Contacts of the helix formed by residues 47 - 71 (chain A) in PDB entry 1ATT
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 ARG 47 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39A GLN* 4.2 9.4 - - - +
42A PRO* 3.4 43.3 - - + +
44A ALA* 3.2 19.7 + - + +
45A THR* 2.9 35.0 + - - +
46A ASN* 1.4 112.0 + - - +
48A ARG* 1.3 76.9 + - - +
49A VAL* 4.8 11.8 - - - +
50A TRP* 4.0 17.0 - - + +
51A GLU* 3.8 9.2 - - - +
126A LYS* 6.0 0.6 - - - +
130A ARG* 4.0 21.6 - - - +
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Residues in contact with ARG 48 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39A GLN* 4.1 5.3 - - - +
45A THR 4.6 2.7 + - - -
46A ASN* 3.0 20.6 + - + +
47A ARG* 1.3 89.1 + - - +
49A VAL* 1.4 55.1 + - - +
50A TRP 2.7 4.6 + - - -
51A GLU* 2.5 72.9 + - - +
52A LEU* 2.8 11.3 + - - -
112A ILE* 4.3 4.5 - - + -
113A SER* 2.6 43.3 + - - -
114A GLU* 4.9 1.6 - - - +
123A PHE* 3.5 50.5 - - + -
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Residues in contact with VAL 49 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46A ASN* 3.9 11.2 + - - +
47A ARG* 4.8 9.2 - - - +
48A ARG* 1.4 74.8 - - + +
50A TRP* 1.3 65.1 + - + +
52A LEU* 3.4 8.7 - - - +
53A SER* 2.9 21.0 + - - -
123A PHE* 3.9 14.1 - - + +
126A LYS* 3.7 34.3 - - + -
127A LEU* 3.6 31.8 - - + +
130A ARG* 5.6 7.2 - - + -
418A LEU* 5.1 7.9 - - + -
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Residues in contact with TRP 50 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38A GLU 3.1 27.6 + - - -
39A GLN* 3.3 13.6 - - - +
40A LYS* 3.5 54.1 - - + +
42A PRO* 4.5 9.4 - - + -
47A ARG* 4.0 21.2 - - + +
48A ARG 2.7 3.8 + - - +
49A VAL* 1.3 73.6 - - + +
51A GLU* 1.3 56.2 + - - +
53A SER* 2.5 30.5 + - - -
54A LYS* 2.9 15.6 + - - +
416A VAL 5.3 0.4 - - - -
417A ALA 3.8 19.7 - - - -
418A LEU* 3.9 14.8 - - - -
419A ASN* 4.0 30.0 - - + +
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Residues in contact with GLU 51 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37A SER 3.9 14.9 - - - +
38A GLU 4.2 6.5 - - - +
39A GLN* 2.7 28.9 + - + +
47A ARG 3.8 8.5 - - - +
48A ARG* 2.5 48.6 + - - +
50A TRP* 1.3 68.8 - - + +
52A LEU* 1.3 59.1 + - - +
54A LYS* 3.7 11.0 - - - +
55A ALA* 2.8 29.3 + - - +
111A THR* 4.9 5.0 - - + +
112A ILE* 3.8 13.8 + - - +
113A SER* 2.9 36.8 + - - -
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Residues in contact with LEU 52 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48A ARG 2.8 12.0 + - - +
49A VAL* 3.4 13.7 - - - +
51A GLU* 1.3 69.1 - - - +
53A SER* 1.3 53.2 + - - +
55A ALA* 2.7 7.2 + - + +
56A ASN* 2.7 55.9 + - - +
109A PHE* 4.2 7.2 - - + -
112A ILE* 3.7 30.2 - - + +
120A ILE* 5.2 2.2 - - + -
123A PHE* 3.5 38.1 - - + +
124A PHE* 3.8 24.9 - - + +
127A LEU* 4.1 17.5 - - + -
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Residues in contact with SER 53 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49A VAL 2.9 11.6 + - - -
50A TRP* 2.5 25.2 + - - -
52A LEU* 1.3 73.7 - - - +
54A LYS* 1.3 50.4 + - - +
56A ASN* 3.4 6.9 + - - +
57A SER* 2.7 42.0 + - - -
127A LEU* 3.9 9.8 - - - +
418A LEU 3.4 9.5 + - - -
419A ASN* 2.8 40.9 + - - -
420A THR* 3.8 11.0 - - - -
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Residues in contact with LYS 54 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37A SER* 4.0 10.8 - - - -
38A GLU* 3.0 57.1 + - - +
50A TRP* 2.9 20.8 + - + +
51A GLU* 3.7 9.9 - - - +
53A SER* 1.3 77.8 + - - +
55A ALA* 1.3 62.0 + - - +
57A SER* 3.1 7.0 + - - -
58A HIS* 2.9 22.3 + - + +
111A THR* 6.4 1.6 - - + -
302A PRO* 5.2 6.5 - - + +
303A ASP* 4.2 20.9 + - - +
305A LEU* 6.0 5.7 - - + +
419A ASN* 4.9 4.7 - - - +
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Residues in contact with ALA 55 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51A GLU 2.8 18.2 + - - +
52A LEU* 2.7 13.1 + - + +
54A LYS* 1.3 69.4 - - - +
56A ASN* 1.3 65.1 + - - +
58A HIS* 2.9 17.6 + - - +
59A PHE* 3.0 10.9 + - - +
107A PHE 4.6 1.8 - - - +
108A LYS* 3.5 39.2 - - - +
109A PHE* 4.7 1.3 - - + +
111A THR* 4.3 13.4 - - - +
112A ILE* 4.4 8.7 - - + -
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Residues in contact with ASN 56 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52A LEU* 2.7 35.7 + - - +
53A SER* 3.5 11.7 - - - +
55A ALA* 1.3 77.4 - - - +
57A SER* 1.3 60.0 + - - +
59A PHE* 3.2 11.5 + - - +
60A ALA* 2.9 24.9 + - - +
81A PRO* 5.3 1.3 - - - +
82A LEU* 4.6 9.6 - - + +
85A SER* 3.3 34.0 + - - +
107A PHE 4.9 2.6 + - - -
109A PHE* 3.9 13.1 - - - -
124A PHE* 3.8 13.6 - - - -
127A LEU* 5.0 4.9 - - - +
420A THR* 5.1 5.6 - - + +
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Residues in contact with SER 57 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53A SER 2.7 22.0 + - - -
54A LYS* 3.1 6.7 + - - -
56A ASN* 1.3 73.9 - - - +
58A HIS* 1.4 52.6 + - - +
60A ALA* 3.2 11.8 + - - +
61A THR* 2.7 31.6 + - - -
302A PRO* 3.9 10.9 - - - +
419A ASN* 4.1 12.2 + - - -
420A THR* 4.3 1.6 - - - -
421A ILE* 3.9 36.8 + - - +
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Residues in contact with HIS 58 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54A LYS* 2.9 10.5 + - + +
55A ALA* 2.9 11.8 + - - +
57A SER* 1.4 71.1 - - - +
59A PHE* 1.3 60.5 + - - +
61A THR* 3.1 2.6 + - - -
62A ALA* 2.8 46.2 + - + +
108A LYS* 3.3 48.2 + - + +
302A PRO* 3.6 32.1 - - + +
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Residues in contact with PHE 59 (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 ALA 3.0 10.5 + - - +
56A ASN* 3.2 8.9 + - - +
58A HIS* 1.3 80.6 - - - +
60A ALA* 1.3 55.2 + - - +
62A ALA* 4.1 6.7 - - + -
63A PHE* 2.6 57.8 + + + +
81A PRO* 4.3 6.1 - - + -
84A ILE* 3.4 29.8 - - + -
85A SER* 3.5 19.7 - - - +
106A VAL* 3.6 15.5 - - + -
107A PHE* 3.3 49.6 - + - +
108A LYS* 4.2 1.3 - - - +
336A LEU* 3.9 4.9 - - + -
339A MET* 3.4 25.8 - - + -
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Residues in contact with ALA 60 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56A ASN 2.9 12.3 + - - +
57A SER* 3.2 15.7 - - - +
58A HIS 3.2 0.2 - - - -
59A PHE* 1.3 76.6 - - - +
61A THR* 1.3 57.4 + - - +
63A PHE* 3.9 3.0 - - - +
64A TYR* 3.0 27.9 + - - +
79A LEU* 5.5 0.5 - - - +
81A PRO* 3.4 38.7 - - + +
421A ILE* 4.6 11.9 - - + -
424A MET* 3.8 11.9 - - - +
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Residues in contact with THR 61 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57A SER 2.7 17.6 + - - -
58A HIS 3.1 4.1 + - - -
60A ALA* 1.3 73.8 - - - +
62A ALA* 1.3 61.3 + - - +
64A TYR* 3.3 3.7 + - - +
65A GLN* 2.9 38.8 + - - +
300A LEU* 3.6 51.1 - - + -
301A THR 4.1 3.1 - - - +
302A PRO* 3.4 27.1 - - + +
308A TRP* 6.0 2.7 - - + -
421A ILE* 5.3 4.1 - - + +
424A MET* 4.5 8.5 - - + -
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Residues in contact with ALA 62 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58A HIS* 2.8 36.7 + - + +
59A PHE* 3.6 7.4 - - + +
61A THR* 1.3 79.4 - - - +
63A PHE* 1.3 60.8 + - - +
65A GLN* 4.0 10.6 - - - +
66A HIS* 3.1 31.6 + - + +
106A VAL 5.9 1.3 - - - +
339A MET* 4.2 10.3 - - + -
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Residues in contact with PHE 63 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59A PHE* 2.6 42.9 + + + +
60A ALA* 3.9 4.0 - - - +
62A ALA* 1.3 70.9 - - - +
64A TYR* 1.3 59.2 + - - +
66A HIS* 3.6 2.3 + - - +
67A LEU* 2.9 29.6 + - + +
79A LEU* 3.3 35.7 - - + -
81A PRO* 6.0 1.8 - - + -
84A ILE* 3.9 8.5 - - + -
330A PHE* 3.7 19.3 - + - -
332A VAL* 3.5 34.8 - - + -
335A GLN* 4.0 22.7 - - + -
336A LEU* 4.4 3.1 - - + -
339A MET* 3.2 30.9 - - + -
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Residues in contact with TYR 64 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60A ALA 3.0 19.5 + - - +
61A THR 3.8 3.4 - - - +
63A PHE* 1.3 77.5 - - - +
65A GLN* 1.3 61.6 + - + +
67A LEU* 3.1 4.2 + - - +
68A ALA* 2.7 42.5 + - + +
77A ILE* 3.6 31.9 - - + +
79A LEU* 5.0 8.1 - - + -
297A GLU* 2.7 43.4 + - + +
300A LEU* 4.4 20.0 - - + -
410A LEU* 4.5 8.3 - - + +
424A MET* 3.8 29.4 - - + -
425A GLY* 3.8 16.7 + - - -
426A ARG* 3.3 20.6 - - - +
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Residues in contact with GLN 65 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61A THR* 2.9 24.0 + - - +
62A ALA* 4.0 8.3 - - - +
64A TYR* 1.3 79.4 - - + +
66A HIS* 1.3 66.1 + - + +
68A ALA* 3.5 3.3 + - - +
69A ASP* 3.2 22.2 + - - +
297A GLU 3.1 22.4 - - - +
298A GLN* 2.8 29.5 - - - +
299A GLU 3.8 0.2 - - - -
300A LEU* 3.1 32.6 + - + +
301A THR* 5.7 0.2 - - - +
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Residues in contact with HIS 66 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62A ALA* 3.1 18.5 + - + +
63A PHE 3.6 5.8 - - - +
64A TYR 3.2 0.2 - - - -
65A GLN* 1.3 80.3 - - + +
67A LEU* 1.3 64.5 + - - +
68A ALA 3.0 1.0 + - - -
69A ASP* 3.0 15.9 + - - +
70A SER* 3.1 14.6 + - - -
335A GLN* 4.5 13.2 - - + -
338A ASP* 4.1 32.1 + - + +
339A MET* 3.0 39.6 - - + +
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Residues in contact with LEU 67 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63A PHE* 2.9 23.8 + - + +
64A TYR* 3.1 3.8 + - - +
66A HIS* 1.3 71.2 - - - +
68A ALA* 1.3 56.7 + - - +
70A SER* 3.2 5.8 + - - -
71A LYS* 2.9 54.6 + - + +
77A ILE* 3.5 19.3 - - + -
79A LEU* 3.5 17.7 - - + -
330A PHE* 3.4 45.8 - - + -
335A GLN* 4.0 22.5 - - + +
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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
----------------------------------------------------------
64A TYR* 2.7 30.0 + - + +
65A GLN* 3.9 4.7 - - - +
67A LEU* 1.3 69.6 - - - +
69A ASP* 1.3 61.6 + - - +
71A LYS 2.8 25.9 - - - +
73A ASN* 4.6 4.9 + - - -
77A ILE* 3.6 27.3 - - + +
297A GLU* 3.8 24.6 - - + +
426A ARG* 4.2 5.2 + - - +
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Residues in contact with ASP 69 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65A GLN 3.2 16.6 + - - +
66A HIS* 3.3 8.8 + - - +
68A ALA* 1.3 80.5 - - - +
70A SER* 1.3 65.7 + - - +
71A LYS 3.0 5.0 + - - +
73A ASN* 5.7 1.5 + - - +
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Residues in contact with SER 70 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66A HIS 3.1 13.0 + - - -
67A LEU* 3.2 11.0 + - - -
69A ASP* 1.3 79.4 + - - +
71A LYS* 1.3 59.5 + - - +
72A ASN 3.8 1.4 + - - -
334A GLU* 5.3 3.6 - - - -
335A GLN* 3.5 26.9 + - - +
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Residues in contact with LYS 71 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67A LEU* 2.9 39.6 + - + +
68A ALA 2.8 20.5 - - - +
69A ASP 3.0 4.3 + - - +
70A SER* 1.3 77.0 - - - +
72A ASN* 1.3 68.9 + - - +
73A ASN* 3.2 5.9 + - - -
75A ASP* 4.3 15.7 + - + +
76A ASN 3.6 9.9 + - - +
77A ILE* 3.8 19.3 - - + -
328A ASP* 3.2 31.4 + - - -
329A SER 5.1 4.1 + - - -
330A PHE* 5.0 7.0 - - - -
426A ARG* 3.8 12.3 + - - +
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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
------------------------------------------------------------
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) + - + + + + + -
------------------------------------------------------------
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