GREMLIN Database
YWMD - Uncharacterized protein YwmD
UniProt: P70961 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 224 (177)
Sequences: 10501 (6915)
Seq/√Len: 519.7

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
60_K114_S4.6881.00
64_E110_D4.0051.00
31_N71_N3.0351.00
60_K110_D2.8851.00
33_A73_M2.8521.00
38_G76_V2.5341.00
31_N144_N2.4801.00
131_T146_V2.4651.00
207_S210_E2.4201.00
35_L131_T2.3901.00
161_A193_Q2.1291.00
52_I56_K2.0981.00
34_V59_V2.0171.00
105_E108_L1.9761.00
145_V177_N1.8771.00
132_R167_L1.8721.00
81_G130_D1.8431.00
188_N204_S1.8231.00
165_E169_A1.7851.00
124_I148_L1.7141.00
36_F59_V1.7071.00
35_L146_V1.7031.00
41_S151_D1.6881.00
123_P126_K1.6841.00
53_D56_K1.6621.00
136_E170_S1.6581.00
139_D142_G1.6281.00
73_M101_L1.6181.00
36_F55_A1.5741.00
122_T151_D1.5441.00
130_D133_K1.5421.00
138_F144_N1.4491.00
189_E193_Q1.4471.00
132_R170_S1.4241.00
153_E187_G1.4041.00
38_G116_L1.3921.00
59_V113_L1.3691.00
188_N192_K1.3611.00
178_I191_M1.3501.00
56_K113_L1.3471.00
128_L146_V1.3441.00
33_A75_R1.3401.00
41_S122_T1.3391.00
160_P164_I1.3361.00
178_I195_A1.3241.00
76_V116_L1.2641.00
33_A131_T1.2491.00
161_A165_E1.2351.00
166_K169_A1.2281.00
75_R127_A1.2261.00
130_D134_E1.2191.00
61_S212_E1.2131.00
57_K61_S1.2111.00
64_E106_G1.2051.00
63_A109_F1.2031.00
97_T100_G1.1771.00
63_A113_L1.1681.00
44_Q51_K1.1571.00
63_A72_L1.1551.00
180_G191_M1.1541.00
129_A163_E1.1511.00
128_L148_L1.1481.00
52_I118_P1.1481.00
128_L176_V1.1421.00
164_I168_R1.1371.00
122_T152_G1.1321.00
107_S111_N1.1281.00
124_I154_E1.1271.00
129_A133_K1.1261.00
38_G52_I1.1241.00
187_G190_E1.1211.00
154_E190_E1.1151.00
66_L70_T1.1091.00
143_K175_I1.1081.00
132_R163_E1.1051.00
128_L194_A1.0901.00
132_R166_K1.0881.00
33_A135_F1.0881.00
34_V147_Y1.0841.00
61_S65_L1.0801.00
34_V62_F1.0711.00
111_N115_E1.0701.00
76_V98_I1.0691.00
67_P70_T1.0591.00
160_P163_E1.0401.00
192_K196_V1.0381.00
97_T130_D1.0281.00
106_G110_D1.0231.00
164_I167_L1.0221.00
75_R130_D1.0171.00
163_E167_L1.0161.00
73_M135_F1.0111.00
77_F124_I1.0101.00
162_A165_E1.0061.00
99_Y109_F1.0031.00
163_E166_K1.0021.00
75_R134_E1.0001.00
54_I57_K0.9941.00
55_A149_I0.9921.00
146_V167_L0.9871.00
61_S64_E0.9871.00
128_L167_L0.9731.00
75_R81_G0.9721.00
32_V145_V0.9691.00
43_V118_P0.9671.00
31_N142_G0.9661.00
121_W155_T0.9661.00
110_D114_S0.9561.00
193_Q196_V0.9541.00
63_A110_D0.9541.00
100_G103_P0.9481.00
75_R131_T0.9391.00
189_E192_K0.9381.00
36_F116_L0.9351.00
196_V201_E0.9301.00
210_E213_Q0.9141.00
35_L75_R0.9141.00
62_F66_L0.9131.00
188_N202_Y0.9131.00
176_V194_A0.9111.00
161_A164_I0.9101.00
154_E160_P0.9051.00
146_V176_V0.9041.00
147_Y179_I0.9021.00
42_M51_K0.8961.00
149_I215_W0.8891.00
149_I181_F0.8851.00
112_S115_E0.8801.00
82_N119_T0.8751.00
33_A134_E0.8731.00
133_K136_E0.8711.00
29_D142_G0.8711.00
126_K129_A0.8691.00
73_M134_E0.8641.00
129_A166_K0.8621.00
108_L111_N0.8461.00
38_G78_G0.8401.00
193_Q197_A0.8391.00
108_L112_S0.8381.00
65_L216_E0.8331.00
30_T70_T0.8301.00
60_K64_E0.8211.00
168_R196_V0.8171.00
180_G186_K0.8151.00
30_T145_V0.8121.00
52_I55_A0.8091.00
180_G202_Y0.8001.00
165_E168_R0.7991.00
160_P168_R0.7991.00
51_K54_I0.7981.00
123_P156_C0.7951.00
165_E197_A0.7901.00
35_L127_A0.7851.00
79_H121_W0.7811.00
178_I202_Y0.7791.00
81_G127_A0.7771.00
98_I112_S0.7701.00
72_L109_F0.7671.00
177_N201_E0.7661.00
43_V51_K0.7631.00
159_D162_A0.7631.00
54_I209_D0.7611.00
65_L219_A0.7521.00
123_P155_T0.7501.00
127_A131_T0.7501.00
42_M55_A0.7491.00
113_L116_L0.7471.00
51_K118_P0.7451.00
180_G204_S0.7411.00
111_N114_S0.7411.00
192_K202_Y0.7311.00
164_I194_A0.7311.00
154_E157_G0.7301.00
160_P167_L0.7291.00
186_K204_S0.7281.00
56_K60_K0.7251.00
31_N139_D0.7231.00
76_V82_N0.7231.00
40_G118_P0.7211.00
38_G119_T0.7201.00
135_F144_N0.7171.00
99_Y112_S0.7151.00
109_F112_S0.7111.00
148_L178_I0.7061.00
107_S110_D0.7061.00
179_I214_A0.7041.00
51_K185_V0.6931.00
214_A217_K0.6921.00
164_I197_A0.6881.00
125_A129_A0.6871.00
74_L109_F0.6841.00
74_L99_Y0.6831.00
57_K60_K0.6831.00
175_I201_E0.6821.00
32_V72_L0.6791.00
30_T143_K0.6781.00
34_V55_A0.6771.00
74_L116_L0.6761.00
203_I214_A0.6741.00
146_V172_V0.6701.00
99_Y104_Y0.6671.00
126_K130_D0.6621.00
125_A158_G0.6601.00
104_Y108_L0.6581.00
40_G120_G0.6521.00
211_F215_W0.6421.00
34_V72_L0.6401.00
122_T150_T0.6371.00
33_A101_L0.6341.00
162_A166_K0.6311.00
80_A126_K0.6301.00
37_D152_G0.6221.00
181_F205_A0.6211.00
63_A106_G0.6201.00
62_F219_A0.6201.00
145_V175_I0.6201.00
101_L104_Y0.6191.00
190_E194_A0.6171.00
201_E217_K0.6061.00
125_A163_E0.6051.00
40_G43_V0.6041.00
166_K170_S0.6041.00
45_K53_D0.6021.00
54_I208_A0.6001.00
132_R172_V0.5991.00
81_G123_P0.5980.99
68_K106_G0.5980.99
135_F146_V0.5970.99
56_K116_L0.5950.99
38_G82_N0.5950.99
79_H120_G0.5890.99
125_A154_E0.5890.99
75_R97_T0.5880.99
28_A143_K0.5860.99
53_D57_K0.5830.99
182_N186_K0.5830.99
29_D70_T0.5790.99
131_T134_E0.5700.99
40_G151_D0.5680.99
97_T134_E0.5670.99
52_I116_L0.5640.99
215_W218_E0.5590.99
41_S152_G0.5510.99
205_A214_A0.5490.99
42_M122_T0.5480.99
34_V149_I0.5460.99
152_G191_M0.5400.99
196_V199_G0.5360.99
195_A202_Y0.5340.99
160_P190_E0.5330.99
177_N203_I0.5320.99
37_D41_S0.5310.99
55_A181_F0.5300.99
131_T135_F0.5290.99
121_W156_C0.5280.99
55_A59_V0.5280.99
60_K113_L0.5160.99
82_N98_I0.5150.98
78_G123_P0.5140.98
60_K63_A0.5140.98
213_Q216_E0.5130.98
31_N101_L0.5120.98
51_K182_N0.5120.98
181_F208_A0.5030.98
206_N210_E0.5000.98
31_N145_V0.5000.98
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  
4nehA 1 0.9018 100 0.354 Contact Map
4okrA 1 0.7455 100 0.356 Contact Map
4okuA 2 0.7634 100 0.357 Contact Map
1ijbA 1 0.8304 100 0.366 Contact Map
1mf7A 1 0.7946 100 0.377 Contact Map
4f1jA 1 0.7991 100 0.379 Contact Map
1pt6A 1 0.7679 100 0.385 Contact Map
1n3yA 1 0.7812 100 0.388 Contact Map
3n2nF 5 0.7857 100 0.394 Contact Map
2b2xA 1 0.7634 100 0.395 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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