Contacts of the strand formed by residues 150 - 158 (chain C) in PDB entry 3U1K
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 THR 150 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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437B ILE* 3.6 1.8 - - - -
85C VAL 3.2 11.7 - - - +
86C SER* 2.8 22.5 + - - -
96C MET* 5.3 2.3 - - - +
97C PRO 2.9 12.9 + - - +
98C LEU* 3.3 23.2 - - + +
99C VAL* 3.0 27.3 + - - +
142C PHE* 4.4 17.9 - - + -
146C TYR* 3.8 7.6 - - - -
148C TYR 2.7 20.6 + - - -
149C ASP* 1.3 73.6 + - - +
151C GLN* 1.3 66.8 + - - +
152C VAL* 5.1 4.3 - - + -
177C LEU* 5.1 1.3 - - + -
182C ILE* 5.0 5.6 - - + -
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Residues in contact with GLN 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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431B PRO* 3.4 9.0 - - - +
436B GLU 4.2 1.4 - - - +
437B ILE* 3.3 23.8 - - + +
438B GLY 2.8 46.2 + - - +
439B LYS* 4.5 4.0 - - - +
440B VAL* 4.7 0.6 - - - +
83C THR* 3.8 1.2 + - - +
84C ALA* 3.6 1.9 - - - -
85C VAL* 2.9 37.9 + - + +
99C VAL* 3.3 19.9 - - + +
101C ASP* 3.1 22.1 + - - +
150C THR* 1.3 76.0 - - - +
152C VAL* 1.3 65.3 - - - +
153C LEU* 3.7 26.6 + - + +
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Residues in contact with VAL 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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82C VAL* 3.5 27.4 - - + -
83C THR 3.2 6.7 - - - +
84C ALA* 4.3 13.0 - - + -
98C LEU* 4.6 8.7 - - + -
99C VAL 2.9 10.6 + - - +
100C VAL* 3.3 19.6 - - + +
101C ASP 2.8 26.7 + - - +
138C ILE* 4.0 20.4 - - + -
150C THR* 5.1 2.5 - - + -
151C GLN* 1.3 78.3 - - - +
153C LEU* 1.3 65.1 + - - +
154C CYS* 4.7 2.0 - - - -
173C ALA* 3.9 15.3 - - + -
177C LEU* 4.8 10.1 - - + -
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Residues in contact with LEU 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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430B PRO* 4.9 0.9 - - + -
431B PRO* 3.6 34.5 - - + -
432B TYR* 3.7 26.6 - - + +
440B VAL* 3.7 20.0 - - + -
81C MET 3.9 0.2 - - - +
82C VAL* 3.3 5.7 - - - +
83C THR* 2.9 43.0 + - - +
85C VAL* 6.5 0.7 - - + -
101C ASP* 3.6 28.5 - - + +
103C ARG* 4.1 13.5 - - - +
151C GLN* 3.7 18.7 + - + +
152C VAL* 1.3 77.3 - - - +
154C CYS* 1.3 63.3 + - - +
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Residues in contact with CYS 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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432B TYR* 6.1 0.4 - - - -
80C VAL* 4.6 3.6 - - + -
81C MET 3.3 6.1 - - - +
82C VAL* 4.0 21.5 - - + -
100C VAL* 4.7 1.6 - - - -
101C ASP 3.0 10.2 + - - +
102C TYR* 3.9 31.2 - - + -
103C ARG* 3.7 28.7 + - - +
134C ILE* 3.8 28.5 - - - -
152C VAL* 4.7 6.7 - - - -
153C LEU* 1.3 81.3 - - - +
155C ASN* 1.3 61.5 + - - +
156C LEU* 4.2 1.1 - - + -
169C ALA* 4.1 3.4 - - + -
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Residues in contact with ASN 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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394B LEU* 5.6 0.2 - - - +
432B TYR* 3.4 22.9 + - + +
475B GLU* 2.9 30.1 + - - +
477B LEU* 4.5 5.1 - - - +
80C VAL* 3.5 1.1 - - - -
81C MET* 2.6 61.0 + - + +
103C ARG 4.8 0.4 - - - -
105C LYS* 2.9 24.6 + - - -
154C CYS* 1.3 74.1 - - - +
156C LEU* 1.3 63.8 + - - +
157C LEU* 3.1 16.4 + - - +
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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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79C ALA 3.9 4.0 - - - +
80C VAL* 3.9 17.9 - - + +
102C TYR* 3.7 38.8 - - + +
103C ARG 3.7 16.7 + - - +
104C GLN* 3.8 28.7 - - + +
105C LYS* 3.2 29.5 + - + +
154C CYS 5.0 0.2 - - - -
155C ASN* 1.3 75.5 + - - +
157C LEU* 1.3 64.3 + - - +
158C ALA* 3.3 2.7 + - - -
159C VAL* 3.9 20.8 - - + +
165C PRO* 3.8 22.4 - - + -
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Residues in contact with LEU 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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377B PHE* 3.7 32.4 - - + -
380B LEU* 3.6 20.1 - - - +
394B LEU* 3.7 24.0 - - + +
396B THR* 5.1 4.5 - - - +
477B LEU* 5.4 1.3 - - + -
63C LEU* 4.2 17.3 - - + -
72C VAL* 4.0 22.4 - - + -
79C ALA* 2.9 14.6 + - + +
81C MET* 3.9 30.1 - - + +
105C LYS* 4.1 7.3 + - - +
155C ASN* 3.1 25.0 + - - +
156C LEU* 1.3 73.4 - - - +
158C ALA* 1.3 62.2 + - - +
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Residues in contact with ALA 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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377B PHE* 3.9 24.7 - - + -
379B THR* 3.5 16.8 - - - +
380B LEU* 3.7 15.0 - - + -
77C ASP 3.9 8.1 - - - +
78C THR* 3.3 2.3 - - - +
79C ALA 2.8 29.3 + - - +
156C LEU* 3.3 1.6 - - - +
157C LEU* 1.3 82.0 - - - +
159C VAL* 1.3 68.7 + - - +
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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