Contacts of the strand formed by residues 143 - 150 (chain B) in PDB entry 3K75
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 GLY 143 (chain B).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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33B TRP* 3.0 13.2 + - - -
34B ARG* 4.3 0.6 - - - +
43B ILE* 4.0 13.9 - - - -
62B ASN* 3.4 2.4 - - - +
63B ASP* 2.7 25.6 + - - +
65B SER* 2.9 20.1 + - - -
132B CYS* 4.3 2.0 - - - -
142B PHE* 1.3 76.9 - - - +
144B LEU* 1.3 64.7 + - - +
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Residues in contact with LEU 144 (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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24B LEU* 4.2 18.5 - - + +
32B LYS* 3.6 2.8 - - - +
33B TRP* 2.8 46.1 + - + +
60B ILE* 3.8 26.2 - - + -
61B GLY 3.4 15.3 - - - +
62B ASN* 3.8 10.8 - - - +
63B ASP* 3.5 6.7 - - - +
68B VAL* 4.4 5.6 - - + -
130B ILE* 3.8 27.8 - - + -
132B CYS* 3.3 28.3 - - - -
143B GLY* 1.3 78.8 - - - +
145B SER* 1.3 60.6 + - - +
146B PHE 4.4 6.3 - - - +
147B VAL* 5.0 3.1 - - + -
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Residues in contact with SER 145 (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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23B ASN 5.1 3.8 - - - +
24B LEU* 4.9 3.0 - - - +
26B LYS 5.8 0.2 - - - +
28B ASP 3.9 4.7 - - - +
29B THR* 2.6 32.4 + - - +
31B ARG 3.5 18.4 - - - +
32B LYS* 3.8 16.8 - - - +
61B GLY* 2.5 18.3 + - - -
62B ASN 3.6 14.4 - - - -
63B ASP* 3.6 3.0 - - - +
106B ASN* 6.0 0.2 - - - -
144B LEU* 1.3 74.3 - - - +
146B PHE* 1.3 71.2 + - - +
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Residues in contact with PHE 146 (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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23B ASN 5.9 0.2 - - - -
24B LEU* 4.5 12.6 - - - +
26B LYS 5.8 2.7 - - - +
28B ASP 4.5 11.0 - - - +
29B THR* 5.3 3.6 - - + -
59B ASP* 4.3 8.5 - - + -
60B ILE* 4.0 5.6 - - - +
61B GLY* 2.7 52.0 + - - +
108B VAL* 3.7 23.1 - - + -
144B LEU* 3.6 5.0 - - - +
145B SER* 1.3 93.0 - - - +
147B VAL* 1.3 71.1 + - - +
148B ARG* 3.8 38.8 - - + -
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Residues in contact with VAL 147 (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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6B LEU* 4.4 15.5 - - + +
24B LEU* 4.4 29.1 + - + +
47B LEU* 4.6 1.6 - - + -
58B VAL* 4.5 1.3 - - + -
59B ASP 3.4 14.8 - - - +
60B ILE* 3.9 15.7 - - + -
130B ILE* 4.1 16.8 - - + -
144B LEU* 5.0 4.9 - - + -
146B PHE* 1.3 81.5 - - - +
148B ARG* 1.3 67.8 + - - +
149B PHE* 3.3 37.4 + - + -
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Residues in contact with ARG 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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3B GLU* 3.2 41.5 - - - +
58B VAL* 3.4 2.6 - - - -
59B ASP* 2.6 73.5 + - + +
146B PHE* 3.8 31.6 - - + -
147B VAL* 1.3 78.4 - - - +
149B PHE* 1.3 62.3 + - - +
150B HIS* 3.7 10.6 + - + +
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Residues in contact with PHE 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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3B GLU* 3.6 3.7 + - - +
4B ILE* 2.8 47.9 + - + +
6B LEU* 4.1 20.6 - - + +
47B LEU* 4.9 0.7 - - + -
49B LEU* 5.7 2.0 - - + -
55B ILE* 4.3 12.1 - - + -
57B SER 3.5 3.1 - - - +
58B VAL* 3.6 24.2 - - + -
70B VAL* 3.7 25.1 - - + -
128B VAL* 3.7 40.4 - - + -
130B ILE* 3.8 11.4 - - + -
147B VAL* 3.3 36.1 - - + -
148B ARG* 1.3 76.4 - - - +
150B HIS* 1.3 65.4 + - - +
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Residues in contact with HIS 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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2B PRO 3.1 27.2 + - - +
3B GLU* 3.6 23.5 + - + -
4B ILE* 3.8 5.2 - - - -
55B ILE* 3.4 5.4 - - - -
56B HIS* 2.5 33.8 + - + -
57B SER* 2.7 45.2 + - - +
59B ASP* 3.0 26.3 + - - -
148B ARG* 3.7 15.9 - - - +
149B PHE* 1.3 75.6 - - - +
151B SER* 1.3 57.7 + - - +
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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
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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