Contacts of the helix formed by residues 135 - 157 (chain C) in PDB entry 1OHV
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 CYS 135 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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133C MET 3.4 1.2 + - - -
134C ALA* 1.3 80.8 - - - +
136C GLY* 1.3 60.4 + - - +
137C SER* 3.6 11.7 - - - -
138C CYS* 3.4 17.3 - - - -
139C SER* 2.7 32.6 + - - -
328C SER* 3.5 11.9 - - - -
334C GLY* 4.4 0.7 - - - -
600C PLP 3.5 14.4 - - - +
800C FES 2.3 44.2 - - - -
134D ALA* 5.7 1.3 - - + -
138D CYS* 5.4 1.3 - - - -
352D ASN* 6.1 4.7 - - - +
354D TRP* 4.3 7.6 - - + -
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Residues in contact with GLY 136 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
135C CYS* 1.3 75.0 - - - +
137C SER* 1.3 57.0 + - - +
139C SER* 3.2 5.4 + - - -
140C ASN* 3.0 31.7 + - - +
300C VAL* 3.9 12.6 - - - +
328C SER* 3.2 19.8 + - - -
600C PLP 3.1 26.8 + - - -
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Residues in contact with SER 137 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
135C CYS* 3.3 7.3 - - - -
136C GLY* 1.3 76.4 - - - +
138C CYS* 1.3 57.1 + - - +
140C ASN 3.2 0.5 + - - -
141C GLU* 2.9 32.9 + - - +
190C HIS 4.4 2.2 - - - -
191C GLY* 3.5 18.4 - - - -
192C ARG 3.7 4.7 + - - -
193C THR* 3.8 27.2 + - - +
196C CYS* 3.2 12.3 - - - -
600C PLP 2.5 24.6 + - - -
800C FES 4.8 0.7 - - - -
352D ASN* 5.2 2.9 - - - +
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Residues in contact with CYS 138 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
133C MET* 3.8 10.8 - - - +
134C ALA* 3.6 12.8 - - - -
135C CYS* 3.4 24.5 - - - -
137C SER* 1.3 77.9 - - - +
139C SER* 1.3 56.7 + - - +
141C GLU* 3.9 8.3 - - - -
142C ASN* 2.8 45.3 + - - +
352C ASN* 4.9 6.1 - - - +
800C FES 2.3 44.1 - - - -
135D CYS* 5.5 1.3 - - - -
193D THR* 4.6 6.3 - - + -
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Residues in contact with SER 139 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
133C MET* 3.4 10.5 - - - +
135C CYS 2.7 19.0 + - - -
136C GLY 3.3 10.5 - - - -
137C SER 3.1 0.2 - - - -
138C CYS* 1.3 77.8 - - - +
140C ASN* 1.3 57.7 + - - +
143C ALA* 2.9 29.5 + - - +
326C THR* 3.6 12.3 - - - +
327C PHE 3.5 5.4 + - - -
335C GLY 2.8 42.9 + - - -
336C PHE* 3.5 7.4 - - - -
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Residues in contact with ASN 140 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136C GLY 3.0 12.0 + - - +
139C SER* 1.3 73.2 - - - +
141C GLU* 1.3 60.8 + - - +
143C ALA* 3.5 4.5 - - - +
144C PHE* 2.8 47.5 + - + -
190C HIS* 2.8 24.5 + - - +
196C CYS* 3.8 16.2 - - - -
263C ILE* 3.9 13.9 - - + +
296C LEU* 4.4 0.7 - - - +
298C ASP* 2.8 27.9 + - - +
300C VAL* 4.7 0.2 - - - +
326C THR* 2.7 30.5 + - - +
600C PLP 3.9 6.1 - - - -
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Residues in contact with GLU 141 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137C SER 2.9 25.0 + - - +
138C CYS 4.0 2.5 - - - +
140C ASN* 1.3 76.9 - - - +
142C ASN* 1.3 59.2 + - - +
144C PHE* 3.2 11.4 + - - +
145C LYS* 3.1 29.8 + - - +
193C THR* 2.4 29.3 + - - +
194C MET 3.7 0.2 + - - -
195C GLY* 2.9 21.9 + - - -
196C CYS* 3.0 13.9 + - - -
141D GLU* 4.9 0.2 - - - -
193D THR* 3.9 27.1 - - + -
194D MET* 3.0 41.1 + - - +
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Residues in contact with ASN 142 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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133C MET* 3.4 27.5 - - + +
138C CYS* 2.8 33.9 + - - +
141C GLU* 1.3 77.7 - - - +
143C ALA* 1.3 56.4 + - - +
145C LYS* 3.3 28.1 + - - +
146C THR* 2.7 36.9 + - - -
336C PHE* 3.6 19.5 - - + -
350C ILE* 3.6 18.1 - - + +
351C PHE 4.3 5.4 + - - +
352C ASN* 4.4 5.1 - - - +
192D ARG* 5.6 1.5 + - - +
193D THR* 5.0 6.2 - - - +
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Residues in contact with ALA 143 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139C SER 2.9 19.5 + - - +
140C ASN 3.2 5.6 + - - +
142C ASN* 1.3 74.7 - - - +
144C PHE* 1.3 63.9 + - - +
146C THR* 3.5 3.5 - - - -
147C ILE* 3.0 30.8 + - - +
296C LEU* 3.9 15.0 - - + -
324C VAL* 3.9 14.4 - - + -
326C THR* 3.7 19.5 - - + -
336C PHE* 3.8 10.5 - - + -
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Residues in contact with PHE 144 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140C ASN* 2.8 26.9 + - + -
141C GLU* 3.2 10.7 + - - +
143C ALA* 1.3 76.3 - - - +
145C LYS* 1.3 57.2 + - - +
147C ILE* 3.2 7.9 + - - +
148C PHE* 2.9 47.9 + - + -
182C ILE* 4.0 24.2 - - + -
195C GLY 3.8 24.5 - - - -
196C CYS* 3.8 6.3 - - - -
199C THR* 3.5 28.5 - - + -
215C TRP* 4.7 2.9 - + - -
263C ILE* 3.8 14.1 - - + -
296C LEU* 3.5 27.4 - - + -
194D MET* 3.5 23.6 - - + -
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Residues in contact with LYS 145 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
141C GLU 3.1 12.7 + - - +
142C ASN* 3.3 27.0 + - - +
143C ALA 3.3 0.2 - - - -
144C PHE* 1.3 76.4 - - - +
146C THR* 1.3 63.5 + - - +
148C PHE* 3.2 4.5 + - - +
149C MET* 2.9 30.2 + - - +
349C ARG 3.4 21.5 + - - -
350C ILE* 3.7 10.1 - - + -
351C PHE 5.2 0.2 + - - -
192D ARG* 2.8 45.5 + - - +
193D THR* 5.4 0.7 - - - +
194D MET* 4.5 10.1 - - + -
197D LEU* 4.4 6.4 - - + +
206D HIS 4.9 4.2 + - - -
210D ILE* 3.6 43.6 - - + +
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Residues in contact with THR 146 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
131C ILE* 5.2 0.3 - - - +
142C ASN 2.7 24.6 + - - -
143C ALA* 3.5 7.0 - - - -
144C PHE 3.3 0.2 - - - -
145C LYS* 1.3 75.4 - - - +
147C ILE* 1.3 57.8 + - - +
149C MET* 3.5 8.7 + - + +
150C TRP* 3.0 27.0 + - - +
324C VAL* 5.3 3.8 - - + -
336C PHE* 3.4 26.0 - - + -
338C HIS* 4.5 5.8 - - + +
342C PHE* 3.2 42.1 - - + +
344C PRO* 5.0 4.6 - - + +
350C ILE* 3.5 16.1 - - - +
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Residues in contact with ILE 147 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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143C ALA 3.0 18.3 + - - +
144C PHE* 3.4 9.4 - - - +
146C THR* 1.3 74.1 - - - +
148C PHE* 1.3 64.6 + - - +
150C TRP* 3.2 8.6 + - + +
151C TYR* 2.9 22.5 + - - +
182C ILE* 4.2 8.3 - - + -
260C ALA* 3.4 36.6 - - + +
261C GLY* 4.0 7.4 - - - +
294C ALA* 3.6 26.0 - - + -
296C LEU* 3.9 35.9 - - + -
324C VAL* 4.2 11.9 - - + -
342C PHE* 4.2 7.4 - - + -
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Residues in contact with PHE 148 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
144C PHE* 2.9 31.0 + - + -
145C LYS* 3.7 8.3 - - - +
147C ILE* 1.3 76.0 - - - +
149C MET* 1.3 57.5 + - - +
151C TYR* 3.3 4.7 + - - +
152C ARG* 3.0 33.6 + - - +
180C TYR* 3.8 31.4 - - + -
181C SER 3.9 12.6 - - - -
182C ILE* 3.5 32.8 - - + -
215C TRP* 4.0 11.7 - + - -
260C ALA* 3.9 7.0 - - + -
194D MET* 3.9 18.8 - - - -
209D ASP 3.4 17.7 - - - +
210D ILE* 4.4 6.1 - - + -
211D PRO* 3.4 31.6 - - + -
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Residues in contact with MET 149 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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145C LYS 2.9 20.5 + - - +
146C THR* 3.6 6.7 - - + +
148C PHE* 1.3 78.4 - - - +
150C TRP* 1.3 57.5 + - - +
152C ARG* 4.0 2.1 - - - +
153C SER* 3.1 27.9 + - - -
156C ARG* 5.3 0.2 + - - -
342C PHE 5.6 0.4 - - - +
344C PRO* 3.5 42.6 - - + -
345C ASN 4.8 0.2 - - - +
349C ARG* 3.2 60.2 + - + +
350C ILE* 4.0 16.2 - - + -
209D ASP* 4.3 11.3 - - + +
210D ILE* 4.3 13.9 - - + -
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Residues in contact with TRP 150 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146C THR 3.0 17.3 + - - +
147C ILE 3.2 9.2 + - - +
149C MET* 1.3 77.7 - - - +
151C TYR* 1.3 76.5 + + + +
153C SER* 3.3 7.8 + - - -
154C LYS* 3.0 67.0 + - + +
260C ALA 3.7 6.3 - - - -
292C GLY* 3.3 15.9 - - - -
293C CYS 4.3 0.9 - - - -
294C ALA* 3.7 23.3 - - + -
323C ASP* 5.7 0.7 - - - -
341C GLU* 3.0 52.9 + - + +
342C PHE* 3.2 43.5 - + + +
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Residues in contact with TYR 151 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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147C ILE 2.9 15.7 + - - +
148C PHE 3.8 3.8 - - - +
150C TRP* 1.3 85.6 - + + +
152C ARG* 1.3 65.3 + - - +
153C SER 3.0 0.9 - - - -
154C LYS* 3.1 27.1 + - - +
155C GLU* 3.2 35.9 + - + +
180C TYR* 3.6 19.3 - + + -
258C THR* 3.3 28.5 - - + +
259C VAL 4.1 4.3 + - - -
260C ALA* 3.7 33.4 - - + -
291C HIS 4.5 8.5 + - - -
292C GLY* 3.2 26.2 - - - -
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Residues in contact with ARG 152 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
148C PHE 3.0 18.0 + - - +
149C MET 4.1 0.7 - - - +
151C TYR* 1.3 76.2 - - - +
153C SER* 1.3 61.7 + - - +
155C GLU* 3.2 18.9 + - - +
156C ARG* 3.1 53.5 + - - +
165C GLU* 2.9 24.2 + - - +
175C PRO* 3.4 26.7 + - - +
176C GLY 4.6 1.0 + - - -
178C PRO* 3.6 16.8 - - + +
180C TYR* 3.4 27.7 + - + -
209D ASP* 3.2 51.2 + - + +
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Residues in contact with SER 153 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149C MET 3.1 19.6 + - - -
150C TRP* 3.4 10.5 - - - -
151C TYR 3.0 1.0 - - - -
152C ARG* 1.3 77.8 - - - +
154C LYS* 1.3 61.4 + - - +
156C ARG* 4.2 11.1 - - - +
157C GLY* 3.2 25.6 + - - +
345C ASN* 6.0 2.8 - - - +
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Residues in contact with LYS 154 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
150C TRP* 3.0 50.4 + - + +
151C TYR* 3.1 29.8 + - - +
153C SER* 1.3 77.4 - - - +
155C GLU* 1.3 63.4 + - + +
157C GLY* 3.4 11.4 + - - -
292C GLY* 2.7 39.0 + - - -
341C GLU* 5.2 2.7 - - - +
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Residues in contact with GLU 155 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
151C TYR* 3.2 29.4 + - + +
152C ARG* 3.2 24.5 + - - +
154C LYS* 1.3 82.3 - - + +
156C ARG* 1.3 60.6 + - + +
157C GLY 3.6 0.3 + - - -
180C TYR* 2.3 40.9 + - - -
258C THR* 4.9 3.6 + - - +
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Residues in contact with ARG 156 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
152C ARG* 3.1 48.4 + - - +
153C SER* 4.2 10.0 - - - +
155C GLU* 1.3 76.3 - - - +
157C GLY* 1.3 70.4 + - - +
158C GLN 3.2 0.5 + - - -
159C SER* 2.9 55.9 + - - +
160C ALA* 4.3 8.2 + - - +
161C PHE* 3.7 23.2 - - - +
165C GLU* 3.1 30.5 + - - +
208D ILE* 4.7 0.4 - - - +
209D ASP* 3.1 39.0 + - - -
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Residues in contact with GLY 157 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
153C SER* 3.2 21.0 + - - +
154C LYS 3.4 7.4 + - - -
155C GLU 3.3 4.0 - - - -
156C ARG* 1.3 78.1 - - - +
158C GLN* 1.3 61.0 + - - -
159C SER 4.0 3.3 - - - +
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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