Contacts of the helix formed by residues 191 - 212 (chain C) in PDB entry 2VUU
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 C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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154C ASN* 3.3 25.5 + - - +
155C ASN* 5.3 4.1 - - - +
190C LEU* 1.3 78.2 - - - +
192C ALA* 1.3 57.2 + - - +
193C GLU* 3.9 2.6 + - - +
194C HIS* 3.2 12.0 + - - +
195C ASP* 2.8 53.7 + - - +
196C VAL 3.9 0.3 + - - -
220C PHE* 5.1 1.0 - - - +
329C ARG* 2.5 60.4 + - - +
334C TYR* 3.9 8.1 - - - +
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Residues in contact with ALA 192 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16C ARG* 3.9 25.6 - - + +
17C GLN 4.9 0.2 - - - +
20C SER* 3.4 4.2 + - - -
153C TYR* 3.7 33.4 - - + -
155C ASN* 4.1 10.1 + - - +
190C LEU* 3.6 7.9 + - - +
191C ASP* 1.3 71.4 + - - +
193C GLU* 1.3 63.6 + - - +
196C VAL* 3.1 41.5 + - + +
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Residues in contact with GLU 193 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16C ARG* 4.5 23.1 - - + +
20C SER* 3.1 25.0 + - - +
23C ARG* 4.6 14.3 + - - +
155C ASN* 3.8 21.1 + - - +
191C ASP* 3.5 4.9 + - - +
192C ALA* 1.3 78.8 - - - +
194C HIS* 1.3 59.8 + - - +
198C PRO* 5.2 0.3 - - - +
329C ARG* 4.8 7.0 - - - +
338C VAL* 6.5 0.2 - - - -
342C GLU* 3.9 12.7 - - - +
711K SER* 2.7 35.7 + - - +
712K LEU* 6.1 0.2 - - - +
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Residues in contact with HIS 194 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
191C ASP* 3.2 21.4 + - - +
193C GLU* 1.3 81.0 - - - +
195C ASP* 1.3 84.2 + - - +
198C PRO* 3.5 19.3 - - - +
325C TRP* 4.2 3.3 - + - -
327C GLY 2.8 30.1 - - - -
328C TRP 3.8 0.4 - - - -
329C ARG* 3.4 51.2 + - + +
333C GLU* 4.9 5.6 + - - -
696K ALA* 3.7 19.1 - - + +
708K ARG* 3.7 30.4 + - - +
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Residues in contact with ASP 195 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
190C LEU* 4.3 0.9 - - + -
191C ASP* 2.8 36.2 + - - +
194C HIS* 1.3 100.1 + - - +
196C VAL* 1.3 63.4 + - - +
197C GLY 3.4 2.0 - - - -
198C PRO* 3.6 2.1 - - - +
199C ALA* 3.2 25.5 + - - +
220C PHE* 3.4 25.6 - - + +
325C TRP* 2.8 23.1 + - + +
328C TRP* 3.0 16.0 - - - +
329C ARG 3.0 18.0 + - - +
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Residues in contact with VAL 196 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17C GLN* 3.4 42.6 - - + +
20C SER* 3.9 2.2 - - - +
78C PHE* 4.6 0.7 - - + -
190C LEU* 3.8 21.5 - - + -
191C ASP 3.9 0.2 + - - -
192C ALA* 3.1 35.4 + - + +
195C ASP* 1.3 78.0 - - - +
197C GLY* 1.3 63.1 + - - +
199C ALA* 3.8 0.9 - - - +
200C LEU* 3.0 43.3 + - + +
218C LEU* 3.8 19.1 - - + -
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Residues in contact with GLY 197 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20C SER* 2.6 27.2 + - - -
21C LEU* 3.6 25.6 - - - +
24C VAL* 3.9 8.5 - - - +
196C VAL* 1.3 75.2 - - - +
198C PRO* 1.3 66.8 - - - +
200C LEU* 3.9 1.9 - - - +
201C LEU* 3.0 24.1 + - - +
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Residues in contact with PRO 198 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20C SER* 4.2 1.6 - - - +
24C VAL* 3.9 18.4 - - + -
193C GLU 5.2 0.2 - - - +
194C HIS 3.5 25.1 - - - +
195C ASP 3.6 5.4 - - - +
197C GLY* 1.3 90.5 - - - +
199C ALA* 1.3 60.0 + - - +
201C LEU* 3.6 6.7 + - + +
202C GLN* 3.2 21.1 + - - +
324C LEU 4.8 0.3 - - - +
325C TRP* 3.6 43.5 - - + +
700K PHE* 4.3 15.5 - - + -
704K HIS* 5.1 5.4 + - - +
708K ARG* 5.2 4.5 - - - -
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Residues in contact with ALA 199 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
195C ASP 3.2 18.8 + - - +
196C VAL 3.8 2.5 - - - +
198C PRO* 1.3 76.0 - - - +
200C LEU* 1.3 66.5 + - - +
201C LEU 3.1 2.0 - - - -
202C GLN* 3.1 7.5 + - - +
203C ILE* 3.0 26.3 + - + +
218C LEU* 3.9 25.1 - - + -
220C PHE* 4.2 12.6 - - + -
321C ALA* 6.3 0.4 - - - -
324C LEU* 4.7 9.7 - - + +
325C TRP* 4.2 10.9 - - + +
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Residues in contact with LEU 200 (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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21C LEU* 3.9 19.3 - - + -
78C PHE* 3.3 50.9 - - + -
109C ILE* 4.2 30.9 - - + +
148C VAL* 4.2 18.8 - - + -
196C VAL* 3.0 32.0 + - + +
197C GLY 3.9 2.2 - - - +
199C ALA* 1.3 75.7 - - - +
201C LEU* 1.3 57.5 + - - +
203C ILE* 3.2 9.0 + - + +
204C PHE* 2.9 34.6 + - + -
218C LEU* 4.9 6.1 - - + -
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Residues in contact with LEU 201 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8C ILE* 5.1 1.1 - - + -
21C LEU* 4.5 14.7 - - + +
24C VAL* 3.3 26.2 - - + -
25C ALA* 4.6 4.9 - - + -
28C VAL* 4.0 21.5 - - + -
30C HIS* 4.0 27.8 - - + +
197C GLY 3.0 17.9 + - - +
198C PRO* 3.7 6.7 - - + +
199C ALA 3.1 0.2 - - - -
200C LEU* 1.3 78.4 - - - +
202C GLN* 1.3 57.0 + - - +
204C PHE* 3.3 13.5 + - + +
205C LYS* 2.9 39.5 + - - +
704K HIS* 3.9 23.3 - - + +
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Residues in contact with GLN 202 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
198C PRO 3.2 9.2 + - - +
199C ALA 3.1 10.2 + - - +
201C LEU* 1.3 75.5 - - - +
203C ILE* 1.3 61.4 + - - +
205C LYS* 3.6 24.3 - - - +
206C ASP* 2.8 41.3 + - - +
323C LYS 5.4 0.4 - - - +
324C LEU* 2.9 43.9 + - + +
703K LEU* 4.9 12.9 - - - +
704K HIS* 4.5 12.9 + - - -
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Residues in contact with ILE 203 (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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107C HIS* 3.5 19.0 - - + +
109C ILE* 3.6 17.7 - - + -
146C THR* 4.2 7.2 - - + -
148C VAL* 3.7 29.8 - - + -
199C ALA 3.0 17.9 + - - +
200C LEU* 3.4 16.8 - - + +
202C GLN* 1.3 78.1 - - - +
204C PHE* 1.3 62.4 + - - +
206C ASP 3.3 1.2 + - - -
207C GLY 3.0 17.2 + - - -
211C TRP* 3.6 23.3 - - + +
216C ILE* 3.9 17.7 - - + -
218C LEU* 5.6 3.6 - - + -
324C LEU* 3.8 22.0 - - + -
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Residues in contact with PHE 204 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8C ILE* 4.1 29.2 - - + -
21C LEU* 4.2 18.6 - - + -
30C HIS* 6.2 1.6 - - + +
76C LEU* 3.9 29.4 - - + +
77C ALA 3.2 29.6 - - - -
78C PHE* 4.2 1.6 - - + -
107C HIS* 3.5 32.6 + - + -
109C ILE* 3.2 32.8 - - + -
200C LEU* 2.9 22.1 + - + -
201C LEU* 3.7 13.9 - - + +
203C ILE* 1.3 76.9 - - - +
205C LYS* 1.3 61.7 + - - +
207C GLY* 3.3 12.5 + - - -
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Residues in contact with LYS 205 (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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3C GLN 6.4 0.2 - - - +
5C LYS* 6.5 0.7 - - - +
30C HIS* 5.4 4.4 + - - -
201C LEU* 2.9 27.2 + - - +
202C GLN* 3.6 22.0 - - - +
203C ILE 3.2 0.2 - - - -
204C PHE* 1.3 74.9 - - - +
206C ASP* 1.3 65.2 + - - +
207C GLY* 3.0 2.6 + - - -
209C GLN* 5.9 0.2 + - - -
703K LEU 4.6 6.1 - - - +
704K HIS* 3.1 37.8 + - + -
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Residues in contact with ASP 206 (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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202C GLN* 2.8 33.5 + - - +
203C ILE 3.3 0.2 + - - -
205C LYS* 1.3 73.1 - - - +
207C GLY* 1.3 60.0 + - - +
209C GLN* 3.9 12.0 + - - +
210C LYS* 3.7 30.1 + - + +
211C TRP* 3.0 36.9 + - + +
324C LEU* 3.4 18.7 - - - +
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Residues in contact with GLY 207 (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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107C HIS* 3.3 15.9 - - - -
203C ILE 3.0 8.2 + - - -
204C PHE 3.6 11.4 - - - -
205C LYS 3.0 4.1 - - - -
206C ASP* 1.3 79.1 - - - +
208C PRO* 1.3 76.2 - - - +
209C GLN* 3.3 7.6 - - - -
210C LYS 3.5 0.5 + - - -
211C TRP* 3.4 18.7 + - - -
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Residues in contact with PRO 208 (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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6C LYS* 6.4 0.2 - - - +
106C GLN* 3.0 35.7 - - + +
107C HIS* 3.9 24.5 - - + +
144C PRO* 4.5 11.0 - - + -
204C PHE 5.2 0.7 - - - +
207C GLY* 1.3 83.7 - - - +
209C GLN* 1.3 77.0 + - - +
212C ASN* 2.7 44.8 + - + +
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Residues in contact with GLN 209 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
206C ASP 3.9 14.9 + - - +
207C GLY* 4.1 2.4 - - - -
208C PRO* 1.3 99.0 - - - +
210C LYS* 1.3 61.4 + - + +
212C ASN* 4.6 2.9 + - - +
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Residues in contact with LYS 210 (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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206C ASP* 3.7 42.5 + - + +
207C GLY 3.5 0.8 + - - -
208C PRO 3.2 0.4 - - - -
209C GLN* 1.3 84.8 - - + +
211C TRP* 1.3 94.3 + - + +
212C ASN 3.8 0.2 - - - -
214C HIS* 3.4 18.9 + - - -
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Residues in contact with TRP 211 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
107C HIS* 4.3 1.8 - - - +
146C THR* 2.6 36.4 + - + +
203C ILE* 3.6 18.1 + - + +
206C ASP* 3.0 32.1 + - + +
207C GLY 3.4 19.0 + - - +
208C PRO 4.7 0.2 - - - -
210C LYS* 1.3 110.1 - - + +
212C ASN* 1.3 68.5 + - - +
214C HIS* 3.0 46.9 + + - +
216C ILE* 3.4 26.7 - - + -
320C GLU* 3.6 29.8 - - - -
324C LEU* 3.4 32.1 - - + +
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Residues in contact with ASN 212 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143C LEU 4.6 1.2 - - - +
144C PRO* 3.8 22.9 - - - +
145C SER* 3.2 21.3 + - - -
146C THR* 4.1 0.4 - - - -
208C PRO* 2.7 31.0 + - - +
209C GLN* 4.6 2.6 + - - +
210C LYS 3.8 1.2 - - - -
211C TRP* 1.3 71.7 - - - +
213C GLY* 1.3 70.5 + - - +
214C HIS* 3.0 14.7 + - - -
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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