GREMLIN Database
YCKB - Probable ABC transporter extracellular-binding protein YckB
UniProt: P42400 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 287 (244)
Sequences: 21429 (15564)
Seq/√Len: 996.4

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
50_A108_V3.7991.00
46_K90_E3.7331.00
160_A198_T3.6141.00
84_R254_E2.9651.00
168_M182_D2.4201.00
129_T253_K2.4201.00
183_N192_D2.3701.00
48_V90_E2.3641.00
102_A108_V2.3181.00
185_T188_Q2.2941.00
117_V234_A2.2931.00
117_V122_E2.2291.00
46_K88_K2.2141.00
62_D67_S2.1911.00
62_D71_T2.1691.00
168_M172_R2.1501.00
48_V92_K2.1481.00
260_S263_K2.1201.00
119_K122_E2.0811.00
104_N124_K2.0771.00
262_T266_K2.0681.00
158_K181_Y2.0551.00
125_F236_V2.0241.00
237_M245_Q2.0151.00
80_E83_K2.0061.00
253_K257_K2.0041.00
84_R251_A1.9921.00
126_A245_Q1.9891.00
245_Q249_N1.9271.00
82_A89_V1.9001.00
203_N208_Q1.8841.00
150_T153_D1.8501.00
49_V78_V1.8291.00
189_Y201_I1.8291.00
129_T249_N1.8261.00
237_M248_M1.8211.00
149_K153_D1.7971.00
63_T67_S1.7821.00
158_K179_V1.7561.00
80_E260_S1.7291.00
192_D197_R1.7131.00
112_A235_L1.6611.00
139_I208_Q1.6391.00
102_A107_Q1.6161.00
80_E255_M1.6091.00
80_E84_R1.6021.00
141_R196_G1.5751.00
62_D69_K1.5241.00
163_A184_A1.5091.00
61_H93_E1.5061.00
76_E267_Q1.4941.00
133_Y232_K1.4931.00
94_M102_A1.4911.00
238_K241_N1.4741.00
246_K250_E1.4531.00
242_A246_K1.4531.00
39_E43_D1.4421.00
99_M111_A1.4281.00
126_A240_S1.4241.00
84_R258_D1.4021.00
169_E173_K1.3931.00
128_S249_N1.3841.00
247_K250_E1.3801.00
81_A251_A1.3791.00
100_L125_F1.3561.00
79_R91_F1.3531.00
115_I236_V1.3411.00
60_Y71_T1.3341.00
157_K199_D1.3321.00
158_K199_D1.3301.00
192_D198_T1.3291.00
143_D221_T1.3251.00
184_A188_Q1.3231.00
170_V174_Y1.3211.00
49_V110_A1.2981.00
78_V112_A1.2951.00
205_Y209_T1.2941.00
25_C28_K1.2911.00
75_V79_R1.2881.00
53_G93_E1.2831.00
172_R182_D1.2701.00
137_T205_Y1.2421.00
85_L251_A1.2371.00
136_G167_Y1.2241.00
106_G238_K1.2191.00
160_A183_N1.2181.00
251_A254_E1.2091.00
159_A200_V1.1961.00
138_A200_V1.1931.00
140_V200_V1.1841.00
191_K194_A1.1831.00
161_G168_M1.1831.00
111_A115_I1.1761.00
254_E258_D1.1751.00
40_Q44_K1.1641.00
74_E131_Y1.1611.00
247_K251_A1.1361.00
120_D123_E1.1311.00
76_E268_F1.1301.00
142_K221_T1.1221.00
45_G87_L1.1141.00
101_T104_N1.1091.00
256_S261_L1.1051.00
251_A255_M1.1031.00
94_M108_V1.1011.00
87_L247_K1.1001.00
79_R83_K1.0911.00
73_Y264_L1.0791.00
191_K195_N1.0751.00
95_G98_G1.0701.00
39_E42_K1.0631.00
78_V91_F1.0531.00
73_Y265_S1.0521.00
76_E79_R1.0501.00
49_V89_V1.0441.00
250_E254_E1.0411.00
183_N189_Y1.0391.00
77_V261_L1.0391.00
193_V198_T1.0381.00
126_A239_K1.0381.00
44_K48_V1.0351.00
69_K79_R1.0351.00
193_V220_I1.0221.00
162_A165_T1.0211.00
242_A245_Q1.0181.00
78_V89_V1.0151.00
101_T105_S1.0141.00
260_S264_L1.0131.00
117_V130_P1.0131.00
61_H68_D1.0111.00
126_A242_A1.0111.00
22_L25_C1.0091.00
129_T256_S1.0091.00
193_V201_I1.0081.00
36_T243_A1.0011.00
73_Y269_F0.9991.00
77_V255_M0.9881.00
18_F21_I0.9841.00
71_T76_E0.9681.00
215_F218_L0.9671.00
194_A215_F0.9541.00
137_T222_I0.9501.00
210_L214_A0.9501.00
243_A247_K0.9501.00
118_T121_R0.9451.00
169_E172_R0.9441.00
163_A182_D0.9421.00
81_A248_M0.9421.00
110_A248_M0.9411.00
266_K270_N0.9391.00
255_M260_S0.9321.00
41_I87_L0.9301.00
38_W41_I0.9291.00
100_L115_I0.9281.00
188_Q191_K0.9241.00
104_N125_F0.9061.00
110_A237_M0.9061.00
119_K123_E0.9051.00
170_V173_K0.9011.00
84_R260_S0.9011.00
128_S248_M0.8971.00
70_L75_V0.8971.00
261_L265_S0.8971.00
41_I44_K0.8871.00
140_V223_H0.8861.00
249_N252_L0.8851.00
263_K266_K0.8831.00
134_S206_Y0.8811.00
160_A189_Y0.8791.00
56_Y60_Y0.8791.00
127_F236_V0.8771.00
122_E239_K0.8641.00
53_G70_L0.8601.00
61_H70_L0.8581.00
73_Y261_L0.8531.00
249_N253_K0.8481.00
110_A235_L0.8471.00
21_I24_A0.8401.00
96_I99_M0.8361.00
47_I110_A0.8321.00
84_R255_M0.8291.00
263_K267_Q0.8271.00
78_V235_L0.8261.00
175_G178_E0.8251.00
187_E191_K0.8221.00
47_I87_L0.8221.00
60_Y268_F0.8201.00
58_T132_K0.8201.00
254_E257_K0.8151.00
47_I82_A0.8141.00
41_I45_G0.8131.00
181_Y192_D0.8131.00
186_N203_N0.8111.00
51_T75_V0.8081.00
98_G102_A0.8031.00
79_R89_V0.7981.00
152_K155_K0.7971.00
42_K45_G0.7961.00
243_A246_K0.7891.00
255_M258_D0.7881.00
78_V110_A0.7871.00
194_A217_D0.7821.00
80_E251_A0.7821.00
17_A20_L0.7791.00
135_Y205_Y0.7671.00
154_L200_V0.7671.00
51_T91_F0.7661.00
23_A26_S0.7651.00
138_A202_L0.7611.00
111_A236_V0.7591.00
121_R127_F0.7571.00
262_T265_S0.7551.00
116_D231_N0.7551.00
265_S269_F0.7481.00
51_T113_N0.7481.00
255_M259_G0.7431.00
250_E253_K0.7371.00
190_L194_A0.7371.00
81_A85_L0.7351.00
55_L114_D0.7331.00
85_L247_K0.7311.00
63_T68_D0.7311.00
128_S237_M0.7261.00
183_N198_T0.7191.00
161_G182_D0.7191.00
92_K107_Q0.7191.00
140_V221_T0.7161.00
37_G40_Q0.7151.00
48_V109_D0.7111.00
134_S205_Y0.7091.00
188_Q192_D0.7081.00
103_V111_A0.7071.00
235_L248_M0.7051.00
38_W42_K0.6991.00
46_K87_L0.6981.00
96_I115_I0.6961.00
209_T213_A0.6961.00
36_T39_E0.6941.00
128_S235_L0.6901.00
116_D121_R0.6881.00
53_G59_S0.6881.00
52_S59_S0.6821.00
137_T208_Q0.6811.00
98_G101_T0.6811.00
94_M99_M0.6791.00
255_M261_L0.6781.00
81_A112_A0.6771.00
49_V91_F0.6761.00
77_V252_L0.6721.00
139_I220_I0.6651.00
148_I153_D0.6651.00
24_A27_G0.6631.00
35_D40_Q0.6621.00
15_T18_F0.6611.00
155_K177_K0.6591.00
160_A192_D0.6581.00
106_G240_S0.6571.00
126_A241_N0.6561.00
172_R180_I0.6561.00
246_K249_N0.6541.00
36_T40_Q0.6501.00
18_F22_L0.6501.00
80_E264_L0.6501.00
137_T224_P0.6481.00
104_N238_K0.6481.00
171_A180_I0.6441.00
71_T268_F0.6441.00
52_S96_I0.6441.00
253_K256_S0.6431.00
50_A99_M0.6411.00
92_K108_V0.6391.00
40_Q43_D0.6391.00
20_L23_A0.6331.00
103_V238_K0.6301.00
181_Y198_T0.6301.00
129_T252_L0.6291.00
100_L104_N0.6271.00
209_T222_I0.6261.00
75_V91_F0.6251.00
147_G221_T0.6241.00
51_T70_L0.6191.00
159_A171_A0.6171.00
103_V108_V0.6121.00
241_N244_L0.6111.00
171_A202_L0.6111.00
203_N207_L0.6091.00
158_K198_T0.6081.00
173_K176_A0.6071.00
210_L213_A0.6051.00
115_I125_F0.6051.00
14_F17_A0.6051.00
127_F234_A0.6041.00
163_A168_M0.6041.00
81_A235_L0.6011.00
133_Y230_P0.5951.00
135_Y227_K0.5911.00
15_T19_F0.5861.00
213_A270_N0.5861.00
52_S162_A0.5841.00
24_A28_K0.5831.00
139_I212_L0.5811.00
117_V127_F0.5771.00
166_V231_N0.5751.00
136_G202_L0.5741.00
78_V82_A0.5731.00
44_K109_D0.5711.00
132_K233_Q0.5711.00
82_A87_L0.5701.00
134_S233_Q0.5701.00
256_S259_G0.5701.00
139_I190_L0.5701.00
50_A111_A0.5681.00
85_L244_L0.5671.00
181_Y197_R0.5671.00
259_G262_T0.5661.00
204_D233_Q0.5641.00
82_A85_L0.5591.00
138_A154_L0.5571.00
19_F25_C0.5561.00
128_S252_L0.5561.00
52_S113_N0.5551.00
135_Y229_M0.5551.00
255_M264_L0.5541.00
143_D196_G0.5521.00
38_W87_L0.5521.00
103_V125_F0.5521.00
130_P133_Y0.5511.00
14_F18_F0.5481.00
84_R247_K0.5481.00
135_Y230_P0.5471.00
159_A178_E0.5471.00
74_E114_D0.5451.00
194_A220_I0.5441.00
99_M115_I0.5411.00
16_M19_F0.5401.00
17_A21_I0.5401.00
16_M20_L0.5391.00
107_Q197_R0.5351.00
162_A186_N0.5341.00
35_D39_E0.5341.00
198_T201_I0.5341.00
237_M241_N0.5341.00
67_S71_T0.5341.00
122_E126_A0.5311.00
221_T224_P0.5301.00
50_A94_M0.5301.00
194_A218_L0.5301.00
259_G263_K0.5291.00
76_E264_L0.5291.00
208_Q212_L0.5271.00
192_D195_N0.5261.00
116_D166_V0.5231.00
82_A86_G0.5231.00
83_K260_S0.5201.00
59_S113_N0.5201.00
42_K247_K0.5181.00
56_Y214_A0.5111.00
165_T168_M0.5101.00
57_P60_Y0.5071.00
141_R146_S0.5031.00
109_D238_K0.5011.00
167_Y202_L0.5011.00
147_G157_K0.5011.00
47_I85_L0.5011.00
55_L96_I0.5011.00
106_G241_N0.5001.00
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  
1xt8A 1 0.8502 100 0.305 Contact Map
2ieeA 1 0.8676 100 0.326 Contact Map
2yjpA 1 0.8467 100 0.332 Contact Map
2ylnA 1 0.8258 100 0.334 Contact Map
3kbrA 4 0.7979 100 0.337 Contact Map
1pb7A 1 0.8711 100 0.337 Contact Map
4ohnA 1 0.8293 100 0.339 Contact Map
3k4uA 5 0.8084 100 0.342 Contact Map
4powA 1 0.7875 100 0.344 Contact Map
4ymxA 1 0.7596 100 0.35 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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