.9 + - - +
209G GLN* 4.3 9.9 - - - +
210G LYS* 3.7 27.3 + - + +
211G TRP* 2.8 43.7 + - + +
324G LEU* 3.6 10.9 - - - +
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Residues in contact with GLY 207 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
107G HIS* 3.6 6.7 + - - -
203G ILE 3.0 9.8 + - - -
204G PHE 3.0 13.1 + - - -
205G LYS 4.3 0.4 - - - -
206G ASP* 1.3 78.8 - - - +
208G PRO* 1.4 75.9 - - - +
209G GLN* 3.2 7.0 - - - -
210G LYS* 3.1 12.1 + - - +
211G TRP* 3.1 13.9 + - - -
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Residues in contact with PRO 208 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
106G GLN* 3.6 27.1 - - + +
107G HIS* 3.3 31.5 - - + +
144G PRO* 4.1 15.0 - - + -
207G GLY* 1.4 80.4 - - - +
209G GLN* 1.3 85.2 + - - +
212G ASN* 2.7 42.1 + - + +
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Residues in contact with GLN 209 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
206G ASP 4.3 9.2 - - - +
207G GLY* 4.1 7.8 - - - -
208G PRO* 1.3 109.9 - - - +
210G LYS* 1.3 58.8 + - + +
212G ASN* 4.8 0.9 + - - +
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Residues in contact with LYS 210 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
206G ASP* 3.7 36.6 + - + +
207G GLY 3.1 7.7 + - - +
209G GLN* 1.3 84.0 - - + +
211G TRP* 1.3 87.6 + - + +
212G ASN 3.6 0.4 - - - -
214G HIS* 3.0 22.7 + - - -
323G LYS* 4.0 26.6 - - - +
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Residues in contact with TRP 211 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
107G HIS* 4.1 2.7 - - - +
146G THR* 2.6 35.2 + - + +
203G ILE* 3.5 22.0 - - + +
206G ASP* 2.8 47.6 + - + +
207G GLY 3.1 10.0 + - - +
208G PRO* 3.8 0.7 - - - -
210G LYS* 1.3 99.9 - - + +
212G ASN* 1.3 66.2 + - - +
213G GLY 3.3 0.2 + - - -
214G HIS* 3.1 38.6 + + - +
216G ILE* 3.5 21.3 - - + -
320G GLU* 3.3 33.4 - - + -
323G LYS* 5.7 7.9 - - + -
324G LEU* 3.6 30.1 - - + +
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Residues in contact with ASN 212 (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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214A HIS* 4.4 5.4 + - - -
281A GLU* 3.2 45.4 + - + +
143G LEU 4.0 3.2 + - - -
144G PRO* 3.1 36.0 - - - +
145G SER* 3.1 13.7 + - - +
146G THR* 4.3 0.2 - - - -
208G PRO* 2.7 32.9 + - + +
209G GLN 4.7 1.1 + - - +
210G LYS 3.6 1.4 - - - -
211G TRP* 1.3 70.7 - - - +
213G GLY* 1.3 65.7 + - - +
214G HIS* 3.1 9.2 + - - -
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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