GREMLIN Database
YUMB - NADH dehydrogenase-like protein YumB
UniProt: O05267 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 406 (325)
Sequences: 30715 (21659)
Seq/√Len: 1201.4

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
40_K82_T4.2331.00
162_V257_S4.1541.00
7_K34_D3.5831.00
160_T196_R3.3371.00
198_I230_K3.1111.00
91_K297_N3.0741.00
287_N291_R2.9631.00
196_R228_E2.8741.00
219_V223_E2.8591.00
92_K99_E2.7251.00
20_T106_V2.7181.00
230_K253_E2.5061.00
6_P36_T2.4521.00
88_I295_H2.3781.00
278_E285_K2.3711.00
114_E267_R2.3601.00
87_K90_E2.3311.00
7_K36_T2.3111.00
7_K103_D2.2961.00
102_Y105_L2.2841.00
202_A234_A2.2801.00
119_K237_E2.2771.00
36_T79_V2.2511.00
38_V100_L2.2401.00
8_I24_L2.1341.00
104_Y297_N2.1211.00
162_V200_V2.0941.00
160_T198_I2.0941.00
279_N283_R2.0791.00
112_V269_H2.0731.00
9_V38_V2.0661.00
34_D77_N2.0621.00
243_V247_K2.0361.00
243_V249_D2.0331.00
16_G301_L2.0161.00
198_I228_E1.9541.00
112_V267_R1.9401.00
204_P232_G1.9281.00
160_T258_Q1.9171.00
94_V99_E1.9101.00
106_V334_L1.8871.00
9_V100_L1.8791.00
271_I274_E1.7821.00
157_D195_V1.7201.00
205_T215_V1.7101.00
359_E364_G1.7051.00
9_V93_V1.7021.00
109_L304_S1.6981.00
88_I298_V1.6951.00
330_V334_L1.6941.00
299_F333_N1.6641.00
104_Y299_F1.6561.00
92_K101_Q1.6181.00
10_I21_V1.6141.00
59_H62_R1.6041.00
212_P362_A1.5981.00
278_E294_G1.5931.00
130_N133_T1.5671.00
85_A94_V1.5641.00
91_K95_L1.5631.00
95_L98_G1.5531.00
233_T251_E1.5311.00
200_V255_I1.5241.00
291_R296_D1.5111.00
237_E248_K1.5091.00
84_K94_V1.4951.00
161_I177_L1.4951.00
212_P216_D1.4921.00
329_T333_N1.4861.00
162_V247_K1.4811.00
178_A196_R1.4761.00
9_V36_T1.4711.00
171_I199_C1.4651.00
106_V301_L1.4621.00
230_K233_T1.4541.00
359_E367_Y1.4361.00
85_A274_E1.4321.00
6_P77_N1.4271.00
327_G331_A1.4211.00
178_A227_V1.4181.00
104_Y334_L1.4141.00
13_A39_N1.4121.00
8_I33_A1.4091.00
166_A201_E1.4031.00
219_V231_I1.3711.00
284_V300_I1.3701.00
159_L258_Q1.3681.00
82_T96_A1.3561.00
9_V102_Y1.3461.00
49_W52_E1.3451.00
11_L83_V1.3441.00
133_T136_L1.3361.00
95_L100_L1.3361.00
239_T248_K1.3331.00
331_A335_G1.3301.00
23_R332_K1.3301.00
201_E231_I1.3191.00
126_F140_H1.3171.00
160_T256_K1.3131.00
221_Y224_E1.3091.00
8_I106_V1.3041.00
233_T253_E1.2991.00
111_A266_V1.2691.00
220_H223_E1.2641.00
87_K92_K1.2621.00
301_L330_V1.2611.00
161_I259_T1.2601.00
236_Q248_K1.2571.00
161_I195_V1.2571.00
11_L109_L1.2521.00
16_G323_A1.2491.00
362_A366_V1.2291.00
205_T212_P1.2241.00
361_N365_V1.2081.00
290_L330_V1.2071.00
221_Y225_N1.2031.00
6_P104_Y1.1891.00
132_N135_R1.1811.00
179_A225_N1.1811.00
289_D333_N1.1781.00
364_G371_L1.1761.00
69_D73_Q1.1741.00
68_K72_N1.1721.00
236_Q252_P1.1721.00
36_T100_L1.1701.00
246_G254_Q1.1661.00
79_V100_L1.1631.00
249_D252_P1.1581.00
336_R341_G1.1581.00
81_D97_N1.1511.00
11_L107_I1.1461.00
10_I17_G1.1461.00
279_N306_L1.1261.00
129_A137_L1.1251.00
220_H224_E1.1251.00
108_G301_L1.1201.00
239_T254_Q1.1151.00
219_V229_F1.0971.00
107_I304_S1.0961.00
129_A133_T1.0931.00
84_K96_A1.0891.00
244_R254_Q1.0841.00
290_L305_S1.0811.00
166_A206_V1.0731.00
131_I135_R1.0701.00
230_K255_I1.0621.00
216_D219_V1.0621.00
291_R297_N1.0551.00
135_R138_R1.0521.00
7_K101_Q1.0501.00
70_V74_S1.0481.00
59_H66_Q1.0361.00
206_V231_I1.0361.00
300_I304_S1.0281.00
20_T327_G1.0251.00
279_N285_K1.0221.00
238_C260_V1.0141.00
205_T219_V1.0141.00
171_I350_I1.0131.00
237_E244_R1.0041.00
64_R67_I0.9941.00
25_T76_V0.9931.00
105_L298_V0.9901.00
60_H64_R0.9821.00
131_I134_S0.9801.00
217_Y221_Y0.9801.00
90_E99_E0.9721.00
257_S260_V0.9691.00
24_L331_A0.9661.00
23_R328_I0.9641.00
330_V333_N0.9621.00
243_V246_G0.9621.00
286_V300_I0.9531.00
162_V255_I0.9521.00
286_V305_S0.9521.00
81_D96_A0.9501.00
20_T330_V0.9491.00
239_T242_G0.9481.00
17_G21_V0.9471.00
295_H298_V0.9471.00
20_T301_L0.9461.00
164_G260_V0.9451.00
280_M285_K0.9451.00
85_A105_L0.9411.00
158_R195_V0.9401.00
239_T246_G0.9311.00
39_N78_F0.9231.00
248_K254_Q0.9191.00
178_A225_N0.9171.00
233_T250_E0.9151.00
21_V76_V0.9141.00
38_V79_V0.9141.00
292_A300_I0.9131.00
66_Q69_D0.9011.00
36_T77_N0.8981.00
292_A295_H0.8971.00
234_A250_E0.8961.00
363_V366_V0.8961.00
240_P245_V0.8951.00
38_V95_L0.8941.00
210_F346_F0.8921.00
200_V230_K0.8921.00
6_P34_D0.8891.00
67_I70_V0.8861.00
164_G262_W0.8851.00
63_C66_Q0.8801.00
129_A134_S0.8791.00
125_A238_C0.8771.00
42_N80_Q0.8751.00
64_R68_K0.8741.00
13_A37_L0.8731.00
60_H67_I0.8721.00
38_V83_V0.8691.00
284_V304_S0.8671.00
244_R256_K0.8671.00
47_T52_E0.8671.00
216_D220_H0.8651.00
281_R306_L0.8641.00
67_I71_I0.8611.00
159_L196_R0.8581.00
59_H63_C0.8561.00
137_L259_T0.8561.00
361_N371_L0.8511.00
160_T195_V0.8511.00
134_S138_R0.8501.00
239_T244_R0.8481.00
201_E208_P0.8481.00
71_I76_V0.8421.00
44_H78_F0.8421.00
200_V233_T0.8401.00
291_R295_H0.8331.00
236_Q250_E0.8331.00
66_Q70_V0.8251.00
128_I134_S0.8241.00
271_I275_A0.8221.00
8_I334_L0.8201.00
217_Y220_H0.8191.00
20_T331_A0.8171.00
363_V367_Y0.8171.00
113_P116_F0.8141.00
9_V105_L0.8101.00
23_R26_K0.8051.00
164_G264_A0.8041.00
300_I305_S0.8031.00
241_E244_R0.8021.00
223_E228_E0.8021.00
23_R331_A0.8011.00
233_T249_D0.8001.00
299_F334_L0.7971.00
198_I255_I0.7951.00
17_G108_G0.7951.00
285_K294_G0.7921.00
61_D65_Y0.7901.00
106_V330_V0.7891.00
203_A208_P0.7881.00
102_Y297_N0.7851.00
170_G201_E0.7851.00
241_E256_K0.7801.00
22_T26_K0.7771.00
291_R333_N0.7761.00
33_A103_D0.7741.00
87_K94_V0.7741.00
291_R299_F0.7721.00
124_Y240_P0.7711.00
365_V371_L0.7701.00
290_L329_T0.7691.00
332_K337_L0.7671.00
118_I121_L0.7601.00
10_I20_T0.7571.00
160_T257_S0.7541.00
175_G179_A0.7521.00
94_V97_N0.7511.00
299_F330_V0.7501.00
19_M324_M0.7501.00
19_M327_G0.7491.00
7_K33_A0.7441.00
83_V93_V0.7411.00
117_G121_L0.7411.00
346_F356_S0.7401.00
87_K91_K0.7381.00
270_P273_E0.7371.00
60_H66_Q0.7361.00
24_L33_A0.7351.00
86_I99_E0.7341.00
199_C229_F0.7331.00
65_Y68_K0.7311.00
360_H363_V0.7291.00
174_L199_C0.7291.00
299_F337_L0.7271.00
130_N134_S0.7271.00
6_P79_V0.7251.00
198_I257_S0.7221.00
60_H63_C0.7211.00
250_E253_E0.7201.00
16_G108_G0.7191.00
328_I332_K0.7181.00
289_D338_I0.7181.00
83_V86_I0.7171.00
133_T137_L0.7171.00
249_D255_I0.7171.00
60_H135_R0.7131.00
6_P9_V0.7111.00
69_D72_N0.7051.00
159_L195_V0.7041.00
200_V249_D0.7031.00
134_S177_L0.7021.00
163_V174_L0.7021.00
205_T216_D0.7011.00
222_L229_F0.7011.00
206_V215_V0.7001.00
130_N135_R0.7001.00
210_F356_S0.6991.00
17_G37_L0.6981.00
66_Q71_I0.6971.00
332_K336_R0.6951.00
41_H51_H0.6941.00
174_L197_I0.6931.00
204_P212_P0.6931.00
53_A56_G0.6921.00
288_P340_G0.6911.00
228_E253_E0.6911.00
277_F284_V0.6911.00
171_I222_L0.6901.00
163_V261_V0.6891.00
244_R247_K0.6881.00
71_I74_S0.6871.00
164_G235_V0.6841.00
22_T74_S0.6831.00
247_K250_E0.6831.00
325_Q328_I0.6791.00
24_L334_L0.6781.00
68_K80_Q0.6761.00
173_F261_V0.6761.00
290_L333_N0.6741.00
242_G254_Q0.6731.00
364_G369_R0.6721.00
272_V275_A0.6701.00
283_R318_P0.6701.00
173_F176_E0.6691.00
167_G170_G0.6671.00
322_I326_Q0.6671.00
369_R372_K0.6671.00
24_L35_I0.6661.00
270_P279_N0.6611.00
234_A246_G0.6591.00
19_M23_R0.6591.00
33_A335_G0.6591.00
48_T53_A0.6571.00
301_L327_G0.6561.00
114_E117_G0.6541.00
132_N136_L0.6531.00
37_L71_I0.6531.00
42_N81_D0.6531.00
88_I297_N0.6511.00
275_A295_H0.6511.00
135_R139_E0.6491.00
206_V219_V0.6481.00
174_L227_V0.6471.00
131_I138_R0.6461.00
114_E264_A0.6421.00
169_T263_A0.6421.00
53_A135_R0.6401.00
158_R258_Q0.6401.00
59_H67_I0.6341.00
65_Y69_D0.6341.00
116_F262_W0.6321.00
213_E216_D0.6311.00
129_A132_N0.6301.00
34_D103_D0.6241.00
236_Q246_G0.6231.00
246_G252_P0.6221.00
104_Y337_L0.6211.00
365_V370_K0.6191.00
128_I132_N0.6191.00
205_T362_A0.6181.00
163_V170_G0.6161.00
115_T262_W0.6161.00
109_L271_I0.6151.00
284_V292_A0.6151.00
7_K100_L0.6141.00
88_I91_K0.6131.00
134_S137_L0.6131.00
25_T35_I0.6121.00
21_V37_L0.6111.00
246_G256_K0.6111.00
344_E348_P0.6091.00
121_L262_W0.6091.00
323_A327_G0.6091.00
277_F292_A0.6081.00
62_R66_Q0.6081.00
161_I261_V0.6081.00
240_P243_V0.6071.00
90_E101_Q0.6071.00
24_L335_G0.6071.00
88_I102_Y0.6051.00
268_G283_R0.6041.00
19_M328_I0.6031.00
120_G237_E0.6031.00
359_E363_V0.6031.00
172_E175_G0.6031.00
245_V249_D0.6011.00
243_V248_K0.6011.00
47_T50_M0.5981.00
173_F177_L0.5981.00
215_V219_V0.5971.00
61_D64_R0.5961.00
249_D253_E0.5941.00
283_R306_L0.5941.00
171_I229_F0.5931.00
119_K122_K0.5931.00
19_M22_T0.5921.00
71_I78_F0.5911.00
136_L140_H0.5901.00
345_E348_P0.5841.00
85_A91_K0.5821.00
82_T85_A0.5821.00
77_N80_Q0.5781.00
9_V91_K0.5781.00
92_K95_L0.5751.00
138_R180_R0.5751.00
59_H64_R0.5741.00
128_I131_I0.5741.00
104_Y338_I0.5731.00
40_K269_H0.5721.00
33_A104_Y0.5721.00
115_T121_L0.5701.00
52_E55_A0.5681.00
15_Y320_A0.5661.00
176_E180_R0.5651.00
353_T356_S0.5561.00
307_F317_P0.5551.00
136_L139_E0.5531.00
115_T122_K0.5521.00
31_N335_G0.5521.00
25_T75_R0.5521.00
48_T52_E0.5521.00
206_V229_F0.5501.00
8_I104_Y0.5501.00
277_F295_H0.5491.00
172_E177_L0.5471.00
305_S326_Q0.5461.00
18_L37_L0.5451.00
70_V73_Q0.5441.00
89_D295_H0.5441.00
128_I137_L0.5431.00
247_K252_P0.5431.00
112_V270_P0.5431.00
62_R65_Y0.5421.00
336_R339_K0.5411.00
83_V87_K0.5411.00
37_L76_V0.5411.00
340_G343_L0.5391.00
292_A298_V0.5391.00
52_E57_T0.5381.00
244_R249_D0.5361.00
31_N332_K0.5351.00
162_V260_V0.5341.00
117_G122_K0.5341.00
207_L218_A0.5341.00
123_E240_P0.5341.00
85_A275_A0.5321.00
168_F348_P0.5291.00
222_L227_V0.5281.00
47_T51_H0.5281.00
212_P215_V0.5271.00
86_I271_I0.5251.00
48_T54_S0.5241.00
168_F172_E0.5221.00
241_E246_G0.5211.00
270_P304_S0.5211.00
347_K350_I0.5191.00
17_G39_N0.5191.00
137_L177_L0.5191.00
56_G173_F0.5181.00
286_V290_L0.5181.00
171_I206_V0.5171.00
162_V198_I0.5151.00
81_D95_L0.5151.00
275_A298_V0.5141.00
13_A44_H0.5131.00
201_E204_P0.5121.00
84_K87_K0.5111.00
43_Y132_N0.5061.00
167_G172_E0.5041.00
141_I177_L0.5021.00
129_A259_T0.5011.00
62_R67_I0.5011.00
317_P322_I0.5001.00
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  
4g6hA 2 0.9729 100 0.268 Contact Map
4nwzA 2 0.9729 100 0.309 Contact Map
3sx6A 2 0.9507 100 0.378 Contact Map
3h8lA 2 0.7857 100 0.383 Contact Map
3hywA 4 0.9384 100 0.384 Contact Map
1xhcA 1 0.8374 100 0.399 Contact Map
3kljA 1 0.8424 100 0.411 Contact Map
3vrdB 1 0.9113 100 0.42 Contact Map
3l8kA 3 0.8744 100 0.423 Contact Map
1ojtA 2 0.8793 100 0.426 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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