Contacts of the strand formed by residues 210 - 221 (chain B) in PDB entry 4ZIN
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 210 (chain B).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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45B LYS* 4.7 16.6 - - + -
46B LEU 3.4 7.2 - - - +
47B LYS* 3.6 37.9 - - + -
204B HIS* 3.1 5.9 - - - +
205B ASN* 2.9 51.4 + - + +
209B THR* 1.3 84.6 - - - +
211B VAL* 1.3 63.0 + - - +
212B GLU* 5.4 4.9 - - + +
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Residues in contact with VAL 211 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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45B LYS* 3.6 1.9 - - - +
46B LEU* 2.8 36.6 + - - +
58B TRP* 3.8 48.7 - - + +
201B ILE* 3.8 28.7 - - + -
203B SER 3.7 3.8 - - - +
204B HIS* 4.2 1.3 - - + -
208B TYR* 3.6 33.2 - - + +
209B THR 4.9 0.2 - - - -
210B ILE* 1.3 78.6 - - - +
212B GLU* 1.3 71.1 + - - +
213B GLN* 4.5 1.8 - - + -
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Residues in contact with GLU 212 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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44B ALA 3.3 7.9 - - - +
45B LYS* 2.9 42.9 - - + +
201B ILE* 3.5 8.5 - - - +
202B THR* 2.9 35.7 + - - +
203B SER* 2.9 28.9 + - - +
204B HIS* 6.1 0.2 - - - -
210B ILE* 5.4 4.8 - - + +
211B VAL* 1.3 79.1 - - - +
213B GLN* 1.3 62.3 + - - +
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Residues in contact with GLN 213 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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43B THR* 3.2 7.3 - - - +
44B ALA 2.9 31.4 + - - +
46B LEU* 3.8 19.0 - - + +
58B TRP* 2.8 29.5 + - - -
62B SER* 3.1 31.6 + - - +
65B PHE* 4.0 8.8 - - - +
66B CH6 3.1 32.5 - - + -
199B LEU* 3.8 5.6 - - + +
200B ASP 3.3 8.7 - - - +
201B ILE* 3.5 12.9 - - + +
202B THR* 4.3 3.5 + - - -
211B VAL* 4.5 2.7 - - + -
212B GLU* 1.3 79.3 - - - +
214B TYR* 1.3 61.4 + - - +
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Residues in contact with TYR 214 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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41B THR* 4.4 9.5 - - - +
42B GLN 3.5 11.4 - - - -
43B THR* 3.6 15.5 - - + +
66B CH6 4.4 0.4 - - - -
198B LYS 3.9 0.9 - - - +
199B LEU* 3.6 2.9 - - - +
200B ASP* 2.8 42.2 + - + +
202B THR* 3.6 20.9 - - + -
213B GLN* 1.3 75.3 - - - +
215B GLU* 1.3 68.6 + - - +
216B ARG* 3.4 40.2 - - + +
141C MET* 3.4 33.3 - - + +
168C LYS* 2.6 34.0 + - - +
170C GLY* 3.9 20.6 - - - -
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Residues in contact with GLU 215 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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40B GLY 3.6 0.6 - - - +
41B THR* 3.4 4.7 - - - -
42B GLN* 3.0 50.9 + - + +
66B CH6 2.7 79.9 + - + +
69B SER* 4.0 2.9 + - - +
73B VAL* 5.7 1.2 - - - +
197B ILE* 3.8 11.2 - - + +
198B LYS 3.4 10.8 - - - +
199B LEU* 4.1 6.0 - - + +
214B TYR* 1.3 77.8 - - - +
216B ARG* 1.3 75.4 + - - +
217B ALA* 4.1 13.0 - - + +
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Residues in contact with ARG 216 (chain B).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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40B GLY 3.2 6.3 - - - +
41B THR* 4.2 10.1 - - + -
197B ILE* 3.4 1.9 - - - -
198B LYS* 2.8 66.0 + - - +
200B ASP* 2.9 27.9 + - - -
214B TYR* 3.4 32.1 - - + +
215B GLU* 1.3 81.5 - - - +
217B ALA* 1.3 62.0 + - - +
302B SO4 3.1 24.0 + - - +
168C LYS* 3.5 16.1 + - - +
169C ASP* 3.4 33.5 + - - +
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Residues in contact with ALA 217 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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39B GLU 4.7 0.3 - - - +
40B GLY* 3.0 16.7 + - - -
72B TYR 4.1 6.3 - - - +
73B VAL* 3.9 25.1 - - + -
74B LYS* 3.0 20.8 + - - +
195B VAL* 4.1 7.9 - - + -
196B ASN 3.2 7.0 - - - +
197B ILE* 4.2 6.5 - - + -
215B GLU* 4.1 15.5 - - + +
216B ARG* 1.3 76.4 - - - +
218B GLU* 1.3 60.0 + - - +
302B SO4 3.0 7.0 + - - -
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Residues in contact with GLU 218 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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73B VAL* 4.1 3.4 - - - -
74B LYS* 3.5 41.4 + - + +
76B PRO* 5.7 0.4 - - + -
195B VAL* 3.5 1.3 - - - +
196B ASN* 2.9 30.8 + - - -
217B ALA* 1.3 75.8 - - - +
219B GLY* 1.3 73.5 + - - +
220B ARG* 3.2 41.0 + - + +
302B SO4 3.1 21.5 + - - +
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Residues in contact with GLY 219 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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73B VAL* 3.8 4.7 - - - +
74B LYS 2.7 17.3 + - - -
75B HIS* 4.9 1.6 - - - -
76B PRO* 3.3 26.3 - - - +
193B TYR* 4.1 18.4 - - - -
194B ASN 3.3 8.3 - - - -
195B VAL* 4.3 3.1 - - - -
218B GLU* 1.3 77.4 - - - +
220B ARG* 1.3 68.6 + - - -
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Residues in contact with ARG 220 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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76B PRO* 5.0 1.8 - - - -
79B ILE* 4.3 4.7 - - - -
193B TYR* 3.5 4.5 - - - +
194B ASN* 2.7 35.6 + - + +
196B ASN* 3.6 29.7 - - - +
218B GLU* 3.2 39.1 + - - +
219B GLY* 1.3 82.5 - - - -
221B HIS* 1.3 70.5 + - - +
302B SO4 5.2 3.6 + - - -
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Residues in contact with HIS 221 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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76B PRO* 3.8 20.4 - - + +
78B ASP* 3.0 39.9 + - - -
79B ILE* 3.6 20.5 - - + +
193B TYR* 4.6 1.3 - - + -
194B ASN* 4.7 3.6 + - - -
220B ARG* 1.3 80.0 - - - +
222B SER* 1.3 59.9 + - - +
223B THR 3.2 22.7 - - - +
224B GLY 3.9 14.1 + - - +
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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