Contacts of the strand formed by residues 147 - 156 (chain B) in PDB entry 6I53
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 147 (chain B).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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139B ASP* 5.3 1.0 - - - +
146B ASP* 1.3 78.4 - - - +
148B GLN* 1.3 68.4 + - - +
149B ASN 4.3 0.3 + - - -
189B VAL* 5.0 3.3 - - - +
213B ARG* 3.4 42.7 + - + +
214B LEU 3.3 5.6 - - - +
215B LYS* 4.0 34.5 + - + +
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Residues in contact with GLN 148 (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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137B MET 4.6 1.0 - - - +
138B MET* 3.3 39.1 - - + +
139B ASP* 3.6 18.9 + - - +
140B LEU* 3.9 6.9 - - - +
146B ASP* 2.5 36.6 + - - +
147B GLU* 1.3 80.3 + - - +
149B ASN* 1.3 62.0 + - - +
150B CYS* 4.0 7.9 + - - -
186B PHE* 4.3 17.5 - - + -
212B PHE 3.6 0.7 - - - +
213B ARG* 3.3 6.6 - - - -
214B LEU* 2.6 61.4 + - + +
216B ARG* 4.7 2.5 - - - +
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Residues in contact with ASN 149 (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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137B MET 4.5 13.7 + - - +
147B GLU 4.3 0.6 + - - -
148B GLN* 1.3 74.8 + - - +
150B CYS* 1.3 66.9 + - - +
151B THR* 3.7 11.3 - - - +
211B SER* 4.0 1.2 - - - -
212B PHE 3.1 11.0 - - - +
213B ARG* 5.6 4.3 - - + +
1J NAG 1.4 67.0 + - + +
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Residues in contact with CYS 150 (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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57B TYR* 3.9 12.8 - - + -
136B CYS* 2.0 53.4 - - - +
138B MET* 4.6 7.4 - - - -
148B GLN* 4.0 8.1 + - - -
149B ASN* 1.3 79.6 + - - +
151B THR* 1.3 61.3 + - - +
212B PHE* 3.1 37.5 + - + +
214B LEU* 4.4 23.8 - - + +
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Residues in contact with THR 151 (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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57B TYR* 2.4 30.9 + - - -
100B ASN* 3.6 20.1 + - - +
134B ALA* 4.5 0.2 - - - +
135B ALA 4.9 3.3 + - - +
149B ASN* 3.7 17.3 - - - +
150B CYS* 1.3 75.0 - - - +
152B LEU* 1.3 56.6 + - - +
153B GLU* 3.2 23.9 + - - +
209B SER* 5.3 1.6 - - - -
210B LEU 3.3 11.7 - - - -
211B SER* 3.8 13.5 - - - -
212B PHE* 5.7 0.2 - - - -
1J NAG 4.2 15.9 - - - -
2J NAG 6.1 0.2 - - - +
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Residues in contact with LEU 152 (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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42B ILE* 4.9 5.2 - - + -
57B TYR* 3.5 12.6 - - - +
59B LEU* 3.7 23.6 - - + -
61B MET* 3.9 23.3 - - + -
98B PHE* 3.7 33.4 - - + -
100B ASN* 3.6 4.7 - - + +
132B THR* 4.5 8.7 - - + -
134B ALA* 4.1 16.6 - - + -
151B THR* 1.3 77.1 - - - +
153B GLU* 1.3 63.0 + - - +
154B ILE* 3.5 13.0 + - + +
209B SER* 3.3 3.1 - - - -
210B LEU* 2.7 42.3 + - + +
212B PHE* 5.8 0.7 - - + -
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Residues in contact with GLU 153 (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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97B TYR 3.8 0.2 - - - +
98B PHE* 3.3 7.0 - - - -
99B LEU* 3.0 45.5 + - + +
100B ASN* 3.1 24.5 + - - +
151B THR* 3.2 23.5 + - - +
152B LEU* 1.3 71.8 - - - +
154B ILE* 1.3 62.2 + - - +
155B GLU* 4.0 0.9 + - - +
196B ARG* 3.9 10.5 + - - -
207B ARG* 3.3 30.2 - - - +
208B LEU 3.6 1.1 - - - -
209B SER* 3.3 27.3 - - - -
2J NAG 4.7 5.9 - - - +
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Residues in contact with ILE 154 (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 MET* 3.7 32.1 - - + -
42B ILE* 3.8 28.9 - - + -
63B PHE* 3.9 20.2 - - + -
96B THR* 4.6 4.5 - - - -
97B TYR 3.6 9.9 - - - +
98B PHE* 3.6 20.9 - - + -
152B LEU* 4.0 13.2 - - + +
153B GLU* 1.3 71.5 - - - +
155B GLU* 1.3 65.5 + - - +
166B PHE* 4.7 1.4 - - + -
168B TRP* 3.9 18.6 - - + -
207B ARG* 3.3 4.3 - - - +
208B LEU* 2.8 43.5 + - + +
210B LEU 5.4 0.7 - - - +
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Residues in contact with GLU 155 (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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96B THR* 3.3 2.1 - - - -
97B TYR* 2.7 68.9 + - + +
99B LEU* 4.7 1.4 - - + +
153B GLU 4.9 2.2 - - - +
154B ILE* 1.3 78.6 - - - +
156B SER* 1.3 70.4 + - - +
166B PHE* 3.8 5.8 - - - -
198B VAL* 3.3 8.9 - - - +
200B PHE* 3.2 22.5 - - - -
205B TYR* 3.3 13.2 - - + +
206B PRO 3.3 17.0 - - - +
207B ARG* 2.5 38.9 + - - +
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Residues in contact with SER 156 (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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95B ASP* 3.2 19.1 + - - -
96B THR* 4.2 2.5 - - - +
97B TYR* 3.5 2.0 - - - -
155B GLU* 1.3 91.6 - - - +
157B TYR* 1.3 65.9 + - - +
159B TYR* 3.3 27.0 + - - +
164B ILE* 3.7 15.8 - - - +
166B PHE* 3.3 29.3 - - - -
205B TYR* 3.9 9.0 - - - -
206B PRO* 3.7 5.5 + - - -
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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