Contacts of the strand formed by residues 144 - 151 (chain I) in PDB entry 5FUR
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 LEU 144 (chain I).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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51I LEU 2.9 15.6 - - - +
52I THR* 3.4 1.8 - - - -
53I ILE* 3.0 37.6 + - + +
55I PRO* 5.3 0.7 - - + -
77I ILE* 5.3 9.4 - - + -
78I ASN* 4.3 19.5 - - - +
130I VAL* 4.0 30.3 - - + -
137I HIS* 3.8 24.7 - - + +
138I VAL* 4.0 25.8 - - + -
142I LYS* 5.9 0.2 - - + -
143I VAL* 1.3 85.9 - - - +
145I LYS* 1.3 64.1 + - - +
146I ILE* 3.5 5.9 + - + -
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Residues in contact with LYS 145 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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50I GLU* 5.3 9.4 + - + +
51I LEU 3.5 6.3 - - - +
52I THR* 4.2 19.5 - - + +
76I ARG 4.2 1.9 - - - +
77I ILE* 4.6 2.9 - - - +
78I ASN* 4.5 15.4 + - - +
143I VAL* 5.8 3.8 - - + -
144I LEU* 1.3 72.0 - - - +
146I ILE* 1.4 62.3 + - - +
147I HIS* 3.1 42.5 + - + +
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Residues in contact with ILE 146 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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28I LEU* 5.3 1.3 - - + -
49I VAL 3.3 5.0 - - - +
50I GLU* 3.6 0.5 - - - -
51I LEU* 2.8 53.5 + - + +
53I ILE* 4.2 19.3 - - + -
63I ILE* 3.6 31.2 - - + -
65I LEU* 5.0 8.5 - - + -
75I VAL* 4.7 0.7 - - + -
76I ARG 4.2 2.2 - - - -
77I ILE* 4.5 15.9 - - + -
128I ILE* 3.6 34.1 - - + -
130I VAL* 5.7 0.4 - - + -
144I LEU* 4.6 4.9 - - + +
145I LYS* 1.4 73.7 - - - +
147I HIS* 1.3 60.4 + - - +
148I ILE* 3.8 21.1 - - + -
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Residues in contact with HIS 147 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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48I PHE* 5.5 8.6 - - + -
49I VAL 3.7 3.6 - - - -
50I GLU* 3.5 34.8 + - + +
74I ARG 3.7 2.4 - - - +
76I ARG* 3.0 87.4 + - - +
78I ASN* 4.7 7.2 + - - -
145I LYS* 3.1 52.0 + - + +
146I ILE* 1.3 72.6 - - - +
148I ILE* 1.3 62.0 + - - +
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Residues in contact with ILE 148 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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47I GLY 3.5 1.6 - - - +
48I PHE* 3.3 9.0 - - - +
49I VAL* 3.2 45.3 + - + -
51I LEU* 4.4 1.8 - - + -
65I LEU* 3.6 30.5 - - + -
72I ILE* 4.4 11.7 - - + -
74I ARG 3.7 6.3 - - - +
75I VAL* 4.6 15.3 - - + -
84I PHE* 5.8 0.9 - - + -
126I LEU* 5.3 4.0 - - + -
128I ILE* 5.3 2.5 - - + -
146I ILE* 3.8 21.3 - - + +
147I HIS* 1.3 75.7 - - - +
149I ASN* 1.3 72.6 + - - +
150I PHE* 3.7 2.0 + - - +
191I PRO* 3.7 34.8 - - + -
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Residues in contact with ASN 149 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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46I VAL* 5.8 0.5 - - - +
47I GLY* 3.4 13.3 + - - +
48I PHE* 3.3 37.4 - - + -
72I ILE* 3.8 6.4 - - - +
73I TYR* 2.9 62.0 + - + +
74I ARG* 3.0 19.0 + - + +
147I HIS 4.0 0.4 + - - -
148I ILE* 1.3 70.8 - - - +
150I PHE* 1.4 67.6 + - - +
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Residues in contact with PHE 150 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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33I VAL* 4.4 3.8 - - + -
35I ILE* 4.0 25.8 - - + -
45I VAL 4.2 3.6 - - - -
46I VAL* 3.4 4.0 - - - +
47I GLY 2.8 59.4 + - - -
48I PHE 3.8 1.1 - - - -
49I VAL* 3.7 15.5 - - + -
70I CYS* 3.9 8.7 - - - -
71I ARG 3.6 4.5 - - - -
72I ILE* 4.4 1.1 - - + -
73I TYR* 5.2 1.3 - - - -
148I ILE 3.9 8.1 - - - -
149I ASN* 1.4 80.2 + - - +
151I SER* 1.4 62.5 + - - +
152I LEU* 3.5 31.4 - - + -
189I TRP* 3.6 12.6 - + - -
190I PHE* 3.8 16.2 - - + -
191I PRO* 3.7 32.8 - - + -
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Residues in contact with SER 151 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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44I SER* 3.9 2.8 + - - -
45I VAL 3.8 3.8 - - - -
46I VAL* 3.6 16.3 - - - +
70I CYS* 3.5 5.1 - - - -
71I ARG* 2.8 60.8 + - - +
73I TYR* 6.0 2.5 - - - -
150I PHE* 1.4 76.8 - - - +
152I LEU* 1.3 71.0 + - - +
153I ASP* 3.9 0.3 + - - +
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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