Contacts of the strand formed by residues 151 - 159 (chain A) in PDB entry 1FA0
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 ILE 151 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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44A GLU 5.1 0.2 - - - +
47A ASN* 3.6 40.6 - - + +
48A ARG* 3.5 38.8 - - + +
51A VAL* 3.6 12.8 - - + -
99A SER 4.8 2.2 - - - +
101A ILE* 4.0 3.1 - - + -
147A LYS* 3.3 6.3 - - - +
148A PHE 2.7 37.8 + - - +
149A SER* 4.0 6.3 - - - +
150A GLY* 1.3 81.0 - - - +
152A SER* 1.3 73.7 + - - +
153A ILE* 3.6 17.2 + - + +
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Residues in contact with SER 152 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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98A GLY 5.9 1.1 - - - -
99A SER 5.3 0.6 + - - -
100A ASP* 3.2 23.3 - - - +
101A ILE 2.8 30.0 + - - -
146A ILE 3.4 7.6 + - - -
147A LYS* 4.5 14.3 - - - +
151A ILE* 1.3 76.5 - - - +
153A ILE* 1.3 59.2 + - - +
154A ASP* 6.0 0.9 - - - -
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Residues in contact with ILE 153 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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51A VAL* 4.1 16.4 - - + -
55A LEU* 4.2 11.9 - - + -
101A ILE* 3.5 26.7 - - + +
103A THR* 3.7 14.4 - - - +
144A ILE 3.8 1.4 - - - +
145A LYS* 3.8 3.1 - - - -
146A ILE* 2.8 53.2 + - + +
148A PHE* 4.3 9.6 - - + -
151A ILE* 3.6 27.8 - - + +
152A SER* 1.3 86.8 - - - +
154A ASP* 1.3 69.4 + - - +
155A LEU* 3.9 16.8 - - + +
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Residues in contact with ASP 154 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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87A TYR* 4.8 1.1 - - - +
100A ASP* 2.7 6.9 + - - +
101A ILE 3.0 5.9 + - - -
102A ASP* 3.0 15.7 - - - +
103A THR* 2.9 31.4 + - - +
143A ILE* 3.8 16.2 - - + -
144A ILE 4.3 0.7 - - - -
145A LYS* 2.8 35.2 + - - +
152A SER* 4.3 0.5 - - - -
153A ILE* 1.3 75.1 - - - +
155A LEU* 1.3 59.9 + - - +
156A ILE* 4.2 0.9 - - - -
601A MN 1.9 39.2 + - - -
606A 3AD 3.1 13.0 - - - +
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Residues in contact with LEU 155 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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55A LEU* 4.4 12.6 - - + -
84A ILE* 5.5 0.2 - - + -
103A THR* 3.4 32.1 - - + +
105A VAL* 4.2 14.8 - - + -
116A PHE* 3.7 13.8 - - + -
120A PHE* 4.0 19.1 - - + -
124A LEU* 4.1 8.5 - - + -
143A ILE* 3.2 6.5 - - - +
144A ILE* 2.8 52.1 + - + +
146A ILE* 4.0 28.5 - - + -
153A ILE* 3.9 11.9 - - + -
154A ASP* 1.3 74.4 - - - +
156A ILE* 1.3 62.9 + - - +
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Residues in contact with ILE 156 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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87A TYR* 3.3 33.4 - - + +
103A THR 3.2 12.2 + - - +
104A LEU* 3.6 10.0 - - + -
105A VAL* 3.0 27.2 + - - +
116A PHE* 4.2 2.5 - - - -
141A VAL* 3.9 14.6 - - + -
142A PRO 3.4 21.5 - - - +
143A ILE* 3.7 17.9 - - + -
154A ASP 5.4 0.2 - - - -
155A LEU* 1.3 78.7 - - - +
157A CYS* 1.3 60.6 + - - +
187A ALA* 3.9 26.9 - - + +
606A 3AD 3.5 20.6 - - + +
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Residues in contact with CYS 157 (chain A).
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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62A PHE* 4.8 1.3 - - - -
104A LEU* 4.2 1.1 - - - -
105A VAL* 3.5 13.2 - - - +
107A VAL* 4.3 21.5 - - - -
112A THR 5.2 3.6 - - - -
113A ARG* 4.6 17.7 + - + +
116A PHE* 3.4 52.3 - - + -
142A PRO* 4.5 4.3 + - - +
156A ILE* 1.3 74.7 - - - +
158A ALA* 1.3 68.7 + - - +
159A ARG* 4.9 2.0 - - - -
183A LYS 5.3 0.3 - - - +
184A ASP* 3.7 9.8 - - - +
187A ALA* 4.1 8.2 - - - +
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Residues in contact with ALA 158 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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104A LEU* 3.5 22.8 - - + +
105A VAL 2.9 9.7 + - - +
106A VAL* 3.2 7.2 - - + +
107A VAL* 3.0 23.2 + - - +
157A CYS* 1.3 77.2 - - - +
159A ARG* 1.3 60.5 + - - +
160A LEU* 4.1 0.7 - - + -
184A ASP* 3.6 8.7 - - + +
187A ALA* 3.9 13.0 - - + -
188A LEU* 4.1 24.7 - - + -
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Residues in contact with ARG 159 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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107A VAL* 3.3 24.7 - - + +
108A PRO 4.3 1.3 - - - +
109A LYS* 2.3 51.3 + - - +
111A VAL 3.2 16.2 + - - +
112A THR* 4.0 27.1 - - - +
113A ARG* 4.7 7.4 - - - +
157A CYS* 5.4 2.2 - - - -
158A ALA* 1.3 73.9 - - - +
160A LEU* 1.3 62.5 + - - +
180A LEU* 2.9 22.8 - - - +
184A ASP* 3.1 27.9 + - - +
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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