GREMLIN Database
HMT - Homocysteine S-methyltransferase YbgG
UniProt: O31463 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 315 (281)
Sequences: 4376 (2702)
Seq/√Len: 161.2

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
49_K98_E5.3671.00
56_F63_A3.7941.00
41_L92_S3.4011.00
91_L94_S2.9841.00
53_T102_E2.9601.00
72_F152_P2.9041.00
53_T57_A2.8611.00
86_R159_E2.8251.00
122_I154_M2.7841.00
49_K102_E2.7661.00
84_E87_R2.6491.00
303_Q307_A2.6221.00
142_S145_E2.5691.00
67_S92_S2.5251.00
306_A310_R2.4461.00
62_C119_A2.4431.00
119_A164_V2.4401.00
49_K53_T2.3701.00
27_K50_Q2.3331.00
97_A101_D2.2731.00
56_F116_P2.2371.00
49_K99_A2.1661.00
300_E303_Q2.1391.00
154_M183_L2.1031.00
93_V160_A2.0681.00
147_I185_E2.0621.00
50_Q54_D2.0091.00
147_I181_R1.9931.00
236_P282_T1.9651.00
304_E307_A1.9481.00
210_A241_E1.9451.00
154_M186_F1.9261.00
192_W224_A1.8911.00
86_R90_E1.8881.00
158_I189_T1.8691.00
176_A193_I1.8621.00
281_R308_W1.8591.00
224_A251_I1.8571.00
97_A100_R1.8371.00
151_R185_E1.8191.00
15_V306_A1.8071.00
15_V309_A1.7951.00
90_E159_E1.7771.00
281_R285_E1.7381.00
151_R155_K1.7011.00
217_D247_S1.6091.00
194_S251_I1.6041.00
53_T99_A1.5861.00
100_R118_I1.5721.00
208_P211_D1.5581.00
44_E47_L1.5541.00
86_R155_K1.5511.00
167_C183_L1.5241.00
76_A81_S1.5221.00
239_I250_I1.5211.00
120_A162_A1.5171.00
240_E286_K1.5111.00
143_E181_R1.5041.00
49_K95_I1.5041.00
293_G297_T1.4941.00
167_C179_I1.4921.00
89_I153_R1.4911.00
184_K188_E1.4841.00
56_F100_R1.4771.00
94_S98_E1.4681.00
90_E94_S1.4471.00
280_A305_I1.4361.00
69_Q74_G1.4321.00
56_F103_F1.3821.00
90_E160_A1.3771.00
57_A103_F1.3711.00
180_V222_I1.3641.00
23_E54_D1.3591.00
27_K54_D1.3591.00
62_C164_V1.3571.00
170_I176_A1.3511.00
224_A290_L1.3411.00
274_E304_E1.3261.00
156_A160_A1.3231.00
71_T74_G1.3081.00
284_H309_A1.3081.00
232_L271_A1.3031.00
46_E50_Q1.2911.00
86_R152_P1.2891.00
86_R156_A1.2821.00
54_D299_P1.2731.00
151_R186_F1.2661.00
72_F149_F1.2461.00
209_A238_L1.2451.00
23_E26_R1.2371.00
197_A238_L1.2311.00
41_L66_A1.2301.00
61_D114_P1.2201.00
155_K186_F1.2171.00
165_L183_L1.2161.00
120_A157_L1.2121.00
23_E27_K1.2081.00
242_L250_I1.2051.00
20_M51_V1.1921.00
29_C47_L1.1841.00
47_L50_Q1.1801.00
93_V157_L1.1621.00
293_G302_I1.1471.00
272_C275_S1.1451.00
288_A291_I1.1421.00
60_A302_I1.1421.00
273_A301_N1.1381.00
154_M165_L1.1361.00
87_R91_L1.1261.00
24_L51_V1.1161.00
121_S253_Y1.1111.00
271_A275_S1.1031.00
53_T103_F1.1031.00
54_D57_A1.1021.00
213_A247_S1.0951.00
73_E149_F1.0941.00
260_Y270_A1.0941.00
167_C176_A1.0800.99
282_T286_K1.0780.99
9_D249_P1.0710.99
70_S88_L1.0710.99
239_I252_V1.0690.99
167_C170_I1.0670.99
62_C290_L1.0670.99
280_A291_I1.0650.99
277_G304_E1.0610.99
252_V288_A1.0600.99
213_A245_N1.0590.99
177_K215_W1.0580.99
24_L48_I1.0570.99
19_A22_T1.0530.99
237_S240_E1.0480.99
65_T93_V1.0440.99
161_G189_T1.0430.99
12_P61_D1.0410.99
74_G126_G1.0380.99
64_I166_A1.0360.99
75_F80_L1.0350.99
15_V305_I1.0350.99
143_E177_K1.0330.99
42_M88_L1.0240.99
176_A195_F1.0190.99
298_K301_N1.0100.99
16_L253_Y1.0100.99
213_A248_K1.0050.99
258_E296_R1.0040.99
50_Q53_T1.0000.99
42_M84_E0.9940.99
262_P265_K0.9940.99
60_A63_A0.9940.99
304_E308_W0.9890.99
85_A89_I0.9840.99
261_D264_T0.9800.99
226_G251_I0.9790.99
103_F113_R0.9760.99
64_I253_Y0.9740.99
278_A308_W0.9680.99
166_A253_Y0.9680.99
16_L290_L0.9640.99
276_Y305_I0.9620.99
197_A227_I0.9610.99
192_W251_I0.9560.99
23_E55_Y0.9420.99
240_E244_K0.9400.99
26_R300_E0.9320.98
39_K43_E0.9270.98
122_I153_R0.9260.98
9_D223_A0.9250.98
251_I290_L0.9240.98
70_S89_I0.9220.98
27_K47_L0.9190.98
145_E148_E0.9180.98
182_L186_F0.9170.98
143_E147_I0.9150.98
209_A227_I0.9140.98
63_A116_P0.9090.98
180_V216_L0.9070.98
213_A246_T0.9010.98
155_K159_E0.8990.98
41_L67_S0.8970.98
180_V191_A0.8940.98
193_I216_L0.8920.98
13_L284_H0.8840.98
199_D202_H0.8730.98
16_L62_C0.8720.98
20_M48_I0.8690.98
61_D306_A0.8690.98
183_L191_A0.8680.98
96_A118_I0.8620.97
307_A310_R0.8620.97
284_H291_I0.8560.97
195_F203_I0.8550.97
236_P286_K0.8540.97
178_A182_L0.8520.97
227_I238_L0.8460.97
125_Y146_L0.8460.97
203_I207_T0.8420.97
18_G55_Y0.8410.97
85_A156_A0.8410.97
170_I193_I0.8410.97
158_I165_L0.8390.97
261_D265_K0.8340.97
119_A166_A0.8310.97
291_I309_A0.8300.97
93_V162_A0.8290.97
197_A209_A0.8250.97
274_E278_A0.8190.96
243_K250_I0.8160.96
97_A118_I0.8080.96
14_I61_D0.8070.96
195_F227_I0.8060.96
158_I186_F0.8010.96
260_Y264_T0.8010.96
193_I222_I0.7960.96
167_C180_V0.7950.96
63_A96_A0.7940.96
122_I165_L0.7930.96
143_E178_A0.7930.96
38_A70_S0.7900.96
210_A245_N0.7860.96
46_E49_K0.7860.96
141_I146_L0.7850.96
48_I51_V0.7820.95
52_H96_A0.7810.95
72_F148_E0.7790.95
103_F114_P0.7690.95
103_F116_P0.7680.95
282_T285_E0.7680.95
91_L95_I0.7650.95
40_I43_E0.7650.95
158_I187_P0.7620.95
51_V55_Y0.7610.95
154_M158_I0.7610.95
236_P240_E0.7600.95
195_F212_C0.7570.95
94_S160_A0.7530.94
256_S296_R0.7510.94
98_E102_E0.7460.94
89_I156_A0.7410.94
222_I225_L0.7390.94
117_I164_V0.7370.94
38_A41_L0.7330.94
40_I44_E0.7280.93
169_T228_N0.7270.93
150_H175_E0.7260.93
90_E156_A0.7250.93
41_L95_I0.7250.93
89_I120_A0.7230.93
64_I121_S0.7220.93
52_H95_I0.7140.93
213_A225_L0.7120.93
73_E141_I0.7120.93
196_S204_S0.7090.92
23_E51_V0.7090.92
222_I248_K0.7060.92
211_D214_S0.7010.92
14_I62_C0.6980.92
284_H308_W0.6980.92
127_A140_A0.6970.92
209_A242_L0.6960.92
65_T118_I0.6960.92
120_A165_L0.6960.92
144_D148_E0.6930.92
93_V118_I0.6920.92
212_C216_L0.6910.91
33_D39_K0.6910.91
23_E298_K0.6900.91
241_E244_K0.6850.91
99_A102_E0.6840.91
130_A142_S0.6820.91
254_P280_A0.6820.91
23_E299_P0.6790.91
169_T255_N0.6790.91
56_F99_A0.6760.91
113_R116_P0.6740.90
186_F189_T0.6730.90
230_T235_I0.6720.90
197_A230_T0.6710.90
38_A69_Q0.6710.90
67_S121_S0.6690.90
239_I286_K0.6690.90
238_L241_E0.6690.90
29_C44_E0.6680.90
173_L207_T0.6670.90
97_A163_D0.6670.90
143_E174_T0.6660.90
63_A100_R0.6650.90
156_A159_E0.6630.90
177_K220_R0.6600.89
249_P289_R0.6600.89
52_H99_A0.6590.89
217_D248_K0.6580.89
14_I117_I0.6550.89
217_D246_T0.6540.89
191_A222_I0.6510.89
97_A160_A0.6500.89
221_Q248_K0.6460.88
284_H288_A0.6460.88
278_A281_R0.6430.88
80_L84_E0.6420.88
271_A276_Y0.6410.88
241_E245_N0.6390.88
198_K230_T0.6370.88
235_I252_V0.6370.88
180_V215_W0.6360.88
157_L160_A0.6360.88
262_P267_W0.6330.87
154_M182_L0.6310.87
147_I178_A0.6270.87
93_V120_A0.6260.87
306_A309_A0.6240.87
121_S153_R0.6210.86
100_R116_P0.6200.86
100_R103_F0.6190.86
216_L225_L0.6190.86
57_A102_E0.6180.86
183_L186_F0.6170.86
27_K51_V0.6160.86
233_Q279_S0.6150.86
122_I150_H0.6140.86
69_Q126_G0.6120.86
41_L48_I0.6120.86
173_L215_W0.6100.85
184_K221_Q0.6060.85
20_M66_A0.6050.85
182_L185_E0.6050.85
172_C205_D0.6050.85
20_M52_H0.6030.85
36_W75_F0.6010.85
147_I151_R0.5990.84
19_A51_V0.5980.84
264_T267_W0.5970.84
227_I235_I0.5970.84
50_Q57_A0.5920.84
42_M91_L0.5920.84
72_F82_E0.5910.84
207_T215_W0.5900.84
299_P302_I0.5880.83
61_D116_P0.5870.83
252_V283_W0.5860.83
126_G139_Y0.5850.83
275_S278_A0.5850.83
71_T128_Y0.5850.83
260_Y267_W0.5820.83
277_G305_I0.5820.83
273_A277_G0.5810.83
71_T149_F0.5810.83
47_L54_D0.5800.83
180_V184_K0.5790.82
72_F85_A0.5780.82
194_S253_Y0.5780.82
42_M80_L0.5770.82
122_I183_L0.5750.82
210_A214_S0.5740.82
37_S41_L0.5730.82
48_I66_A0.5720.82
98_E101_D0.5710.82
55_Y297_T0.5710.82
67_S93_V0.5700.81
211_D215_W0.5690.81
21_A37_S0.5680.81
166_A192_W0.5670.81
126_G175_E0.5640.81
41_L91_L0.5600.80
235_I238_L0.5600.80
174_T177_K0.5600.80
16_L64_I0.5590.80
279_S283_W0.5560.80
21_A299_P0.5520.79
158_I188_E0.5510.79
9_D290_L0.5500.79
19_A55_Y0.5490.79
163_D190_Y0.5480.79
196_S230_T0.5480.79
162_A165_L0.5470.79
81_S84_E0.5470.79
261_D267_W0.5470.79
240_E282_T0.5470.79
207_T211_D0.5460.79
147_I182_L0.5450.78
157_L165_L0.5430.78
230_T238_L0.5420.78
29_C40_I0.5410.78
203_I212_C0.5410.78
57_A303_Q0.5400.78
245_N248_K0.5390.78
93_V161_G0.5360.77
300_E304_E0.5350.77
13_L289_R0.5350.77
152_P155_K0.5350.77
101_D115_K0.5340.77
89_I157_L0.5330.77
15_V310_R0.5320.77
61_D115_K0.5310.77
119_A192_W0.5280.76
173_L177_K0.5280.76
92_S162_A0.5260.76
180_V220_R0.5260.76
154_M187_P0.5250.76
187_P221_Q0.5240.76
86_R160_A0.5230.76
280_A283_W0.5210.75
93_V156_A0.5200.75
252_V280_A0.5190.75
179_I182_L0.5180.75
214_S245_N0.5170.75
176_A216_L0.5170.75
184_K223_A0.5150.75
120_A161_G0.5130.74
173_L212_C0.5120.74
22_T257_G0.5110.74
124_P169_T0.5100.74
169_T229_C0.5100.74
305_I308_W0.5100.74
260_Y265_K0.5070.73
276_Y297_T0.5060.73
75_F88_L0.5060.73
95_I99_A0.5060.73
254_P276_Y0.5050.73
226_G254_P0.5020.73
213_A217_D0.5000.72
9_D289_R0.5000.72
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  
1q7zA 1 0.9143 100 0.168 Contact Map
4cczA 1 0.8857 100 0.17 Contact Map
4m3pA 4 0.8794 100 0.206 Contact Map
2e6fA 2 0.5429 97 0.92 Contact Map
4ef8A 2 0.5492 95.8 0.929 Contact Map
3gr7A 3 0.6095 95.5 0.931 Contact Map
2h9aA 1 0.0127 95.3 0.932 Contact Map
3hgjA 2 0.6 95.1 0.932 Contact Map
3eooA 4 0.8159 94.3 0.935 Contact Map
1z41A 3 0.6063 94.1 0.936 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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