Contacts of the strand formed by residues 97 - 105 (chain H) in PDB entry 6ASX
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 97 (chain H).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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92H VAL* 6.0 0.7 - - - -
95H LYS* 3.9 13.8 - - - +
96H ASP* 1.3 85.1 - - + +
98H VAL* 1.3 67.4 + - - +
145H LYS* 3.8 25.0 + - - -
146H VAL* 3.3 15.3 - - - +
147H GLN* 3.2 37.0 + - + +
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Residues in contact with VAL 98 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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92H VAL* 5.0 9.9 - - + -
95H LYS* 4.7 12.3 - - + +
97H GLU* 1.3 76.4 - - - +
99H ILE* 1.3 72.5 + - - +
100H LEU* 3.8 7.8 - - + +
118H ASP 5.4 5.4 - - - +
119H GLY* 5.4 6.3 - - - -
120H ASP* 5.7 2.7 - - + +
121H VAL* 3.7 20.4 - - + +
145H LYS* 4.6 3.1 - - - -
146H VAL* 2.9 51.3 + - + +
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Residues in contact with ILE 99 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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60H GLU* 5.9 1.8 - - - +
98H VAL* 1.3 81.0 - - + +
100H LEU* 1.3 68.8 + - - +
143H ARG* 4.5 29.2 - - + +
144H ILE 3.3 18.2 - - - +
145H LYS* 4.2 21.8 - - + +
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Residues in contact with LEU 100 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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98H VAL* 3.8 22.0 - - + +
99H ILE* 1.3 83.7 - - - +
101H THR* 1.3 62.7 + - - +
115H ILE* 3.7 23.8 - - + -
116H THR* 3.9 20.6 - - + +
117H HIS 5.8 0.2 - - - -
118H ASP 4.7 10.5 - - - +
121H VAL* 3.8 40.8 - - + -
123H ILE* 6.3 0.2 - - + -
143H ARG* 3.5 5.2 - - - -
144H ILE* 2.9 48.8 + - + +
146H VAL* 4.5 5.4 - - + +
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Residues in contact with THR 101 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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100H LEU* 1.3 75.9 - - - +
102H LEU* 1.3 69.0 + - - +
103H ASN* 4.0 22.7 + - - +
115H ILE* 4.0 16.0 - - - +
116H THR* 4.2 22.2 + - + +
141H SER* 5.1 1.0 + - - -
142H MET 3.5 10.8 + - - -
143H ARG* 4.7 17.0 + - - +
144H ILE* 5.5 1.8 - - - -
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Residues in contact with LEU 102 (chain H).
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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101H THR* 1.3 77.7 + - - +
103H ASN* 1.3 77.2 + - - +
104H LYS* 5.1 2.9 - - + +
110H VAL* 4.3 21.3 - - + -
114H ASP* 3.5 43.5 - - + +
115H ILE* 3.9 13.2 - - + +
130H ILE* 4.3 17.7 - - + -
140H ILE* 3.6 5.7 - - + +
141H SER* 3.0 2.9 - - - -
142H MET* 2.9 66.1 + - + +
144H ILE* 6.2 2.0 - - + -
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Residues in contact with ASN 103 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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101H THR* 4.0 20.3 + - - +
102H LEU* 1.3 82.9 - - - +
104H LYS* 1.3 63.5 + - - +
114H ASP* 5.4 1.9 - - - +
139H SER* 5.8 0.7 - - - +
140H ILE 3.3 4.7 - - - +
141H SER* 2.6 30.5 + - - -
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Residues in contact with LYS 104 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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102H LEU* 5.1 5.6 - - + +
103H ASN* 1.3 77.4 - - - +
105H SER* 1.3 72.0 + - - +
106H GLY* 5.6 4.9 - - - -
109H PRO 3.4 18.9 + - - -
110H VAL* 3.8 18.6 - - + -
111H THR 5.1 0.2 - - - +
114H ASP* 2.8 44.4 + - + +
133H LEU* 4.5 1.8 - - - +
139H SER* 3.1 5.3 + - - -
140H ILE* 2.9 45.7 + - + +
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Residues in contact with SER 105 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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104H LYS* 1.3 82.1 - - - +
106H GLY* 1.3 57.8 + - - +
133H LEU* 4.8 0.9 - - - -
136H GLU 4.9 4.9 - - - -
137H ASN* 5.5 2.2 - - - -
138H ALA 3.3 20.0 - - - -
139H SER* 3.7 13.9 - - - -
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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