Contacts of the helix formed by residues 74 - 101 (chain A) in PDB entry 1UZF
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 THR 74 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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72A ASN* 3.4 23.6 - - - +
73A ILE* 1.3 84.1 - - - +
75A THR* 1.3 60.6 + - - +
76A GLU 3.3 0.2 + - - -
77A THR* 3.0 30.7 + - - +
78A SER* 2.7 30.8 + - - -
691A NAG 3.0 29.3 + - - +
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Residues in contact with THR 75 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74A THR* 1.3 74.6 - - - +
76A GLU* 1.3 58.9 + - - +
78A SER* 3.5 5.0 + - - -
79A LYS* 2.9 35.6 + - + +
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Residues in contact with GLU 76 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74A THR* 3.3 1.2 + - - -
75A THR* 1.3 78.5 - - - +
77A THR* 1.3 67.0 + - + +
79A LYS* 3.1 11.2 + - + +
80A ILE* 2.9 46.8 + - + +
691A NAG 3.4 33.8 + - - +
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Residues in contact with THR 77 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65A ALA 4.8 1.9 - - - +
68A ASN* 3.8 19.3 - - + +
69A TYR* 3.8 21.4 - - - +
72A ASN* 2.8 30.7 + - - +
73A ILE* 4.0 0.2 - - - -
74A THR* 3.0 23.5 + - - +
76A GLU* 1.3 75.7 - - + +
78A SER* 1.3 57.3 + - - +
80A ILE* 3.9 9.4 - - + +
81A LEU* 2.9 29.5 + - - +
691A NAG 4.0 17.3 - - - +
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Residues in contact with SER 78 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69A TYR* 3.5 26.1 - - - -
73A ILE* 4.7 1.6 - - - +
74A THR 2.7 22.2 + - - -
75A THR* 3.7 5.8 - - - -
77A THR* 1.3 77.1 + - - +
79A LYS* 1.3 67.0 + - - +
81A LEU* 3.1 3.8 + - - +
82A LEU* 2.9 30.1 + - - +
140A LEU* 3.7 20.4 - - - +
144A THR* 4.6 2.9 + - - -
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Residues in contact with LYS 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 THR* 2.9 25.3 + - + +
76A GLU* 3.1 10.7 + - + +
78A SER* 1.3 79.0 - - - +
80A ILE* 1.3 63.7 + - + +
82A LEU* 3.3 11.0 + - - +
83A GLN* 3.0 48.8 + - + +
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Residues in contact with ILE 80 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65A ALA* 4.1 18.6 - - + -
76A GLU* 2.9 43.2 + - + +
77A THR* 3.9 7.9 - - + +
79A LYS* 1.3 76.1 - - + +
81A LEU* 1.3 64.0 + - - +
83A GLN* 3.1 20.1 + - + +
84A LYS* 2.9 32.5 + - + +
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Residues in contact with LEU 81 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62A TYR* 3.7 32.1 - - + +
65A ALA* 4.2 10.5 - - + +
66A ASN* 3.7 28.7 - - - +
69A TYR* 3.7 25.6 - - + -
77A THR 2.9 18.4 + - - +
78A SER 3.4 5.4 - - - +
80A ILE* 1.3 75.5 - - - +
82A LEU* 1.3 63.4 + - - +
84A LYS* 3.1 3.3 + - - +
85A ASN* 2.9 31.6 + - - +
140A LEU* 3.6 31.0 - - + -
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Residues in contact with LEU 82 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78A SER* 2.9 20.1 + - - +
79A LYS* 3.6 9.9 - - - +
81A LEU* 1.3 75.6 - - - +
83A GLN* 1.3 62.6 + - + +
85A ASN* 3.2 29.8 + - - +
86A MET* 3.5 12.6 + - - +
133A GLU 5.6 0.7 - - - +
136A ASN* 3.6 32.2 + - + +
137A LYS* 4.1 20.6 - - + +
140A LEU* 3.4 26.7 - - + -
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Residues in contact with GLN 83 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79A LYS* 3.0 50.6 + - + +
80A ILE* 3.1 23.6 + - + +
82A LEU* 1.3 76.5 - - + +
84A LYS* 1.3 63.8 + - + +
86A MET* 3.2 18.1 + - - +
87A GLN* 3.3 18.0 + - - +
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Residues in contact with LYS 84 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61A GLU* 3.3 42.4 + - + +
62A TYR* 4.2 15.8 - - + +
65A ALA* 3.6 24.2 - - + -
80A ILE* 2.9 24.4 + - + +
81A LEU 3.5 7.9 - - - +
83A GLN* 1.3 75.1 - - + +
85A ASN* 1.3 65.3 + - - +
87A GLN* 3.0 32.8 + - + +
88A ILE* 3.0 25.9 + - - +
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Residues in contact with ASN 85 (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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62A TYR* 3.2 26.2 + - - -
81A LEU* 2.9 31.7 + - - +
82A LEU* 3.2 31.4 - - - +
83A GLN 3.1 0.2 - - - -
84A LYS* 1.3 76.5 - - - +
86A MET* 1.3 59.1 + - - +
88A ILE* 2.9 27.1 - - - +
89A ALA* 2.9 15.2 + - - +
124A ARG* 4.2 12.4 + - - +
136A ASN* 3.5 29.7 + - - +
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Residues in contact with MET 86 (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 LEU 3.7 12.8 - - - +
83A GLN* 3.2 9.8 + - - +
85A ASN* 1.3 76.1 - - - +
87A GLN* 1.3 56.6 + - + +
89A ALA* 3.4 5.1 + - - +
90A ASN* 3.0 30.5 + - - +
129A ALA* 4.0 26.5 - - + +
132A LEU* 3.9 21.5 - - + -
133A GLU* 4.2 17.9 - - + +
136A ASN* 3.7 22.7 - - - -
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Residues in contact with GLN 87 (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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58A VAL* 4.8 4.6 - - + +
61A GLU* 4.8 2.5 - - - +
83A GLN* 3.3 15.2 + - + +
84A LYS* 3.0 45.7 + - + +
86A MET* 1.3 78.6 - - + +
88A ILE* 1.3 62.1 + - - +
90A ASN* 3.2 16.7 + - - +
91A HIS* 3.2 11.8 + - - +
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Residues in contact with ILE 88 (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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58A VAL* 3.8 24.9 - - + +
59A TRP* 3.5 31.4 - - + +
62A TYR* 4.2 35.7 - - + -
84A LYS 3.0 15.4 + - - +
85A ASN* 2.9 30.3 - - - +
87A GLN* 1.3 74.1 - - - +
89A ALA* 1.3 61.2 + - + +
91A HIS* 3.2 2.8 + - + +
92A THR* 2.9 36.0 + - - +
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Residues in contact with ALA 89 (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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85A ASN 2.9 17.9 + - - +
86A MET 3.6 5.2 - - - +
88A ILE* 1.3 76.1 - - + +
90A ASN* 1.3 60.9 + - - +
92A THR* 3.1 6.5 + - - -
93A LEU* 2.8 33.4 + - - +
124A ARG* 5.8 2.7 - - + -
125A ALA* 3.9 16.9 - - + +
132A LEU* 3.5 32.1 - - + -
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Residues in contact with ASN 90 (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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86A MET 3.0 14.7 + - - +
87A GLN* 3.2 13.2 - - - +
89A ALA* 1.3 77.3 - - - +
91A HIS* 1.3 62.6 + - - +
93A LEU* 3.4 7.9 + - - +
94A LYS* 3.0 26.0 + - - +
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Residues in contact with HIS 91 (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 TYR* 4.2 6.9 - + - -
54A THR* 3.1 36.7 - - - -
55A SER* 2.8 29.7 + - - -
58A VAL* 3.7 26.1 - - + +
59A TRP* 4.3 10.5 - + - -
87A GLN 3.2 7.8 + - - +
88A ILE 3.2 10.5 + - - +
90A ASN* 1.3 79.1 - - - +
92A THR* 1.3 68.5 + - - +
94A LYS* 3.2 7.2 + - - +
95A TYR* 3.1 49.7 + + - +
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Residues in contact with THR 92 (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 TYR* 6.0 2.7 - - - -
59A TRP* 5.1 3.1 + - - -
88A ILE* 2.9 23.4 + - - +
89A ALA* 3.4 8.4 - - - -
91A HIS* 1.3 84.1 - - - +
93A LEU* 1.3 53.7 + - - +
95A TYR* 3.7 1.5 - - - +
96A GLY* 2.6 36.0 + - - -
119A VAL* 5.5 1.4 - - - +
121A ASP 4.9 2.9 - - - +
122A LEU* 3.5 37.1 - - + +
123A GLU* 5.8 0.9 - - + -
125A ALA* 3.5 11.6 - - + +
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Residues in contact with LEU 93 (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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89A ALA 2.8 19.9 + - - +
90A ASN* 3.8 6.7 - - - +
92A THR* 1.3 73.0 - - - +
94A LYS* 1.3 61.6 + - - +
96A GLY 4.5 0.2 - - - +
97A THR* 2.6 42.2 + - - +
122A LEU* 3.5 30.7 - - + -
125A ALA* 3.9 16.5 - - - +
126A ALA* 5.2 1.3 - - - -
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Residues in contact with LYS 94 (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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90A ASN* 3.0 16.3 + - - +
91A HIS* 3.2 11.9 + - - +
93A LEU* 1.3 79.3 - - - +
95A TYR* 1.3 87.7 + - + +
97A THR* 3.8 4.3 - - - -
98A GLN* 3.4 33.1 + - + +
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Residues in contact with TYR 95 (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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47A PHE* 3.3 31.4 - + + -
50A GLU* 4.2 16.3 + - + +
51A TYR* 3.7 48.9 - + + -
54A THR* 3.5 25.8 - - + +
91A HIS* 3.1 43.6 + + - +
92A THR 4.3 0.7 - - - +
94A LYS* 1.3 104.5 + - + +
96A GLY* 1.3 60.6 + - - +
97A THR 3.2 2.0 - - - -
98A GLN* 3.3 10.0 + - - -
99A ALA* 2.9 26.9 + - - +
119A VAL* 4.0 2.0 - - - -
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Residues in contact with GLY 96 (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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92A THR 2.6 16.2 + - - -
95A TYR* 1.3 73.1 - - - +
97A THR* 1.3 60.7 + - - +
99A ALA* 3.5 1.9 + - - +
100A ARG* 3.2 30.1 + - - +
119A VAL* 3.3 18.3 - - - +
122A LEU* 3.2 31.0 - - - +
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Residues in contact with THR 97 (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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93A LEU* 2.6 38.0 + - - +
94A LYS* 3.8 5.6 - - - -
96A GLY* 1.3 75.1 - - - +
98A GLN* 1.3 67.1 + - - +
100A ARG* 3.3 21.6 + - - +
101A LYS* 3.6 29.6 + - - +
122A LEU* 4.3 1.2 - - - +
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Residues in contact with GLN 98 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47A PHE* 3.6 27.3 - - + -
50A GLU* 5.7 3.0 + - - -
94A LYS* 3.4 28.6 + - + +
95A TYR* 3.3 20.8 + - - +
97A THR* 1.3 78.6 - - - +
99A ALA* 1.3 64.0 + - - +
101A LYS* 2.9 38.7 + - + +
102A PHE* 3.4 14.8 - - + -
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Residues in contact with ALA 99 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47A PHE* 3.7 16.0 - - + -
95A TYR 2.9 16.2 + - - +
96A GLY 3.7 4.9 - - - +
98A GLN* 1.3 77.0 - - - +
100A ARG* 1.3 61.5 + - - +
102A PHE* 3.1 22.3 + - - +
116A ILE* 3.7 6.0 - - + +
119A VAL* 3.7 27.1 - - + -
120A GLN* 2.9 28.4 + - + -
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Residues in contact with ARG 100 (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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96A GLY 3.2 15.5 + - - +
97A THR* 3.6 11.9 - - - +
98A GLN 3.1 1.0 - - - -
99A ALA* 1.3 72.8 - - - +
101A LYS* 1.3 60.3 + - + +
102A PHE 3.1 11.0 + - - +
120A GLN* 2.9 41.8 + - + +
122A LEU* 3.5 23.4 - - - +
126A ALA* 4.8 1.0 - - - +
210A LEU 3.5 17.7 + - - -
211A ASN* 3.1 29.3 + - - +
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Residues in contact with LYS 101 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
97A THR* 3.6 34.3 - - - +
98A GLN* 2.9 25.3 + - + +
100A ARG* 1.3 77.7 - - + +
102A PHE* 1.3 62.5 + - + +
103A ASP 3.7 1.9 + - - -
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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
------------------------------------------------------------
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