Contacts of the strand formed by residues 148 - 156 (chain C) in PDB entry 3KXC
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 ALA 148 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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95C GLN* 5.5 3.1 - - + +
96C ASP 3.3 6.5 - - - +
97C ASN* 3.5 26.9 + - + +
143C VAL* 3.4 8.5 - - - +
144C SER* 3.0 32.5 + - - +
145C SER* 3.0 20.0 + - - +
147C PRO* 1.3 78.0 - - + +
149C CYS* 1.3 63.9 + - - +
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Residues in contact with CYS 149 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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94C LEU 3.8 0.5 - - - +
95C GLN* 3.5 4.5 - - - +
96C ASP* 2.9 32.9 + - + +
99C PHE* 3.6 21.8 - - + -
102C LEU* 3.4 34.1 - - - -
119C LEU* 3.7 17.5 - - + -
142C GLU 3.3 9.2 - - - +
143C VAL* 4.1 8.1 - - - -
144C SER* 4.0 1.8 - - - -
147C PRO 3.8 0.2 + - - -
148C ALA* 1.3 78.3 - - - +
150C LYS* 1.3 65.6 + - - +
151C PHE* 4.2 17.2 - - + -
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Residues in contact with LYS 150 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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85C ARG* 4.7 7.1 - - - +
93C VAL* 4.0 22.8 - - + +
94C LEU 3.4 4.0 - - - -
95C GLN* 3.3 32.0 - - + +
141C ALA* 3.1 4.6 - - - +
142C GLU* 2.9 37.5 + - + +
144C SER* 4.0 25.7 - - - +
149C CYS* 1.3 78.7 - - - +
151C PHE* 1.3 64.3 + - - +
152C GLN 4.0 0.3 + - - -
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Residues in contact with PHE 151 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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73C TRP* 3.7 25.6 - + - -
81C ILE* 5.0 0.9 - - + -
92C TYR 3.7 0.5 - - - +
93C VAL* 3.4 4.9 - - - -
94C LEU* 2.8 51.0 + - + +
96C ASP* 4.8 2.2 - - + -
99C PHE* 3.8 21.1 - + - -
119C LEU* 4.0 14.6 - - + -
122C THR* 3.5 33.4 - - + -
123C CYS* 4.1 9.2 - - - -
126C ILE* 3.8 26.9 - - + -
139C VAL* 4.6 3.1 - - + -
140C THR 3.4 5.6 - - - +
141C ALA* 3.4 22.7 - - + -
149C CYS* 4.2 17.7 - - + -
150C LYS* 1.3 73.7 - - - +
152C GLN* 1.3 60.7 + - - +
153C VAL* 3.9 1.2 + - + -
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Residues in contact with GLN 152 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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91C ILE* 3.7 30.4 - - + +
92C TYR 3.4 4.7 - - - +
93C VAL* 4.3 14.5 - - + +
138C ILE 3.6 1.7 - - - +
139C VAL* 3.3 6.8 - - - +
140C THR* 2.7 51.0 + - - +
141C ALA* 5.8 0.2 - - - -
150C LYS 4.0 1.8 + - - -
151C PHE* 1.3 72.5 - - - +
153C VAL* 1.3 63.3 + - - +
154C MET* 4.0 21.6 - - + +
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Residues in contact with VAL 153 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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65C MET* 4.2 15.7 - - + -
90C GLY 3.5 2.1 - - - +
91C ILE* 3.3 4.6 - - - -
92C TYR* 2.8 41.5 + - + +
94C LEU* 4.0 19.7 - - + -
126C ILE* 3.9 26.9 - - + -
130C LEU* 3.7 23.8 - - + -
137C SER* 4.0 13.2 - - - -
138C ILE 3.7 2.5 - - - -
139C VAL* 4.0 8.5 - - + -
151C PHE 4.7 2.5 - - - +
152C GLN* 1.3 76.3 - - - +
154C MET* 1.3 61.4 + - - +
155C ILE* 4.3 12.3 - - + -
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Residues in contact with MET 154 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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90C GLY 3.5 5.4 - - - +
91C ILE* 4.4 22.4 - - + -
137C SER* 3.2 2.0 - - - -
138C ILE* 2.8 70.6 + - + +
140C THR* 5.8 2.5 - - + +
152C GLN* 4.0 25.4 - - + +
153C VAL* 1.3 73.1 - - - +
155C ILE* 1.3 62.4 + - - +
156C GLN* 2.9 16.7 - - - +
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Residues in contact with ILE 155 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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61C GLU* 3.3 42.4 - - + +
65C MET* 4.7 6.5 - - - -
90C GLY* 2.9 23.6 + - - +
92C TYR* 3.4 24.5 - - + -
135C ILE* 3.9 24.5 - - + -
136C LYS 3.6 7.6 - - - +
137C SER* 4.3 0.4 - - - +
153C VAL* 4.3 13.0 - - + -
154C MET* 1.3 73.9 - - - +
156C GLN* 1.3 75.8 + - - +
157C LYS 4.1 0.5 + - - -
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Residues in contact with GLN 156 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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136C LYS* 2.8 37.5 + - + +
137C SER* 3.9 17.5 - - - +
138C ILE* 3.7 29.0 - - + +
154C MET* 2.9 32.2 - - - +
155C ILE* 1.3 84.8 - - - +
157C LYS* 1.3 63.3 + - - +
158C LEU* 3.5 19.4 + - - +
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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