Contacts of the strand formed by residues 149 - 158 (chain C) in PDB entry 5TIN
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 VAL 149 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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141C ASP* 5.0 1.7 - - - +
147C MET 5.6 0.7 - - - +
148C ASP* 1.3 76.7 - - - +
150C GLN* 1.3 74.8 + - - +
151C THR* 5.4 0.8 + - - +
190C LYS* 6.0 1.8 - - + -
215C HIS* 4.8 11.7 - - + +
216C LEU 3.3 24.0 - - - +
217C GLU* 4.3 12.6 - - + +
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Residues in contact with GLN 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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138C CYS* 4.9 0.4 - - - -
139C PRO 4.5 1.9 - - - +
140C MET* 3.3 31.3 - - + -
141C ASP* 2.8 46.9 + - - +
142C LEU* 4.0 5.9 - - - +
148C ASP* 2.8 33.0 + - - +
149C VAL* 1.3 78.9 + - - +
151C THR* 1.3 64.3 + - - +
152C CYS* 4.0 12.6 - - - -
187C PHE* 4.9 7.9 - - + -
214C PHE 3.7 0.5 - - - +
215C HIS* 3.5 3.5 - - - -
216C LEU* 2.9 43.8 + - + +
218C ARG* 4.8 3.4 - - - +
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Residues in contact with THR 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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138C CYS* 3.5 9.4 - - - -
139C PRO* 4.7 6.2 - - - +
149C VAL* 4.4 1.2 + - - +
150C GLN* 1.3 76.0 + - - +
152C CYS* 1.3 64.0 + - - +
153C ILE* 4.1 6.5 + - + +
213C ARG* 3.8 45.1 - - + +
214C PHE 3.3 9.4 - - - +
215C HIS* 3.3 25.7 + - + -
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Residues in contact with CYS 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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48C PHE* 5.2 0.2 - - + -
51C ILE* 5.6 0.7 - - - -
58C TYR* 3.6 28.0 - - + -
138C CYS* 2.1 46.2 - - - -
140C MET* 5.0 5.6 - - - -
150C GLN* 4.8 4.9 - - - -
151C THR* 1.3 74.6 - - - +
153C ILE* 1.3 61.9 + - - +
213C ARG* 3.6 0.6 - - - -
214C PHE* 2.8 41.5 + - + +
216C LEU* 3.7 29.2 - - + -
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Residues in contact with ILE 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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58C TYR* 2.7 24.0 + - - -
102C ASN* 2.9 33.7 + - + +
136C LEU* 4.4 0.2 - - - +
137C SER 4.9 4.1 + - - +
138C CYS* 4.9 0.8 - - - +
139C PRO* 6.4 1.3 - - + -
151C THR* 4.5 6.3 - - + +
152C CYS* 1.3 79.4 - - - +
154C MET* 1.3 57.9 + - - +
155C GLN* 3.8 33.0 - - + +
211C GLU* 4.0 11.0 - - + +
212C VAL 3.3 8.5 - - - +
213C ARG* 3.9 36.8 - - + +
214C PHE* 5.1 0.4 - - - -
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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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43C ILE* 3.9 27.8 - - + -
45C ILE* 5.4 0.7 - - + -
58C TYR* 4.0 3.4 - - - +
60C VAL* 4.0 19.3 - - + -
62C ILE* 4.5 11.9 - - + -
100C PHE* 3.9 27.6 - - + -
102C ASN* 3.8 4.0 - - - -
134C LEU* 4.7 0.7 - - + -
136C LEU* 3.8 24.0 - - + -
153C ILE* 1.3 74.0 - - - +
155C GLN* 1.3 62.5 + - - +
156C LEU* 3.8 18.2 - - + +
211C GLU* 3.3 4.6 - - - -
212C VAL* 3.0 37.9 + - + -
214C PHE* 4.1 20.4 - - + -
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Residues in contact with GLN 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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100C PHE* 3.2 10.4 - - - +
101C ALA* 3.1 36.7 + - + +
102C ASN* 3.1 19.2 + - - +
153C ILE* 3.8 25.0 - - + +
154C MET* 1.3 75.4 - - - +
156C LEU* 1.3 61.9 + - - +
157C GLU 4.0 0.2 - - - -
198C CYS* 3.5 19.0 - - - +
200C LYS* 3.2 26.9 + - - +
209C CYS* 4.0 6.7 - - - -
210C ILE 3.5 3.6 - - - -
211C GLU* 3.0 24.8 + - + +
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Residues in contact with LEU 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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41C CYS* 4.3 12.8 - - + -
43C ILE* 4.8 1.8 - - + -
64C LEU* 4.0 18.4 - - + -
98C LEU* 4.0 27.4 - - + -
99C PHE 3.7 4.7 - - - -
100C PHE* 3.8 23.3 - - + -
154C MET* 3.8 22.2 - - + +
155C GLN* 1.3 75.9 - - - +
157C GLU* 1.3 60.7 + - - +
168C PHE* 3.6 9.6 - - + -
170C TRP* 4.0 28.7 - - + -
209C CYS* 3.2 2.6 - - - -
210C ILE* 2.7 46.0 + - + +
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Residues in contact with GLU 157 (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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98C LEU* 3.3 4.0 - - - -
99C PHE* 2.8 65.8 + - + +
101C ALA* 3.3 11.8 - - + +
156C LEU* 1.3 74.3 - - - +
158C SER* 1.3 71.6 + - - +
168C PHE* 3.5 6.9 - - - -
200C LYS* 2.8 39.6 + - + +
202C TYR* 2.7 33.9 + - - -
207C PHE* 4.6 2.4 - - + +
208C THR 3.4 15.3 - - - +
209C CYS* 3.8 7.3 - - + -
63D PHE* 4.8 0.2 - - - -
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Residues in contact with SER 158 (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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97C ASP* 2.8 23.8 + - - -
99C PHE* 3.7 1.5 - - - -
157C GLU* 1.3 85.5 - - - +
159C PHE* 1.3 59.7 + - - +
161C TYR* 3.1 35.1 + - - +
166C LEU* 3.9 10.1 - - - -
168C PHE* 3.6 4.8 - - - -
207C PHE* 3.4 15.1 - - - +
208C THR* 3.2 27.6 + - - -
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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