Contacts of the helix formed by residues 61 - 82 (chain A) in PDB entry 2WLV
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 HIS 61 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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26A VAL* 4.2 11.9 - - + +
27A GLU* 4.2 24.7 + - + +
30A LYS* 4.9 20.7 - - + +
31A PHE* 3.8 27.5 - + + -
58A VAL* 3.0 26.2 + - + +
60A ASP* 1.3 100.1 + - - +
62A GLN* 1.3 59.1 + - - +
63A ALA 3.2 3.1 - - - -
64A ALA* 3.1 3.4 + - - +
65A MET* 3.0 29.4 + - - +
144A TYR* 3.9 12.1 + - - +
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Residues in contact with GLN 62 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59A GLY 3.6 17.5 + - - +
60A ASP* 2.7 29.8 + - - +
61A HIS* 1.3 76.5 - - - +
63A ALA* 1.4 62.8 + - - +
65A MET* 3.7 7.6 - - + +
66A GLN* 3.0 36.1 + - + +
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Residues in contact with ALA 63 (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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61A HIS 3.2 1.2 - - - -
62A GLN* 1.4 78.1 - - - +
64A ALA* 1.3 62.2 + - - +
66A GLN* 3.4 10.6 + - - +
67A ILE* 3.3 28.3 + - + +
144A TYR* 3.5 22.2 - - + +
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Residues in contact with ALA 64 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31A PHE* 3.3 42.4 - - + -
61A HIS 3.1 5.1 + - - +
63A ALA* 1.3 72.0 - - - +
65A MET* 1.3 71.7 + - + +
67A ILE* 3.1 3.0 + - - +
68A ILE* 2.9 26.3 + - - +
140A CYS* 3.6 19.9 - - - -
144A TYR* 3.1 16.6 + - + +
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Residues in contact with MET 65 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31A PHE* 4.0 6.3 - - + -
55A LEU* 3.8 38.8 - - + +
58A VAL* 3.7 30.7 - - + +
59A GLY* 4.2 12.1 - - - +
61A HIS 3.0 21.1 + - - +
62A GLN* 3.3 8.0 + - - +
64A ALA* 1.3 87.2 - - + +
66A GLN* 1.4 59.6 + - + +
68A ILE* 3.7 24.6 - - + +
69A ARG* 2.8 29.9 + - - +
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Residues in contact with GLN 66 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62A GLN* 3.0 26.4 + - + +
63A ALA* 3.8 8.4 - - - +
65A MET* 1.4 73.7 - - + +
67A ILE* 1.3 65.8 + - + +
69A ARG* 3.3 7.1 + - - +
70A GLU* 3.1 24.8 + - - +
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Residues in contact with ILE 67 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63A ALA* 3.3 20.2 + - + +
64A ALA* 3.1 7.3 + - - +
66A GLN* 1.3 78.9 - - + +
68A ILE* 1.3 63.9 + - - +
70A GLU* 3.4 6.1 + - - +
71A ILE* 3.3 21.8 + - - +
136A GLY 4.0 2.7 - - - +
139A LYS* 3.7 41.1 + - + +
140A CYS* 3.9 20.6 - - - -
143A MET* 3.9 40.2 - - + -
144A TYR* 4.7 7.4 - - + -
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Residues in contact with ILE 68 (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* 4.2 17.0 - - + -
64A ALA* 2.9 20.1 + - + +
65A MET* 3.7 28.3 - - + +
67A ILE* 1.3 75.4 - - - +
69A ARG* 1.3 58.2 + - - +
71A ILE* 3.2 4.2 + - - +
72A ILE* 2.9 45.6 + - + +
132A TRP 5.7 0.4 - - - +
133A ILE* 3.8 20.0 - - + -
136A GLY* 4.0 21.8 - - - -
137A LEU* 4.0 25.6 - - + +
140A CYS* 3.8 14.4 - - - -
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Residues in contact with ARG 69 (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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52A ASN* 4.9 3.0 + - - -
55A LEU* 4.8 7.3 - - - +
65A MET 2.8 18.5 + - - +
66A GLN* 3.7 8.7 - - - +
67A ILE 3.3 0.2 - - - -
68A ILE* 1.3 77.4 - - - +
70A GLU* 1.4 57.5 + - - +
72A ILE* 3.2 41.3 + - - +
73A ASN* 2.9 51.5 + - - +
103A ALA* 4.8 2.6 + - - +
105A THR* 4.6 14.1 + - - -
129A TYR* 4.1 9.3 + - - -
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Residues in contact with GLU 70 (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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66A GLN 3.1 16.9 + - - +
67A ILE* 3.8 6.6 - - - +
68A ILE 3.3 0.2 - - - -
69A ARG* 1.4 77.1 - - - +
71A ILE* 1.3 63.7 + - + +
73A ASN* 3.4 9.2 + - - +
74A GLU* 3.0 45.9 + - + +
139A LYS* 4.2 18.7 + - - +
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Residues in contact with ILE 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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67A ILE 3.3 12.7 + - - +
68A ILE 3.2 8.6 + - - +
70A GLU* 1.3 77.3 - - + +
72A ILE* 1.3 66.8 + - - +
74A GLU* 3.1 22.5 + - - +
75A GLU* 2.9 33.1 + - + +
132A TRP 3.6 23.3 - - - +
135A ILE* 3.7 27.1 - - + -
136A GLY* 3.9 15.9 - - - +
139A LYS* 4.0 32.5 - - + +
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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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55A LEU* 4.7 1.3 - - + -
68A ILE* 2.9 30.3 + - + +
69A ARG* 3.2 49.1 + - - +
71A ILE* 1.3 73.6 - - - +
73A ASN* 1.3 62.0 + - - +
75A GLU* 3.2 1.3 + - - +
76A ALA* 2.8 30.5 + - + +
103A ALA* 4.0 21.8 - - + -
129A TYR* 3.7 11.9 - - + +
132A TRP* 4.2 20.3 - - + -
133A ILE* 3.7 32.1 - - + -
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Residues in contact with ASN 73 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69A ARG* 2.9 43.9 + - - +
70A GLU* 3.7 7.5 - - - +
72A ILE* 1.3 82.3 - - - +
74A GLU* 1.3 61.4 + - + +
76A ALA* 3.9 5.4 - - - +
77A ALA* 3.1 25.1 + - - +
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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
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70A GLU* 3.0 35.9 + - + +
71A ILE* 3.5 26.6 - - - +
73A ASN* 1.3 77.9 - - + +
75A GLU* 1.3 69.1 + - - +
77A ALA* 3.4 5.3 + - - +
78A GLU* 3.0 28.6 + - - +
139A LYS* 5.5 1.6 + - - -
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Residues in contact with GLU 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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71A ILE* 2.9 31.1 + - + +
72A ILE 3.9 0.4 - - - +
74A GLU* 1.3 87.1 - - - +
76A ALA* 1.3 57.7 + - - +
78A GLU* 3.4 8.3 + - - +
79A TRP* 2.9 29.3 + - - +
132A TRP* 3.5 45.9 + - + -
135A ILE* 4.0 21.4 - - + +
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Residues in contact with ALA 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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72A ILE* 2.8 21.8 + - + +
73A ASN* 3.9 6.7 - - - +
75A GLU* 1.3 74.3 - - - +
77A ALA* 1.3 66.2 + - - +
79A TRP* 3.3 2.1 + - - +
80A ASP* 3.0 30.4 + - - +
99A GLY* 3.7 25.2 - - - +
100A SER* 4.5 1.6 - - - +
103A ALA* 5.7 0.4 - - + -
132A TRP* 3.6 17.2 - - + -
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Residues in contact with ALA 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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73A ASN 3.1 18.6 + - - +
74A GLU* 3.8 6.1 - - - +
75A GLU 3.3 0.2 - - - -
76A ALA* 1.3 76.4 - - - +
78A GLU* 1.3 57.5 + - - +
80A ASP* 3.2 9.2 + - - +
81A VAL* 3.0 33.3 + - + +
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Residues in contact with GLU 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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74A GLU 3.0 17.6 + - - +
75A GLU* 4.0 9.9 - - - +
77A ALA* 1.3 76.0 - - - +
79A TRP* 1.3 61.9 + - - +
81A VAL* 3.5 17.7 + - - +
82A GLN* 3.1 58.2 + - - +
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Residues in contact with TRP 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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75A GLU 2.9 17.4 + - - +
76A ALA* 3.4 6.7 - - - +
78A GLU* 1.3 74.5 - - - +
80A ASP* 1.3 80.6 + - - +
82A GLN* 3.2 2.9 + - - -
83A HIS* 2.4 76.0 + + + +
97A PRO* 3.2 26.0 + - + -
98A ARG* 3.9 1.3 - - - +
99A GLY 3.5 10.1 - - - -
102A ILE* 3.4 22.3 - - + +
123A VAL* 4.2 15.5 - - + -
128A ILE* 3.8 39.9 - - + -
131A ARG* 5.8 1.6 - - - -
132A TRP* 4.1 8.5 - + + -
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Residues in contact with ASP 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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76A ALA* 3.0 20.7 + - - +
77A ALA* 3.2 8.0 + - - +
79A TRP* 1.3 83.7 - - - +
81A VAL* 1.3 61.1 + - + +
83A HIS 3.2 19.8 + - - -
84A PRO* 3.7 3.1 - - - +
98A ARG* 3.4 30.7 + - - +
99A GLY* 2.8 29.8 + - - -
100A SER 5.0 1.2 + - - -
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Residues in contact with VAL 81 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
77A ALA* 3.0 22.2 + - + +
78A GLU* 3.8 23.6 - - - +
80A ASP* 1.3 75.7 - - + +
82A GLN* 1.3 63.9 + - + +
83A HIS 3.2 1.4 + - - -
84A PRO* 3.9 11.3 - - - +
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Residues in contact with GLN 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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78A GLU* 3.1 43.3 + - - +
79A TRP* 3.2 5.8 + - - +
81A VAL* 1.3 78.2 - - + +
83A HIS* 1.4 75.5 + - + +
84A PRO* 3.7 6.1 - - - +
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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
------------------------------------------------------------
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