GREMLIN Database
RBSB - D-ribose-binding periplasmic protein
UniProt: P02925 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG10815
Length: 296 (279)
Sequences: 38439 (28922)
Seq/√Len: 1731.5

GREMLIN Results:

Legend: The darker and larger the blue dots, the higher coevolution strength.

Residue pairs sorted by coevolution strength:
i j Sco Prob
131_V172_Q3.4241.00
148_G209_Q3.2781.00
85_I273_A2.7961.00
137_A237_V2.6991.00
167_G171_Q2.6341.00
241_G259_A2.6251.00
148_G235_M2.6161.00
124_S276_V2.5231.00
135_K176_A2.3011.00
51_E54_K2.2581.00
195_L228_T2.2531.00
199_Q229_A2.2351.00
139_D173_A2.1771.00
135_K172_Q2.1661.00
51_E271_E2.1561.00
135_K173_A2.1411.00
199_Q225_A2.1011.00
132_L136_I2.0941.00
142_A177_H2.0791.00
268_K271_E2.0521.00
141_I210_A2.0511.00
52_A270_V2.0481.00
133_G239_F2.0021.00
134_G138_G1.9891.00
51_E267_A1.9821.00
131_V168_E1.9601.00
47_G266_G1.9031.00
194_G221_G1.8681.00
139_D143_K1.8431.00
140_Y144_K1.8281.00
30_A83_T1.8181.00
138_G170_F1.8131.00
134_G212_F1.8011.00
152_I208_V1.7731.00
139_D177_H1.7691.00
203_T229_A1.7441.00
213_A222_A1.7371.00
153_E214_Q1.7341.00
226_L234_V1.7331.00
198_M222_A1.7221.00
275_K280_E1.7201.00
135_K139_D1.7201.00
259_A291_K1.7171.00
50_K263_D1.7131.00
195_L225_A1.7111.00
113_L269_G1.6681.00
51_E55_L1.6511.00
261_L264_Q1.6491.00
47_G263_D1.6221.00
150_K207_D1.6071.00
132_L135_K1.6021.00
225_A229_A1.6011.00
168_E172_Q1.5891.00
227_Q251_D1.5811.00
140_Y143_K1.5761.00
142_A173_A1.5271.00
55_L274_D1.5271.00
136_I290_L1.5251.00
6_L10_V1.5101.00
274_D278_K1.5081.00
237_V256_A1.4901.00
225_A228_T1.4881.00
27_D84_K1.4691.00
195_L224_R1.4671.00
171_Q175_A1.4621.00
165_E168_E1.4501.00
188_D193_K1.4451.00
264_Q268_K1.4421.00
181_V184_S1.4321.00
129_D132_L1.3961.00
150_K209_Q1.3881.00
134_G169_G1.3851.00
264_Q267_A1.3831.00
173_A176_A1.3791.00
268_K286_Y1.3741.00
51_E270_V1.3661.00
150_K182_L1.3571.00
226_L231_K1.3561.00
195_L199_Q1.3421.00
205_H208_V1.3421.00
138_G169_G1.3381.00
138_G142_A1.3351.00
152_I201_L1.3291.00
185_Q200_N1.3161.00
199_Q228_T1.3081.00
138_G173_A1.3081.00
131_V135_K1.3071.00
87_L269_G1.3001.00
198_M226_L1.2961.00
30_A78_L1.2911.00
150_K180_N1.2901.00
62_L74_N1.2761.00
136_I139_D1.2691.00
62_L78_L1.2671.00
199_Q203_T1.2671.00
101_K105_Q1.2651.00
169_G173_A1.2611.00
52_A59_L1.2591.00
27_D57_Y1.2511.00
133_G290_L1.2491.00
148_G210_A1.2471.00
28_T58_N1.2461.00
271_E275_K1.2411.00
198_M211_V1.2351.00
227_Q253_K1.2321.00
76_Q102_M1.2291.00
29_I52_A1.2291.00
48_A270_V1.2131.00
28_T60_V1.2121.00
15_L18_T1.2081.00
16_S19_V1.1961.00
263_D267_A1.1901.00
6_L9_L1.1891.00
55_L271_E1.1791.00
221_G225_A1.1781.00
140_Y256_A1.1631.00
149_A209_Q1.1541.00
153_E167_G1.1481.00
31_L48_A1.1481.00
200_N204_A1.1431.00
131_V169_G1.1391.00
49_Q53_D1.1381.00
173_A177_H1.1341.00
223_L236_V1.1301.00
7_A10_V1.1281.00
170_F174_V1.1261.00
171_Q181_V1.1101.00
170_F212_F1.1091.00
197_V200_N1.1091.00
131_V165_E1.1051.00
139_D176_A1.1041.00
216_D257_T1.1011.00
192_I196_N1.0991.00
31_L59_L1.0971.00
190_D193_K1.0881.00
154_L222_A1.0881.00
211_V222_A1.0831.00
45_K49_Q1.0771.00
164_R168_E1.0691.00
137_A212_F1.0661.00
268_K272_T1.0651.00
266_G270_V1.0641.00
72_L76_Q1.0641.00
151_V174_V1.0631.00
168_E171_Q1.0551.00
172_Q176_A1.0551.00
53_D70_K1.0541.00
191_R224_R1.0521.00
48_A87_L1.0491.00
70_K73_A1.0461.00
142_A179_F1.0411.00
213_A218_M1.0371.00
267_A271_E1.0331.00
216_D238_G1.0311.00
14_A19_V1.0271.00
150_K206_P1.0131.00
15_L21_A1.0111.00
193_K196_N1.0051.00
57_Y274_D0.9951.00
196_N200_N0.9921.00
144_K235_M0.9851.00
223_L250_N0.9841.00
198_M202_L0.9811.00
137_A258_I0.9791.00
273_A277_L0.9791.00
213_A219_A0.9781.00
161_S165_E0.9751.00
194_G198_M0.9701.00
76_Q80_V0.9651.00
46_D50_K0.9641.00
124_S272_T0.9621.00
55_L278_K0.9581.00
54_K267_A0.9561.00
143_K177_H0.9541.00
97_G101_K0.9541.00
151_V210_A0.9491.00
138_G174_V0.9481.00
67_N70_K0.9461.00
149_A179_F0.9451.00
17_A20_S0.9431.00
272_T286_Y0.9391.00
156_G189_F0.9331.00
18_T21_A0.9301.00
87_L273_A0.9221.00
40_F262_P0.9131.00
185_Q197_V0.9111.00
158_A186_P0.9071.00
29_I87_L0.9031.00
216_D241_G0.8971.00
211_V234_V0.8911.00
231_K234_V0.8861.00
193_K197_V0.8791.00
159_G164_R0.8781.00
130_N166_R0.8741.00
142_A149_A0.8691.00
48_A266_G0.8681.00
85_I277_L0.8651.00
128_S261_L0.8631.00
268_K288_V0.8621.00
50_K54_K0.8621.00
196_N199_Q0.8611.00
132_L289_D0.8591.00
219_A238_G0.8581.00
152_I211_V0.8551.00
155_Q167_G0.8551.00
28_T81_R0.8491.00
144_K148_G0.8481.00
224_R227_Q0.8471.00
226_L236_V0.8461.00
261_L291_K0.8431.00
50_K267_A0.8411.00
202_L225_A0.8401.00
128_S260_Q0.8391.00
44_L113_L0.8371.00
45_K61_V0.8361.00
31_L45_K0.8331.00
70_K74_N0.8251.00
272_T275_K0.8241.00
187_A218_M0.8191.00
12_A18_T0.8161.00
126_I272_T0.8111.00
172_Q175_A0.8101.00
238_G257_T0.8101.00
60_V83_T0.8081.00
48_A59_L0.8071.00
141_I237_V0.8041.00
129_D287_P0.8031.00
174_V181_V0.8031.00
270_V274_D0.8001.00
104_N123_V0.7981.00
12_A15_L0.7961.00
60_V81_R0.7931.00
46_D49_Q0.7871.00
73_A76_Q0.7851.00
102_M105_Q0.7821.00
125_H285_K0.7791.00
261_L288_V0.7761.00
153_E212_F0.7731.00
198_M225_A0.7711.00
47_G267_A0.7691.00
202_L229_A0.7621.00
240_D260_Q0.7601.00
32_V74_N0.7601.00
207_D231_K0.7601.00
174_V179_F0.7601.00
65_Q70_K0.7581.00
26_K84_K0.7571.00
154_L213_A0.7551.00
99_A102_M0.7551.00
127_A285_K0.7531.00
198_M201_L0.7521.00
132_L290_L0.7511.00
34_S41_F0.7471.00
43_S263_D0.7461.00
165_E169_G0.7451.00
128_S290_L0.7441.00
13_V80_V0.7431.00
248_A253_K0.7421.00
127_A287_P0.7381.00
47_G51_E0.7381.00
124_S284_A0.7351.00
200_N203_T0.7341.00
87_L113_L0.7331.00
79_T106_A0.7301.00
135_K169_G0.7251.00
85_I111_I0.7231.00
116_Q285_K0.7211.00
216_D219_A0.7181.00
140_Y292_L0.7121.00
224_R253_K0.7111.00
103_A110_V0.7091.00
163_A189_F0.7091.00
30_A86_L0.7031.00
101_K104_N0.7001.00
72_L99_A0.6991.00
38_N217_E0.6961.00
112_T117_A0.6931.00
26_K58_N0.6921.00
189_F214_Q0.6901.00
215_N240_D0.6871.00
136_I258_I0.6851.00
245_G254_L0.6841.00
49_Q59_L0.6811.00
156_G163_A0.6781.00
69_A73_A0.6761.00
153_E170_F0.6741.00
129_D289_D0.6741.00
187_A193_K0.6721.00
13_V76_Q0.6711.00
170_F181_V0.6711.00
8_T11_S0.6671.00
114_D162_A0.6651.00
111_I276_V0.6641.00
29_I270_V0.6631.00
13_V17_A0.6621.00
224_R228_T0.6551.00
212_F237_V0.6531.00
209_Q235_M0.6521.00
25_A84_K0.6501.00
75_V86_L0.6481.00
77_D81_R0.6471.00
215_N218_M0.6471.00
142_A174_V0.6441.00
112_T125_H0.6421.00
204_A208_V0.6411.00
79_T108_I0.6371.00
223_L227_Q0.6361.00
85_I269_G0.6321.00
216_D242_T0.6311.00
52_A57_Y0.6301.00
43_S262_P0.6291.00
25_A278_K0.6241.00
212_F239_F0.6211.00
194_G197_V0.6181.00
198_M221_G0.6161.00
151_V209_Q0.6161.00
86_L108_I0.6151.00
204_A207_D0.6141.00
114_D130_N0.6141.00
68_P72_L0.6131.00
191_R244_D0.6121.00
219_A254_L0.6091.00
141_I212_F0.6091.00
29_I277_L0.6051.00
136_I140_Y0.6041.00
224_R251_D0.6021.00
111_I273_A0.5961.00
29_I85_I0.5961.00
41_F89_N0.5951.00
220_L250_N0.5951.00
104_N110_V0.5951.00
98_N101_K0.5911.00
46_D263_D0.5891.00
110_V123_V0.5891.00
62_L77_D0.5891.00
111_I126_I0.5891.00
47_G262_P0.5881.00
116_Q125_H0.5881.00
57_Y84_K0.5871.00
201_L205_H0.5871.00
226_L229_A0.5861.00
12_A16_S0.5861.00
140_Y237_V0.5861.00
148_G178_K0.5851.00
163_A214_Q0.5811.00
49_Q63_D0.5811.00
130_N162_A0.5801.00
192_I195_L0.5801.00
137_A210_A0.5781.00
241_G245_G0.5781.00
112_T123_V0.5761.00
40_F44_L0.5731.00
224_R248_A0.5721.00
263_D266_G0.5711.00
150_K208_V0.5711.00
185_Q204_A0.5711.00
197_V201_L0.5701.00
216_D245_G0.5691.00
111_I272_T0.5671.00
74_N77_D0.5671.00
166_R260_Q0.5661.00
120_G123_V0.5651.00
127_A130_N0.5641.00
130_N165_E0.5621.00
189_F218_M0.5601.00
102_M106_A0.5571.00
213_A238_G0.5571.00
111_I269_G0.5551.00
44_L262_P0.5551.00
29_I57_Y0.5541.00
73_A77_D0.5541.00
239_F260_Q0.5541.00
114_D265_I0.5501.00
77_D80_V0.5481.00
150_K205_H0.5481.00
185_Q201_L0.5481.00
15_L19_V0.5471.00
250_N253_K0.5471.00
28_T83_T0.5431.00
220_L242_T0.5411.00
210_A235_M0.5411.00
151_V170_F0.5371.00
202_L226_L0.5361.00
46_D65_Q0.5351.00
191_R221_G0.5311.00
272_T276_V0.5301.00
19_V23_A0.5291.00
195_L198_M0.5291.00
28_T84_K0.5291.00
195_L221_G0.5281.00
287_P290_L0.5271.00
135_K138_G0.5261.00
72_L102_M0.5251.00
27_D277_L0.5201.00
98_N102_M0.5201.00
64_S71_E0.5191.00
57_Y277_L0.5191.00
78_L83_T0.5151.00
268_K275_K0.5151.00
256_A292_L0.5151.00
222_A226_L0.5101.00
154_L197_V0.5101.00
128_S239_F0.5101.00
139_D142_A0.5091.00
245_G257_T0.5071.00
109_P277_L0.5071.00
52_A274_D0.5071.00
12_A17_A0.5061.00
191_R217_E0.5061.00
16_S20_S0.5051.00
47_G50_K0.5051.00
275_K284_A0.5041.00
39_P217_E0.5031.00
27_D278_K0.5021.00
219_A236_V0.5001.00
76_Q79_T0.5001.00
154_L198_M0.5001.00
208_V231_K0.5001.00
Legend: The i and j are positions as given in the UniProt sequence. Only predictions with Prob ≥ 0.7 are listed. For all 3L/2 predictions, click on one of the links below.

Sco = ((raw_sco - min_sco)/(avg_sco - min_sco))/2 + 0.5
Prob = P(contact | Sco, seq80/√len)
seq80 = effective number of sequences, after reducing redundancy to 80% identity

HHsearch Results:
Legend: GREMLIN results (Prob ≥ 0.7) overlaid on top PDB hits. The grey/red filled circles underneath are pdb residue contacts (min distance < 5 Angstroms). The shade of the circles is based on the top 10 (or top 20 if e-value < 1E-20) HHsearch results which uses the overall probability and per-site alignment prob. Inter oligomeric contacts in the pdb are in shades of red.
PDB Chains Cov % HHΔ  
3dbiA 2 0.8986 100 0.126 Contact Map
2hsgA 1 0.9628 100 0.126 Contact Map
4o5aA 2 0.8784 100 0.128 Contact Map
2iksA 2 0.8986 100 0.132 Contact Map
1qpzA 2 0.9764 100 0.133 Contact Map
3huuA 2 0.8649 100 0.133 Contact Map
3bilA 2 0.8412 100 0.139 Contact Map
1jyeA 2 0.8851 100 0.14 Contact Map
3e3mA 2 0.8716 100 0.141 Contact Map
3kjxA 2 0.973 100 0.142 Contact Map

Sequence Conservation (Image Generated using WebLogo v3)
Legend: Color is used to show Hydrophobicity (Blue: Hydrophilic, Green: Neutral and Black: Hydrophobic). Amount of gaps is represented by width.

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