Contacts of the helix formed by residues 177 - 191 (chain L) in PDB entry 4ZZ7
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 177 (chain L).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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86L ILE* 5.4 0.7 - - - +
89L GLU* 3.1 34.4 - - + +
90L HIS* 3.6 19.1 - - - +
148L PHE* 2.7 39.6 - - - +
151L PRO* 3.4 29.4 - - + +
174L SER* 3.5 8.9 + - - +
175L GLU 3.4 0.2 - - - -
176L ARG* 1.3 78.2 - - - +
178L PRO* 1.3 63.1 - - - +
179L SER 3.4 0.2 + - - -
180L SER* 3.6 11.3 + - - +
181L THR* 4.2 1.2 + - - -
324L ILE* 4.6 1.3 - - + +
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Residues in contact with PRO 178 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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4L ILE* 4.1 15.5 - - + -
22L VAL* 4.1 7.4 - - + -
34L LEU* 3.8 25.6 - - + -
89L GLU* 3.8 6.5 - - - +
173L PRO* 5.2 2.1 - - + +
174L SER 3.6 8.9 - - - +
175L GLU 3.5 11.2 - - - +
176L ARG 3.8 1.8 - - - +
177L ASP* 1.3 88.5 - - - +
179L SER* 1.3 59.3 + - - +
180L SER 3.5 0.4 - - - -
181L THR* 3.6 9.2 + - - -
182L LEU* 3.1 29.6 + - - +
202L ASN* 3.1 32.8 + - - +
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Residues in contact with SER 179 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4L ILE* 3.1 23.0 - - - +
32L LYS* 3.4 12.2 + - - -
85L LEU* 4.1 22.6 - - - +
88L GLU* 5.5 0.7 - - - -
89L GLU* 2.4 40.4 + - - -
178L PRO* 1.3 70.7 - - - +
180L SER* 1.3 64.4 + - - +
182L LEU* 3.3 5.8 + - - +
183L TYR* 3.0 24.6 + - - +
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Residues in contact with SER 180 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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82L ILE* 4.3 3.3 - - - +
85L LEU* 3.7 23.5 + - - +
86L ILE* 3.5 32.0 - - - +
89L GLU* 3.9 1.3 + - - -
151L PRO* 3.4 25.6 - - - +
152L VAL* 3.8 10.8 - - - +
177L ASP* 3.6 5.5 + - - +
179L SER* 1.3 76.4 - - - +
181L THR* 1.3 65.5 + - - +
183L TYR* 3.3 3.8 + - - +
184L ILE* 3.2 24.4 + - - +
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Residues in contact with THR 181 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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151L PRO* 2.2 45.3 + - - +
152L VAL* 4.8 0.9 - - - -
155L PRO* 4.3 4.9 - - + -
159L PHE* 6.0 0.4 - - + -
171L LEU* 3.7 30.3 - - + -
173L PRO* 3.7 26.8 - - + +
177L ASP 4.2 2.6 + - - -
178L PRO* 3.6 9.6 + - - -
180L SER* 1.3 78.9 + - - +
182L LEU* 1.3 62.1 + - - +
183L TYR 3.4 0.3 + - - -
184L ILE* 3.4 12.7 + - + +
185L ALA* 3.2 19.6 + - - +
200L VAL* 5.1 2.7 - - + -
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Residues in contact with LEU 182 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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4L ILE* 3.6 21.1 - - + -
5L GLY 3.5 26.5 - - - +
7L LEU* 3.8 34.3 - - + +
12L LEU* 4.3 17.0 - - + -
178L PRO 3.1 18.6 + - - +
179L SER* 3.3 5.4 + - - +
181L THR* 1.3 74.8 - - - +
183L TYR* 1.3 64.9 + - - +
185L ALA* 3.4 3.7 + - - +
186L GLN* 3.2 26.8 + - + +
200L VAL* 4.4 15.5 - - + -
202L ASN* 4.5 4.7 - - - +
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Residues in contact with TYR 183 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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78L HIS* 2.7 38.0 + + + +
81L GLU* 4.2 17.6 + - + +
82L ILE* 3.5 29.6 - - + -
85L LEU* 3.6 19.7 - - + -
179L SER 3.0 12.9 + - - +
180L SER 3.4 9.0 - - - +
181L THR 3.2 0.2 - - - -
182L LEU* 1.3 76.0 - - - +
184L ILE* 1.3 64.4 + - - +
186L GLN* 3.0 33.7 + - + +
187L LEU* 3.1 38.7 + - + +
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Residues in contact with ILE 184 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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71L PHE* 3.4 26.2 - - + -
75L LEU* 3.5 26.9 - - + -
82L ILE* 3.8 20.6 - - + -
101L LEU* 4.4 0.7 - - + -
152L VAL* 3.2 48.7 - - + +
155L PRO* 6.0 1.1 - - + -
156L LEU* 4.4 7.0 - - + -
159L PHE* 3.8 27.1 - - + -
180L SER 3.2 5.3 + - - +
181L THR* 3.5 12.8 - - + +
183L TYR* 1.3 81.5 - - - +
185L ALA* 1.3 61.7 + - - +
187L LEU* 3.3 14.3 + - - +
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Residues in contact with ALA 185 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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7L LEU* 3.6 11.2 - - + +
159L PHE* 5.2 3.4 - - + -
171L LEU* 5.8 0.7 - - + -
181L THR 3.2 11.5 + - - +
182L LEU 3.7 8.7 - - - +
183L TYR 3.2 0.8 - - - -
184L ILE* 1.3 76.6 - - + +
186L GLN* 1.3 65.0 + - - +
188L LEU* 3.3 15.7 + - - +
189L GLN* 3.2 16.5 - - - +
198L MET* 4.4 16.1 - - + +
200L VAL* 3.5 31.4 - - + -
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Residues in contact with GLN 186 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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7L LEU* 4.4 11.4 - - + -
12L LEU* 3.4 42.1 - - + +
182L LEU* 3.2 20.7 + - + +
183L TYR* 3.0 27.3 + - + +
185L ALA* 1.3 76.0 - - - +
187L LEU* 1.3 60.0 + - + +
189L GLN* 3.0 28.8 + - - +
190L GLU* 3.4 8.9 + - - +
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Residues in contact with LEU 187 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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71L PHE* 3.9 9.8 - - + -
74L LEU* 3.4 36.2 - - + +
75L LEU* 4.3 7.6 - - + -
78L HIS* 3.7 24.9 - - + +
82L ILE* 4.1 13.0 - - + -
183L TYR* 3.1 47.3 + - + +
184L ILE* 3.4 13.2 - - - +
185L ALA 3.3 0.4 - - - -
186L GLN* 1.3 77.6 - - + +
188L LEU* 1.3 56.4 + - - +
189L GLN 3.4 0.2 - - - -
190L GLU* 3.6 21.8 - - - +
191L ALA* 3.1 21.7 + - - +
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Residues in contact with LEU 188 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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67L VAL* 4.3 13.5 - - + -
68L MET* 4.3 10.1 - - - -
71L PHE* 3.3 44.4 - - + -
159L PHE* 3.8 30.5 - - + -
163L ILE* 3.9 10.1 - - + -
184L ILE 3.5 3.0 + - - +
185L ALA* 3.3 12.5 + - - +
186L GLN 3.1 1.0 - - - -
187L LEU* 1.3 76.4 - - - +
189L GLN* 1.4 64.4 + - - +
191L ALA* 3.3 8.1 + - - +
192L GLY 3.5 0.7 + - - -
193L LEU* 3.2 51.6 + - + +
198L MET* 3.9 8.1 - - + -
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Residues in contact with GLN 189 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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7L LEU* 3.7 12.6 - - + +
10L GLY* 3.7 35.6 - - - +
185L ALA 3.2 15.8 - - - +
186L GLN* 3.0 11.1 + - - +
188L LEU* 1.4 74.6 - - - +
190L GLU* 1.3 58.9 + - - +
192L GLY* 2.9 22.9 + - - -
193L LEU* 3.6 16.6 + - - +
194L PRO 4.1 15.6 + - - -
195L ASP* 4.0 19.1 + - - +
198L MET* 4.1 14.4 + - - +
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Residues in contact with GLU 190 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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70L ARG* 5.6 0.3 - - - -
74L LEU* 3.9 27.3 - - + +
77L GLN* 5.4 0.3 - - - +
78L HIS* 4.5 8.8 + - - -
186L GLN 3.4 5.5 + - - +
187L LEU* 3.6 29.2 - - - +
188L LEU 3.3 0.2 - - - -
189L GLN* 1.3 79.4 - - - +
191L ALA* 1.3 56.8 + - - +
192L GLY* 3.1 5.5 + - - -
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Residues in contact with ALA 191 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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67L VAL* 3.7 13.6 - - + +
70L ARG* 2.9 39.2 + - + +
71L PHE* 3.6 36.1 - - + +
74L LEU* 3.8 6.9 - - + +
187L LEU 3.1 17.3 + - - +
188L LEU* 3.6 9.0 - - - +
189L GLN 3.2 0.8 - - - -
190L GLU* 1.3 74.1 - - - +
192L GLY* 1.3 57.9 - - - +
193L LEU 3.7 0.4 - - - -
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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
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Atomic class I II III IV V VI VII VIII
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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