GREMLIN Database
YCKA - Probable amino-acid ABC transporter permease protein YckA
UniProt: P42399 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 226 (206)
Sequences: 18394 (11011)
Seq/√Len: 767.2

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_A104_S3.2671.00
158_A215_Q3.2581.00
192_D195_T3.1781.00
130_A140_T3.0401.00
99_A171_A2.9361.00
28_G32_L2.7271.00
136_S139_Q2.7021.00
183_A200_T2.6701.00
51_A63_A2.5531.00
48_I112_A2.3001.00
127_W140_T2.2331.00
138_W142_R2.2251.00
131_S140_T2.2241.00
213_V217_I2.1631.00
126_Q148_Q2.1381.00
73_V78_I2.1111.00
58_L62_P2.0801.00
58_L61_W1.9841.00
127_W131_S1.9801.00
181_Q185_I1.9661.00
48_I108_A1.9641.00
52_R64_K1.9021.00
44_I108_A1.8671.00
29_Y32_L1.8321.00
36_V100_L1.8101.00
57_A61_W1.7801.00
24_I28_G1.7781.00
94_S97_T1.7631.00
49_S115_N1.7421.00
32_L96_V1.7071.00
121_S152_I1.6961.00
27_I207_I1.6921.00
183_A196_M1.6721.00
53_M120_S1.6561.00
217_I220_K1.6441.00
25_K28_G1.6421.00
34_S165_I1.6421.00
118_A153_A1.6381.00
209_S213_V1.6311.00
205_W209_S1.6201.00
187_G193_Y1.6031.00
213_V216_N1.5881.00
136_S140_T1.5861.00
33_I171_A1.5781.00
82_L102_G1.5691.00
22_Y25_K1.5551.00
29_Y176_V1.5411.00
139_Q143_G1.5211.00
67_I112_A1.5191.00
38_M161_L1.5021.00
137_Y141_M1.4971.00
41_G107_S1.4861.00
113_E116_R1.4391.00
48_I63_A1.4191.00
111_I157_L1.4141.00
46_L115_N1.4101.00
214_F217_I1.3801.00
131_S137_Y1.3241.00
182_H185_I1.3061.00
56_L61_W1.3041.00
34_S168_S1.3031.00
135_L139_Q1.2971.00
139_Q142_R1.2941.00
47_F51_A1.2551.00
57_A60_R1.2461.00
32_L36_V1.2411.00
115_N153_A1.2381.00
96_V100_L1.2321.00
56_L59_L1.2301.00
36_V104_S1.2251.00
20_F24_I1.2171.00
111_I160_V1.2001.00
78_I106_N1.1991.00
60_R64_K1.1961.00
79_L102_G1.1951.00
61_W65_L1.1891.00
177_P181_Q1.1851.00
70_M105_L1.1841.00
22_Y182_H1.1831.00
43_V47_F1.1821.00
127_W145_I1.1641.00
95_A175_T1.1631.00
25_K29_Y1.1581.00
116_R120_S1.1551.00
62_P65_L1.1501.00
40_A100_L1.1461.00
181_Q184_K1.1231.00
45_G111_I1.1231.00
21_P25_K1.1131.00
130_A144_I1.1131.00
73_V106_N1.1011.00
119_I145_I1.0971.00
52_R113_E1.0961.00
217_I221_K1.0881.00
114_I160_V1.0851.00
68_S209_S1.0761.00
97_T100_L1.0671.00
187_G197_Y1.0631.00
137_Y140_T1.0571.00
165_I207_I1.0531.00
63_A112_A1.0481.00
114_I156_P1.0451.00
53_M119_I1.0331.00
100_L104_S1.0321.00
34_S161_L1.0181.00
79_L171_A1.0171.00
51_A54_S1.0161.00
62_P66_Y1.0121.00
184_K187_G1.0111.00
141_M146_L1.0011.00
38_M164_L0.9891.00
195_T198_I0.9881.00
96_V176_V0.9781.00
122_V149_S0.9771.00
185_I189_R0.9711.00
171_A178_E0.9681.00
216_N220_K0.9651.00
66_Y108_A0.9541.00
82_L98_A0.9511.00
186_I196_M0.9511.00
214_F218_L0.9501.00
165_I211_A0.9491.00
78_I82_L0.9481.00
70_M109_A0.9411.00
65_L68_S0.9321.00
135_L143_G0.9311.00
68_S205_W0.9211.00
27_I203_I0.9131.00
37_S104_S0.9001.00
163_D167_A0.8941.00
56_L62_P0.8931.00
55_K60_R0.8851.00
85_G89_I0.8841.00
30_T165_I0.8831.00
216_N219_E0.8801.00
75_I167_A0.8751.00
169_S204_Y0.8731.00
80_F84_F0.8711.00
79_L170_L0.8701.00
39_F43_V0.8681.00
141_M145_I0.8561.00
61_W64_K0.8531.00
51_A59_L0.8511.00
36_V40_A0.8451.00
124_K128_E0.8441.00
42_T157_L0.8401.00
97_T101_I0.8381.00
56_L60_R0.8361.00
27_I179_L0.8361.00
49_S119_I0.8341.00
66_Y70_M0.8311.00
173_M177_P0.8311.00
107_S160_V0.8271.00
122_V152_I0.8261.00
190_E193_Y0.8231.00
210_I214_F0.8201.00
127_W137_Y0.8191.00
75_I106_N0.8081.00
125_G129_A0.8041.00
21_P24_I0.7981.00
171_A176_V0.7961.00
83_Y174_I0.7921.00
54_S63_A0.7911.00
198_I202_L0.7861.00
152_I156_P0.7821.00
37_S164_L0.7811.00
49_S53_M0.7811.00
165_I208_C0.7771.00
107_S167_A0.7751.00
26_G182_H0.7731.00
50_L141_M0.7721.00
95_A176_V0.7711.00
103_F168_S0.7681.00
64_K68_S0.7661.00
81_I85_G0.7651.00
177_P182_H0.7621.00
66_Y109_A0.7611.00
124_K127_W0.7561.00
206_A210_I0.7541.00
79_L174_I0.7531.00
54_S137_Y0.7461.00
78_I102_G0.7441.00
31_L35_F0.7431.00
46_L146_L0.7381.00
189_R192_D0.7381.00
35_F39_F0.7341.00
41_G111_I0.7311.00
37_S103_F0.7301.00
81_I198_I0.7301.00
44_I104_S0.7261.00
44_I48_I0.7221.00
83_Y98_A0.7171.00
85_G88_Y0.7171.00
76_L173_M0.7141.00
33_I37_S0.7111.00
119_I149_S0.7101.00
99_A174_I0.7071.00
30_T34_S0.7071.00
48_I51_A0.7041.00
59_L62_P0.7031.00
183_A187_G0.7011.00
29_Y178_E0.7001.00
180_L197_Y0.6971.00
33_I176_V0.6971.00
172_A181_Q0.6961.00
187_G196_M0.6911.00
115_N119_I0.6881.00
111_I115_N0.6871.00
52_R67_I0.6811.00
199_L203_I0.6801.00
130_A135_L0.6711.00
118_A152_I0.6701.00
202_L206_A0.6661.00
33_I99_A0.6621.00
107_S164_L0.6611.00
29_Y96_V0.6581.00
179_L203_I0.6561.00
36_V39_F0.6481.00
212_A216_N0.6471.00
30_T204_Y0.6471.00
83_Y93_F0.6461.00
103_F164_L0.6441.00
23_V203_I0.6431.00
52_R55_K0.6431.00
107_S111_I0.6401.00
36_V96_V0.6351.00
70_M78_I0.6351.00
211_A215_Q0.6341.00
124_K131_S0.6341.00
218_L222_Y0.6331.00
19_S186_I0.6331.00
104_S108_A0.6321.00
169_S172_A0.6311.00
160_V163_D0.6251.00
69_F73_V0.6221.00
154_L222_Y0.6201.00
52_R60_R0.6171.00
156_P159_N0.6151.00
155_P219_E0.6101.00
197_Y200_T0.6061.00
24_I27_I0.6051.00
40_A43_V0.6031.00
180_L200_T0.6021.00
40_A44_I0.6011.00
95_A174_I0.6011.00
122_V145_I0.6011.00
119_I141_M0.5961.00
42_T115_N0.5941.00
136_S143_G0.5921.00
125_G128_E0.5881.00
200_T203_I0.5871.00
46_L150_I0.5851.00
51_A62_P0.5831.00
106_N167_A0.5821.00
210_I217_I0.5751.00
52_R112_A0.5711.00
169_S180_L0.5701.00
154_L218_L0.5701.00
180_L204_Y0.5691.00
43_V46_L0.5671.00
83_Y95_A0.5661.00
161_L211_A0.5661.00
28_G31_L0.5621.00
128_E143_G0.5621.00
99_A176_V0.5611.00
198_I201_A0.5601.00
32_L97_T0.5581.00
23_V183_A0.5581.00
162_L208_C0.5481.00
103_F171_A0.5481.00
205_W208_C0.5461.00
95_A98_A0.5461.00
48_I66_Y0.5401.00
215_Q218_L0.5391.00
118_A156_P0.5391.00
65_L69_F0.5381.00
34_S38_M0.5371.00
80_F173_M0.5361.00
64_K67_I0.5351.00
145_I148_Q0.5341.00
90_G93_F0.5341.00
43_V104_S0.5341.00
26_G29_Y0.5321.00
151_R222_Y0.5301.00
76_L170_L0.5301.00
194_M198_I0.5301.00
93_F97_T0.5241.00
33_I168_S0.5241.00
210_I213_V0.5241.00
23_V186_I0.5221.00
186_I190_E0.5211.00
45_G49_S0.5201.00
86_F91_I0.5201.00
76_L80_F0.5191.00
51_A56_L0.5191.00
22_Y185_I0.5181.00
55_K137_Y0.5181.00
123_E152_I0.5181.00
55_K59_L0.5161.00
55_K58_L0.5111.00
44_I47_F0.5091.00
117_S156_P0.5071.00
25_K32_L0.5051.00
209_S212_A0.5041.00
33_I96_V0.5031.00
38_M42_T0.5031.00
29_Y33_I0.5031.00
45_G112_A0.5011.00
24_I203_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  
4ymuD 2 0.9513 100 0.466 Contact Map
3tuiA 2 0.9248 99.9 0.52 Contact Map
3rlfF 1 0.9381 99.9 0.551 Contact Map
3d31C 2 0.9469 99.9 0.552 Contact Map
2onkC 2 0.9602 99.9 0.554 Contact Map
4tquM 1 0.9646 99.9 0.579 Contact Map
3rlfG 1 0.9956 99.9 0.592 Contact Map
4tquN 1 0.969 99.8 0.628 Contact Map
2kv5A 1 0.146 4.6 0.959 Contact Map
5a63B 1 0.3097 4.1 0.96 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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