Contacts of the strand formed by residues 70 - 84 (chain A) in PDB entry 4ICK
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 70 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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8A LEU* 3.7 26.5 - - + -
10A ILE* 3.4 27.4 - - + -
56A LEU* 3.8 19.3 - - + +
59A THR* 4.3 9.0 - - + -
65A ILE* 3.6 31.6 - - + +
66A GLU 3.7 9.9 - - - +
67A ALA* 3.2 16.7 + - - +
68A GLY 3.4 0.2 - - - -
69A GLN* 1.3 77.7 - - - +
71A THR* 1.3 67.7 + - - +
72A ILE* 4.2 1.6 - - + +
96A ALA* 4.3 5.6 - - + -
97A GLU 3.4 7.2 - - - +
98A VAL* 3.9 12.3 - - + -
99A LYS* 3.7 9.9 - - - -
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Residues in contact with THR 71 (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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70A LEU* 1.3 72.8 + - - +
72A ILE* 1.3 73.8 - - - +
73A ILE* 3.5 11.5 + - + +
96A ALA* 3.2 4.5 - - - -
97A GLU* 2.8 44.7 + - - -
99A LYS* 3.1 30.1 + - - +
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Residues in contact with ILE 72 (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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8A LEU* 3.9 24.0 - - + -
52A LEU* 4.1 26.9 - - + -
56A LEU* 3.9 31.6 - - + -
70A LEU* 4.2 1.5 - - + -
71A THR* 1.3 81.8 - - - +
73A ILE* 1.3 69.5 + - - +
74A GLU* 3.6 27.1 + - - +
94A TRP* 4.7 11.9 - - + -
95A LEU 3.7 6.7 - - - +
96A ALA* 4.1 8.7 - - + -
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Residues in contact with ILE 73 (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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11A PHE* 3.9 28.3 - - + -
13A ARG* 6.1 0.9 - - - +
71A THR* 3.7 23.6 - - + +
72A ILE* 1.3 80.0 - - - +
74A GLU* 1.3 66.1 + - - +
75A GLY 3.6 1.2 + - - -
76A PHE* 4.0 12.3 + - - +
94A TRP* 5.5 1.2 - - - -
95A LEU* 3.0 25.7 + - + +
97A GLU* 4.3 17.5 - - + +
141A PHE* 3.6 25.6 - - + -
142A LEU* 4.2 9.4 - - + -
145A ILE* 5.3 8.1 - - + -
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Residues in contact with GLU 74 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52A LEU* 5.8 1.7 - - - +
72A ILE* 3.6 28.4 + - - +
73A ILE* 1.3 75.5 - - - +
75A GLY* 1.3 58.2 + - - +
94A TRP* 6.5 0.4 - - - -
141A PHE* 3.2 17.3 - - - -
145A ILE* 5.4 1.0 - - - +
144B SER* 3.9 12.4 + - - -
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Residues in contact with GLY 75 (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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73A ILE 3.6 0.2 + - - -
74A GLU* 1.3 75.1 - - - +
76A PHE* 1.3 59.0 + - - +
141A PHE* 3.5 13.6 - - - -
78B ARG* 5.2 1.9 + - - -
137B GLU 4.7 1.9 - - - +
140B GLN* 3.5 25.6 + - - +
141B PHE* 3.6 23.0 + - - +
144B SER* 3.4 24.2 - - - -
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Residues in contact with PHE 76 (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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9A ILE* 4.0 19.1 - - + -
73A ILE 4.0 3.7 + - - +
74A GLU 3.5 2.8 - - - -
75A GLY* 1.3 78.9 + - - +
77A LYS* 1.3 64.9 + - - +
78A ARG* 3.9 27.1 - - + -
93A TYR 4.4 3.4 - - - -
94A TRP* 3.6 21.4 - - - -
95A LEU* 3.8 30.8 + - + -
134A ALA 3.8 9.2 - - - -
137A GLU* 3.7 8.5 - - + -
138A GLY* 3.6 33.2 - - - -
141A PHE* 3.8 37.2 - + + -
78B ARG* 3.7 26.5 - - - +
140B GLN* 3.4 3.2 + - - +
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Residues in contact with LYS 77 (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 ASP* 5.8 1.8 + - - +
75A GLY 4.3 0.2 + - - -
76A PHE* 1.3 79.3 - - - +
78A ARG* 1.3 65.8 + - - +
92A ILE* 3.5 20.7 - - + +
93A TYR 3.3 11.7 - - - +
94A TRP* 3.3 37.9 - - + +
78B ARG* 2.8 22.4 + - - +
136B GLN* 5.3 9.3 + - - -
137B GLU* 3.2 29.2 + - + +
140B GLN* 3.7 25.4 - - - +
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Residues in contact with ARG 78 (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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76A PHE* 3.9 20.0 - - + -
77A LYS* 1.3 79.4 - - - +
79A GLU* 1.3 78.3 + - - +
80A LEU* 3.8 9.5 + - + +
91A VAL 3.7 1.0 - - - +
92A ILE* 3.4 1.9 - - - -
93A TYR* 2.8 39.1 + - + +
130A GLU* 4.0 37.2 + - - +
133A ALA* 4.2 7.2 - - - +
134A ALA* 3.8 22.7 - - + -
137A GLU* 2.6 48.4 + - - +
78B ARG* 3.6 16.8 - - - +
79B GLU 3.5 29.7 + - - +
81B ASN* 4.9 2.0 + - - -
130B GLU* 5.8 0.6 + - - -
137B GLU* 3.6 4.3 - - - -
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Residues in contact with GLU 79 (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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4A ARG* 4.6 6.7 + - - -
78A ARG* 1.3 88.4 + - - +
80A LEU* 1.3 60.9 + - - +
81A ASN* 3.2 35.1 + - - +
90A THR* 3.4 13.3 - - + +
91A VAL 3.4 3.8 - - - -
92A ILE* 3.1 31.9 - - + +
129B LYS* 3.5 16.0 - - - +
130B GLU* 5.5 1.9 - - - +
133B ALA* 4.0 20.6 - - + +
137B GLU* 3.1 17.9 + - - +
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Residues in contact with LEU 80 (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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78A ARG* 3.8 29.6 - - + +
79A GLU* 1.3 72.8 - - - +
81A ASN* 1.3 61.9 + - - +
82A TYR* 4.0 23.7 - - + -
89A LYS 3.6 0.9 - - - +
90A THR* 3.1 7.4 - - - +
91A VAL* 2.7 37.3 + - + +
93A TYR* 3.7 26.0 - - + -
128A PHE* 4.5 1.1 - - + -
130A GLU* 3.6 37.2 - - + +
131A MET* 3.5 29.8 - - + +
134A ALA* 3.9 7.4 - - + -
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Residues in contact with ASN 81 (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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79A GLU* 3.2 36.5 + - - +
80A LEU* 1.3 72.5 - - - +
82A TYR* 1.3 60.6 + - - +
89A LYS 3.4 5.4 - - - +
90A THR* 3.1 21.7 + - - +
130A GLU* 3.0 21.7 + - - +
81B ASN 4.1 3.8 - - - +
129B LYS* 3.3 14.8 + - - +
130B GLU* 3.2 44.6 + - + +
133B ALA* 5.7 0.2 - - - +
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Residues in contact with TYR 82 (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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39A THR* 5.8 2.8 - - - +
42A LYS* 5.0 7.8 - - - -
80A LEU* 4.0 27.1 - - + +
81A ASN* 1.3 79.0 - - - +
83A VAL* 1.3 72.9 + - - +
84A ALA* 4.2 10.8 - - + -
88A PRO* 3.6 1.4 - - - +
89A LYS* 2.7 64.3 + - + +
91A VAL* 3.9 22.5 - - + +
128A PHE* 3.4 40.4 - + + -
130A GLU* 3.4 15.0 - - - +
131A MET* 6.1 0.9 - - - +
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Residues in contact with VAL 83 (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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82A TYR* 1.3 83.3 - - - +
84A ALA* 1.3 62.8 + - - +
85A ARG 4.4 0.2 + - - -
86A ASN* 3.7 15.9 - - - +
87A LYS 3.3 24.0 - - - +
88A PRO* 4.7 9.0 - - + -
128A PHE* 6.1 0.5 - - - -
83B VAL* 6.6 0.2 - - + -
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Residues in contact with ALA 84 (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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37A HIS* 6.3 1.3 - - - +
82A TYR* 4.0 14.0 + - + -
83A VAL* 1.3 74.6 - - - +
85A ARG* 1.3 78.2 + - + +
86A ASN 3.3 0.2 - - - -
87A LYS* 2.8 29.5 + - - +
89A LYS* 3.7 22.6 - - + -
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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