Contacts of the strand formed by residues 37 - 52 (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 37 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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29C ARG* 3.7 9.0 - - - +
30C PRO* 3.4 45.5 - - + +
31C ASN* 5.8 1.3 - - + +
35C PRO 3.7 0.6 + - - +
36C PRO* 1.3 70.8 - - - +
38C GLN* 1.3 61.4 + - - +
39C VAL* 3.6 20.3 + - + -
68C TRP* 4.0 20.2 - - + -
69C ASN 4.9 3.8 - - - +
94C TRP* 4.0 15.7 - - + -
165C ASP 3.0 9.8 + - - +
166C LEU* 3.7 11.4 - - + +
167C ILE* 2.9 28.9 + - - +
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Residues in contact with GLN 38 (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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36C PRO* 3.4 16.6 + - - +
37C VAL* 1.3 72.9 - - - +
39C VAL* 1.3 61.6 + - - +
40C THR* 4.1 3.9 + - - +
67C LYS 3.7 2.3 - - - +
68C TRP* 3.6 17.7 - - - +
69C ASN 4.7 1.6 + - - -
167C ILE* 3.5 34.7 - - - +
169C GLU* 4.2 12.0 - - - +
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Residues in contact with VAL 39 (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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37C VAL* 4.0 8.7 - - + -
38C GLN* 1.3 75.2 - - - +
40C THR* 1.3 70.1 + - - +
41C CYS* 4.1 14.5 - - - -
66C GLN* 4.1 23.6 - - + +
67C LYS 3.3 9.6 - - - +
68C TRP* 4.2 4.3 - - + -
96C PRO* 3.7 16.8 - - + -
166C LEU* 3.5 30.7 - - + -
167C ILE 2.9 8.4 + - - +
168C PHE* 3.5 14.9 - - + -
169C GLU* 3.0 29.1 + - - +
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Residues in contact with THR 40 (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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38C GLN* 5.0 3.3 + - - +
39C VAL* 1.3 74.4 + - - +
41C CYS* 1.3 62.9 + - - +
42C ASN* 5.6 0.7 + - - -
65C ARG 3.7 0.7 - - - +
66C GLN* 3.4 3.8 - - - -
67C LYS* 2.8 48.7 + - + +
169C GLU* 3.3 8.7 + - - +
170C TRP 4.2 1.3 - - - +
171C GLN* 3.3 46.4 - - + +
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Residues in contact with CYS 41 (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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39C VAL* 4.1 16.2 - - - -
40C THR* 1.3 79.9 - - - +
42C ASN* 1.3 62.8 + - - +
64C LEU* 5.0 2.5 - - + -
65C ARG 3.3 6.5 - - - +
66C GLN* 4.3 4.5 - - - -
98C LEU* 4.1 24.7 - - - -
156C LEU* 4.3 11.7 - - + -
168C PHE* 4.5 8.7 - - - -
169C GLU 2.9 14.7 + - - +
170C TRP* 3.4 11.5 - - + -
171C GLN* 3.0 23.3 + - - +
175C PRO* 4.4 0.2 - - - +
210C ILE* 4.2 21.8 - - + -
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Residues in contact with ASN 42 (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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203B ASN* 3.2 10.5 + - - +
40C THR 5.6 0.4 + - - -
41C CYS* 1.3 75.6 - - - +
43C ILE* 1.3 64.4 + - - +
64C LEU* 4.3 0.3 - - - +
65C ARG* 2.8 83.6 + - - +
67C LYS* 4.1 7.7 - - - +
170C TRP* 4.4 1.8 - - - -
171C GLN* 3.0 35.8 + - - +
175C PRO* 3.1 19.1 - - + +
177C GLN* 3.2 13.1 + - - +
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Residues in contact with ILE 43 (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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42C ASN* 1.3 80.1 - - - +
44C PHE* 1.3 61.0 + - - +
45C ILE* 4.0 22.2 - - + -
62C ILE* 4.3 15.0 - - + -
63C PHE 3.3 7.9 - - - +
64C LEU* 4.0 21.3 - - + -
65C ARG* 4.2 0.9 - - - -
154C MET* 3.9 29.4 - - + -
156C LEU* 4.8 3.1 - - + -
170C TRP* 4.3 13.9 - - + -
175C PRO 2.9 7.1 + - - -
176C VAL* 3.5 28.7 - - + -
177C GLN* 2.9 32.5 + - - +
212C VAL* 4.6 4.9 - - + -
214C PHE* 4.5 4.0 - - + -
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Residues in contact with PHE 44 (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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202B TYR* 3.8 31.4 - + - -
43C ILE* 1.3 73.0 - - - +
45C ILE* 1.3 63.2 + - - +
46C ASN* 3.4 32.6 + - + -
62C ILE* 3.2 7.6 - - - +
63C PHE* 2.9 51.7 + + + -
65C ARG* 3.7 23.9 - - - +
177C GLN* 3.5 24.0 - - + +
178C VAL 4.2 2.9 - - - -
179C ALA* 3.6 32.8 - - + -
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Residues in contact with ILE 45 (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* 4.0 14.6 - - + -
44C PHE* 1.3 73.5 - - - +
46C ASN* 1.3 61.0 + - - +
47C SER 3.6 26.2 - - - +
48C PHE* 4.1 17.0 - - + -
60C VAL* 4.9 3.4 - - + -
61C ASN 3.9 3.4 - - - +
62C ILE* 4.3 7.6 - - + -
154C MET* 5.4 1.3 - - + -
176C VAL* 3.9 13.2 - - + -
177C GLN 2.8 15.6 + - - +
178C VAL* 4.3 14.6 - - + -
179C ALA* 3.0 26.7 + - - +
182C LEU* 4.1 12.9 - - + +
189C LEU* 5.7 0.9 - - + -
214C PHE* 3.5 38.6 - - + -
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Residues in contact with ASN 46 (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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101B ALA* 2.9 31.8 + - - +
102B ASN* 5.2 0.4 - - - +
200B LYS* 5.7 2.3 + - - -
202B TYR* 5.2 2.6 + - - -
44C PHE* 3.4 26.2 + - + +
45C ILE* 1.3 74.4 - - - +
47C SER* 1.3 64.4 + - - +
61C ASN* 2.8 37.0 + - - +
62C ILE 4.7 0.2 - - - +
63C PHE* 4.7 15.4 - - + -
131C ARG* 4.0 5.5 - - - +
179C ALA* 4.3 12.3 - - - +
182C LEU* 4.7 5.8 - - - +
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Residues in contact with SER 47 (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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104B LYS* 5.6 7.5 - - - +
45C ILE* 3.3 8.7 + - - +
46C ASN* 1.3 84.9 - - - +
48C PHE* 1.3 64.0 + - - +
49C GLY 5.2 0.2 + - - -
59C ARG* 5.2 1.4 + - - +
60C VAL* 3.3 5.1 - - - -
61C ASN* 3.0 43.5 + - - +
182C LEU* 4.3 10.8 - - - -
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Residues in contact with PHE 48 (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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45C ILE* 4.1 13.9 - - + -
47C SER* 1.3 77.4 + - - +
49C GLY* 1.3 61.3 + - - +
51C ILE* 4.0 18.6 - - + -
58C TYR* 3.7 33.2 - + - -
59C ARG 3.5 5.2 - - - -
60C VAL* 3.7 13.2 - - + -
152C CYS* 5.2 0.7 - - + -
182C LEU* 4.1 24.7 - - + +
183C THR 4.8 1.9 - - - +
184C LEU* 3.7 33.8 - - + +
189C LEU* 4.4 15.0 - - + -
214C PHE* 4.0 37.2 - + + -
216C LEU* 4.2 19.7 - - + -
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Residues in contact with GLY 49 (chain C).
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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47C SER* 5.2 0.4 + - - -
48C PHE* 1.3 80.3 - - - +
50C SER* 1.3 71.2 + - - -
51C ILE* 3.1 14.0 + - - +
58C TYR* 3.9 0.7 - - - +
59C ARG* 2.9 30.1 + - - +
184C LEU* 5.2 1.8 - - - -
185C PRO* 6.5 0.4 - - - -
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Residues in contact with SER 50 (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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55B THR* 6.0 1.6 - - - +
104B LYS* 5.4 2.1 + - - -
49C GLY* 1.3 72.7 - - - +
51C ILE* 1.3 59.8 + - - +
52C ALA* 3.1 12.7 + - - +
57C ASP* 3.5 9.2 - - - +
58C TYR* 3.6 5.0 - - - -
59C ARG* 3.7 36.6 + - - -
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Residues in contact with ILE 51 (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* 4.0 6.5 - - + -
49C GLY* 3.9 9.2 - - - +
50C SER* 1.3 74.1 - - - +
52C ALA* 1.3 58.9 + - - +
53C GLU* 4.0 11.1 - - - +
57C ASP 3.6 5.2 - - - +
58C TYR* 3.9 19.1 - - + -
140C MET* 3.8 23.8 - - + -
152C CYS* 5.6 0.4 - - - -
184C LEU* 3.5 32.5 - - + -
186C GLN* 4.6 11.9 + - - +
187C PHE* 3.6 38.5 - - + -
216C LEU* 3.9 20.6 - - + -
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Residues in contact with ALA 52 (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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50C SER 3.1 6.0 + - - +
51C ILE* 1.3 72.0 - - - +
53C GLU* 1.3 61.7 + - - +
54C THR* 4.3 8.7 - - - +
55C THR* 3.2 23.3 - - + +
56C MET* 2.9 22.9 + - - -
57C ASP* 2.9 23.5 + - - +
140C MET* 3.7 4.4 - - - +
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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