Contacts of the helix formed by residues 64 - 83 (chain A) in PDB entry 1QU2
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 64 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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62A ASN 3.5 4.8 + - - +
63A LEU* 1.3 73.0 - - - +
65A MET* 1.3 67.4 + - - +
66A GLY* 3.0 32.1 - - - -
67A HIS* 2.9 48.2 + + - +
68A ALA 3.5 0.9 + - - -
605A VAL* 5.3 5.4 - - + -
606A PRO* 3.3 16.5 - - - +
1993A MRC 3.5 70.0 + - + +
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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
----------------------------------------------------------
64A HIS* 1.3 72.9 - - - +
66A GLY* 1.3 56.8 + - - +
68A ALA* 3.2 29.0 + - + +
69A LEU* 2.9 29.1 + - - +
72A ILE* 6.1 0.2 - - + -
588A VAL* 3.7 34.3 - - + -
596A MET* 4.3 14.0 - - + +
604A ILE* 4.3 10.4 + - - +
605A VAL* 4.1 5.3 - - - +
606A PRO* 3.4 34.6 - - + +
609A VAL* 4.5 8.1 - - + -
618A ALA* 4.9 10.8 - - + -
621A TRP* 4.0 26.0 - - + -
633A ILE* 4.2 20.2 - - + -
1993A MRC 4.8 0.8 - - - -
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Residues in contact with GLY 66 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64A HIS* 3.0 16.0 - - - -
65A MET* 1.3 75.1 - - - +
67A HIS* 1.3 64.8 + - - +
69A LEU* 3.4 1.9 + - - +
70A ASN* 3.0 27.0 + - - +
588A VAL* 4.0 4.2 - - - +
1993A MRC 3.7 39.9 - - - +
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Residues in contact with HIS 67 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57A PRO* 4.1 18.4 - - + +
58A TYR 5.3 3.2 + - - -
62A ASN 4.4 3.6 - - - -
63A LEU* 3.4 31.0 - - + +
64A HIS* 2.9 63.2 + + - +
66A GLY* 1.3 75.3 - - - +
68A ALA* 1.3 58.0 + - - +
70A ASN* 3.8 1.5 - - - +
71A LYS* 2.9 33.8 + - - +
135A GLN* 5.5 2.5 + - - -
139A PHE* 3.9 21.0 - + + -
1993A MRC 3.7 30.4 - - + +
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Residues in contact with ALA 68 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63A LEU* 5.7 0.6 - - - +
64A HIS 3.5 1.2 + - - -
65A MET* 3.2 32.0 + - + +
66A GLY 3.2 0.4 - - - -
67A HIS* 1.3 77.2 - - - +
69A LEU* 1.3 65.2 + - - +
72A ILE* 2.9 36.8 + - + +
142A LEU* 3.9 28.5 - - + +
606A PRO* 4.1 15.5 - - + -
621A TRP* 5.8 0.2 - - + -
622A VAL* 4.9 0.2 - - - -
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Residues in contact with LEU 69 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65A MET 2.9 16.9 + - - +
66A GLY 3.7 3.1 - - - +
68A ALA* 1.3 74.3 - - - +
70A ASN* 1.3 58.8 + - - +
72A ILE* 3.9 1.6 - - - +
73A LEU* 3.0 53.5 + - + +
585A HIS* 3.5 31.9 - - + +
586A GLY 3.7 10.1 - - - +
588A VAL* 4.3 10.3 - - + -
621A TRP* 4.7 8.9 - - + -
622A VAL* 3.9 29.3 - - + +
625A THR* 4.4 13.2 - - - +
627A TYR* 4.6 2.5 - - + -
631A VAL* 4.3 21.8 - - + -
1993A MRC 4.8 1.1 - - + -
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Residues in contact with ASN 70 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66A GLY 3.0 15.3 + - - +
67A HIS 3.8 2.4 - - - +
69A LEU* 1.3 81.5 - - - +
71A LYS* 1.3 67.8 + - - +
73A LEU* 3.6 3.8 + - - +
74A LYS* 2.9 53.4 + - - +
553A LEU* 3.0 30.0 + - - +
554A GLU* 3.1 14.7 + - - +
585A HIS* 3.1 33.7 + - + +
1993A MRC 4.2 13.2 - - - +
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Residues in contact with LYS 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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54A ASP* 3.1 28.8 + - - +
55A GLY 4.6 0.6 + - - -
57A PRO* 4.0 13.5 - - - +
67A HIS 2.9 20.1 + - - +
68A ALA* 4.1 2.5 - - - +
70A ASN* 1.3 81.9 + - - +
72A ILE* 1.3 60.8 + - - +
74A LYS* 3.4 6.2 + - + +
75A ASP* 3.0 27.4 + - - +
90A TYR* 3.3 22.4 - - - +
92A PRO* 4.7 10.4 - - - +
94A TRP* 5.9 0.2 - - - -
139A PHE* 3.5 53.5 - - + -
142A LEU* 4.8 2.0 - - + -
144A VAL* 4.0 23.7 - - + +
148A PHE* 4.9 2.5 - - + -
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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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65A MET* 6.1 0.2 - - + -
68A ALA* 2.9 26.1 + - + +
69A LEU 3.9 2.5 - - - +
71A LYS* 1.3 73.2 - - - +
73A LEU* 1.3 66.0 + - - +
75A ASP* 3.4 6.9 + - - +
76A PHE* 3.0 53.0 + - + -
142A LEU* 4.5 26.7 - - + -
144A VAL* 4.9 1.8 - - + -
618A ALA* 4.2 12.1 - - + +
619A ARG* 3.9 37.9 - - + +
622A VAL* 3.9 24.5 - - + -
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Residues in contact with LEU 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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69A LEU* 3.0 43.8 + - + +
70A ASN 3.9 4.3 - - - +
71A LYS 3.3 0.2 - - - -
72A ILE* 1.3 75.6 - - - +
74A LYS* 1.3 64.2 + - - +
76A PHE* 3.2 9.8 + - + +
77A ILE* 3.1 24.8 + - - +
553A LEU* 4.0 17.0 - - + -
585A HIS* 4.3 13.5 - - + +
622A VAL* 3.5 23.1 - - + +
627A TYR* 3.9 35.4 - - + -
701A TYR* 3.9 30.9 + - + -
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Residues in contact with LYS 74 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52A LEU* 4.0 28.4 - - + +
53A HIS 5.0 0.7 - - - -
54A ASP* 2.5 28.5 + - - +
55A GLY 3.7 2.2 + - - +
70A ASN* 2.9 34.1 + - - +
71A LYS* 3.5 10.4 - - + +
72A ILE 3.3 0.2 - - - -
73A LEU* 1.3 78.0 - - - +
75A ASP* 1.3 56.4 + - - +
77A ILE* 3.2 5.5 + - - +
78A VAL* 3.0 32.2 + - - +
90A TYR* 3.5 32.5 - - + +
553A LEU* 3.2 33.4 - - + -
554A GLU* 2.8 21.9 + - - -
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Residues in contact with ASP 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 LYS 3.0 16.2 + - - +
72A ILE 3.7 4.0 - - - +
74A LYS* 1.3 73.1 - - - +
76A PHE* 1.3 67.8 + - - +
78A VAL* 4.5 6.3 - - - +
79A ARG* 2.5 59.2 + - - +
90A TYR* 6.0 1.8 - - - -
143A GLY 3.5 0.5 - - - +
144A VAL* 3.6 16.1 - - + +
145A ARG* 3.1 26.0 + - - +
619A ARG* 2.4 38.3 + - - +
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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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72A ILE* 3.0 44.2 + - + -
73A LEU* 3.2 12.1 + - + +
75A ASP* 1.3 74.8 - - - +
77A ILE* 1.3 60.1 + - - +
79A ARG* 3.8 1.2 - - - +
80A TYR* 2.9 33.3 + - - +
619A ARG* 3.6 30.1 - - - -
622A VAL* 3.7 19.3 - - + -
623A SER* 3.9 16.2 - - - -
696A TYR* 5.4 0.2 - - + -
701A TYR* 3.8 41.1 - + + -
758A PRO* 3.3 25.3 - - + +
759A ILE* 3.7 27.8 - - + -
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Residues in contact with ILE 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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50A PHE* 3.6 32.1 - - + -
52A LEU* 3.9 9.6 - - + -
73A LEU* 3.1 8.5 + - + +
74A LYS 3.3 7.2 - - - +
76A PHE* 1.3 81.3 - - - +
78A VAL* 1.3 57.5 + - - +
80A TYR* 3.4 5.0 + - - +
81A LYS* 3.0 31.1 + - + +
551A MET* 3.9 19.7 - - + -
553A LEU* 3.7 29.8 - - + -
583A LEU* 4.4 5.2 - - + -
699A PHE* 4.1 17.0 - - + -
701A TYR* 3.1 25.8 - - + +
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Residues in contact with VAL 78 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50A PHE* 5.4 2.5 - - + -
52A LEU* 4.3 24.0 - - + +
74A LYS 3.0 16.9 + - - +
75A ASP* 4.2 7.0 - - - +
77A ILE* 1.3 73.5 - - + +
79A ARG* 1.3 57.0 + - + +
81A LYS* 3.9 5.3 - - - +
82A THR* 2.6 44.1 + - - +
88A ALA* 3.3 33.4 - - + +
89A PRO 5.7 0.9 - - - +
90A TYR* 4.2 30.3 - - + -
145A ARG* 5.3 7.4 - - - +
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Residues in contact with ARG 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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31A TRP* 4.4 12.7 - - - -
36A GLN* 4.3 1.8 - - - +
75A ASP* 2.5 45.1 + - - +
76A PHE 3.8 2.7 - - - +
78A VAL* 1.3 76.2 - - + +
80A TYR* 1.3 58.6 + - - +
82A THR* 3.3 6.8 + - - -
83A MET* 2.8 38.6 + - + +
143A GLY 2.8 24.4 + - - -
144A VAL 4.3 0.2 - - - -
145A ARG* 3.5 47.1 - - - +
757A ALA 4.5 0.4 - - - -
758A PRO* 3.8 22.2 - - + -
761A VAL* 3.3 23.3 - - - +
780A HIS* 3.2 35.8 + - - +
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Residues in contact with TYR 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 PHE 2.9 18.5 + - - +
77A ILE* 3.8 4.5 - - - +
79A ARG* 1.3 79.1 - - - +
81A LYS* 1.3 80.0 + - + +
83A MET* 3.2 4.1 + - - -
84A GLN* 2.6 63.6 + - + +
693A ILE* 3.4 17.6 - - + +
696A TYR* 3.5 60.6 - + + -
697A GLU* 2.7 31.1 + - - -
758A PRO* 4.2 7.5 - - + +
784A MET* 3.7 20.6 - - + -
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Residues in contact with LYS 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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50A PHE* 3.5 53.3 - - + -
77A ILE* 3.0 21.0 + - + +
78A VAL* 3.9 4.3 - - - +
80A TYR* 1.3 94.9 - - + +
82A THR* 1.3 62.8 + - - +
84A GLN* 2.9 10.8 + - + +
86A PHE* 3.0 63.4 + - + -
88A ALA* 4.6 2.2 - - + -
697A GLU* 5.3 12.2 + - - +
699A PHE* 5.0 13.5 - - - -
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Residues in contact with THR 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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40A ALA* 4.1 17.6 - - + +
41A LEU* 6.2 0.2 - - - +
43A LYS* 3.3 11.7 + - + +
44A ASN* 3.2 21.2 + - - +
78A VAL* 2.6 37.2 + - - +
79A ARG 3.5 5.2 - - - -
81A LYS* 1.3 72.8 - - - +
83A MET* 1.3 59.0 + - + +
85A GLY 2.9 15.9 + - - -
86A PHE 3.7 10.6 + - - +
88A ALA* 4.3 8.4 + - - +
145A ARG* 3.4 28.0 + - - +
780A HIS 4.7 8.7 - - - +
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Residues in contact with MET 83 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43A LYS* 4.8 0.2 - - - +
79A ARG* 2.8 20.5 + - + +
80A TYR 3.2 6.3 + - - +
82A THR* 1.3 76.2 - - - +
84A GLN* 1.3 60.6 + - - +
85A GLY 3.3 1.8 - - - -
145A ARG* 6.1 0.2 - - - +
754A LYS* 3.7 25.8 - - + +
757A ALA* 4.0 10.1 - - + -
758A PRO* 3.8 19.7 - - - -
779A VAL 3.6 16.8 - - - +
780A HIS* 4.6 15.0 - - - +
782A ALA 3.6 27.1 - - - +
783A ASP* 3.4 12.9 - - - +
784A MET* 3.1 53.8 + - + -
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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
------------------------------------------------------------
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