GREMLIN Database
TTCA - tRNA 2-thiocytidine biosynthesis protein TtcA
UniProt: P76055 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG13357
Length: 311 (245)
Sequences: 3136 (2240)
Seq/√Len: 143.1

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
41_R71_S3.1441.00
53_Y92_Y3.0331.00
73_V101_K2.8041.00
73_V142_A2.7221.00
40_D144_K2.7031.00
26_V58_I2.6491.00
54_T200_A2.5961.00
232_D239_I2.5611.00
25_N195_D2.4131.00
46_L89_L2.4001.00
85_P212_L2.3861.00
155_L242_M2.2891.00
41_R73_V2.2661.00
106_N109_G2.2591.00
152_D239_I2.2171.00
193_E197_Q2.1551.00
74_A98_V2.1361.00
87_H91_E2.1181.00
146_A185_I2.1001.00
74_A93_L2.0791.00
40_D143_T2.0711.00
217_P226_D2.0691.00
80_K104_E2.0641.00
87_H90_P2.0541.00
78_D86_E1.9981.00
43_M142_A1.9931.00
75_V132_I1.9821.00
54_T196_I1.9761.00
42_I146_A1.9281.00
35_M177_S1.8591.00
56_L74_A1.8361.00
122_C213_C1.8231.00
44_V55_M1.8031.00
46_L74_A1.8031.00
103_V135_R1.7951.00
92_Y96_L1.7871.00
158_L246_M1.7791.00
137_A145_I1.7591.00
57_E203_K1.7241.00
83_G86_E1.7091.00
91_E95_K1.6821.00
50_K200_A1.6281.00
36_I185_I1.6281.00
57_E199_F1.6251.00
135_R139_E1.6091.00
81_Q108_Y1.5821.00
81_Q121_T1.5791.00
230_D234_R1.5691.00
58_I62_L1.5681.00
90_P94_E1.5671.00
53_Y205_F1.5481.00
223_V234_R1.5461.00
57_E61_N1.5431.00
136_T140_L1.5391.00
101_K139_E1.5151.00
160_L220_Q1.5151.00
23_R61_N1.4911.00
50_K209_P1.4901.00
262_F266_T1.4771.00
27_G65_S1.4341.00
29_A190_Y1.4311.00
91_E94_E1.4271.00
262_F265_I1.4271.00
34_N37_E1.4261.00
43_M73_V1.3931.00
101_K140_L1.3641.00
32_D190_Y1.3601.00
22_L58_I1.3431.00
59_L146_A1.3361.00
44_V59_L1.3281.00
138_T181_K1.3241.00
75_V136_T1.3141.00
43_M75_V1.3111.00
58_I188_L1.3041.00
163_F231_W1.2851.00
255_C259_L1.2761.00
150_H196_I1.2711.00
156_Q225_A1.2681.00
93_L100_Y1.2651.00
110_I128_L1.2521.00
45_C133_L1.2511.00
36_I42_I1.2491.00
66_A70_F1.2411.00
154_I174_K1.2361.00
245_A249_V1.2361.00
60_R63_Q1.2301.00
209_P215_S1.2271.00
227_M231_W1.2251.00
136_T139_E1.2221.00
37_E40_D1.2101.00
123_S127_R1.2081.00
27_G31_A1.2071.00
71_S99_E1.1851.00
54_T188_L1.1851.00
162_M245_A1.1781.00
26_V191_C1.1761.00
57_E96_L1.1711.00
88_V208_I1.1701.00
198_R202_A1.1661.00
110_I117_E1.1661.00
76_N100_Y1.1571.00
50_K54_T1.1530.99
30_I36_I1.1500.99
179_D182_H1.1380.99
46_L53_Y1.1360.99
147_L184_V1.1330.99
158_L242_M1.1300.99
57_E205_F1.1280.99
53_Y207_I1.1270.99
38_E67_P1.1160.99
226_D230_D1.1080.99
50_K193_E1.0950.99
155_L246_M1.0850.99
60_R96_L1.0820.99
220_Q223_V1.0810.99
22_L191_C1.0770.99
155_L239_I1.0750.99
154_I189_A1.0650.99
151_R192_R1.0620.99
107_T128_L1.0590.99
29_A189_A1.0440.99
200_A205_F1.0430.99
194_K232_D1.0300.99
109_G113_E1.0280.99
155_L243_F1.0250.99
44_V56_L1.0200.99
93_L98_V1.0130.99
241_T244_S1.0100.99
230_D233_K1.0000.99
73_V99_E0.9910.98
63_Q70_F0.9910.98
197_Q201_D0.9850.98
160_L224_I0.9840.98
27_G66_A0.9840.98
55_M59_L0.9800.98
30_I35_M0.9780.98
60_R98_V0.9780.98
188_L191_C0.9750.98
151_R239_I0.9720.98
43_M136_T0.9700.98
231_W238_R0.9690.98
78_D212_L0.9680.98
77_L105_E0.9660.98
43_M101_K0.9640.98
101_K136_T0.9590.98
152_D192_R0.9520.98
265_I268_G0.9480.98
89_L100_Y0.9470.98
58_I191_C0.9450.98
163_F227_M0.9440.98
200_A207_I0.9440.98
130_R147_L0.9420.98
129_R221_R0.9400.98
134_Y137_A0.9390.98
29_A33_F0.9390.98
120_T123_S0.9380.98
54_T199_F0.9340.98
45_C147_L0.9330.98
73_V140_L0.9310.98
78_D104_E0.9300.98
158_L173_P0.9260.98
110_I124_L0.9230.98
61_N203_K0.9200.97
28_E32_D0.9200.97
56_L93_L0.9200.97
237_G241_T0.9080.97
159_F224_I0.9080.97
90_P102_I0.9050.97
264_G268_G0.9000.97
169_K253_H0.8970.97
88_V206_P0.8950.97
50_K207_I0.8920.97
88_V207_I0.8870.97
75_V133_L0.8840.97
137_A182_H0.8810.97
211_N214_G0.8800.97
224_I227_M0.8780.97
77_L132_I0.8750.97
121_T219_L0.8740.97
56_L98_V0.8710.96
256_D260_F0.8610.96
256_D259_L0.8600.96
77_L103_V0.8540.96
82_P213_C0.8510.96
156_Q221_R0.8480.96
23_R199_F0.8380.96
119_K124_L0.8300.95
78_D85_P0.8290.95
67_P70_F0.8240.95
23_R27_G0.8210.95
57_E60_R0.8170.95
238_R241_T0.8090.95
84_F212_L0.8080.95
157_T221_R0.8060.95
103_V136_T0.8040.95
134_Y183_I0.7980.94
79_Q129_R0.7980.94
262_F268_G0.7970.94
74_A100_Y0.7930.94
35_M144_K0.7860.94
151_R243_F0.7810.94
37_E144_K0.7780.94
122_C219_L0.7780.94
36_I70_F0.7740.93
160_L221_R0.7740.93
45_C145_I0.7720.93
144_K185_I0.7710.93
103_V132_I0.7710.93
167_K170_G0.7650.93
199_F203_K0.7570.93
105_E128_L0.7540.92
90_P100_Y0.7540.92
237_G240_E0.7520.92
131_G135_R0.7460.92
57_E92_Y0.7410.92
109_G112_K0.7410.92
26_V59_L0.7400.92
128_L131_G0.7380.92
44_V72_L0.7380.92
248_N252_S0.7370.92
111_V124_L0.7360.92
41_R142_A0.7360.92
113_E117_E0.7320.91
137_A142_A0.7280.91
30_I144_K0.7260.91
133_L145_I0.7210.91
252_S256_D0.7210.91
158_L162_M0.7200.91
213_C216_Q0.7160.90
24_R28_E0.7130.90
154_I161_N0.7110.90
263_K267_H0.7080.90
74_A89_L0.7060.90
192_R239_I0.7050.90
122_C125_C0.7040.90
163_F224_I0.7030.90
127_R131_G0.6940.89
147_L150_H0.6930.89
42_I144_K0.6910.89
120_T124_L0.6890.89
51_D149_H0.6870.88
51_D221_R0.6860.88
51_D153_D0.6840.88
144_K183_I0.6820.88
155_L158_L0.6810.88
26_V62_L0.6690.87
150_H193_E0.6670.87
63_Q72_L0.6640.87
110_I119_K0.6640.87
166_G170_G0.6630.87
158_L249_V0.6620.87
227_M238_R0.6600.86
133_L137_A0.6550.86
244_S248_N0.6540.86
212_L215_S0.6540.86
36_I40_D0.6520.86
88_V205_F0.6490.85
221_R225_A0.6470.85
36_I144_K0.6440.85
244_S247_Q0.6430.85
46_L93_L0.6430.85
42_I185_I0.6390.85
265_I269_S0.6370.84
35_M174_K0.6360.84
192_R232_D0.6330.84
122_C216_Q0.6330.84
56_L72_L0.6290.84
89_L208_I0.6290.84
105_E132_I0.6290.84
152_D193_E0.6260.83
194_K198_R0.6240.83
91_E206_P0.6220.83
83_G208_I0.6180.83
44_V74_A0.6180.83
253_H260_F0.6150.82
50_K197_Q0.6130.82
94_E97_G0.6130.82
81_Q122_C0.6110.82
228_L238_R0.6100.82
88_V92_Y0.6090.82
80_K107_T0.6060.81
136_T142_A0.6050.81
77_L133_L0.6050.81
167_K248_N0.6040.81
124_L128_L0.6040.81
53_Y200_A0.6030.81
217_P222_Q0.6030.81
59_L72_L0.6020.81
257_T261_D0.6020.81
171_M245_A0.6010.81
264_G267_H0.5990.81
157_T161_N0.5990.81
149_H153_D0.5980.81
25_N191_C0.5950.80
47_S51_D0.5940.80
163_F238_R0.5940.80
232_D237_G0.5920.80
29_A176_M0.5880.79
63_Q71_S0.5870.79
192_R195_D0.5850.79
55_M188_L0.5850.79
200_A209_P0.5780.78
154_I173_P0.5760.78
53_Y88_V0.5750.78
86_E208_I0.5700.77
42_I70_F0.5680.77
61_N65_S0.5680.77
55_M146_A0.5680.77
76_N93_L0.5670.77
82_P214_G0.5660.77
138_T267_H0.5660.77
110_I113_E0.5600.76
171_M241_T0.5590.76
213_C219_L0.5580.76
151_R240_E0.5570.76
211_N222_Q0.5570.76
149_H157_T0.5560.76
162_M242_M0.5550.75
53_Y89_L0.5550.75
164_Y220_Q0.5550.75
33_F190_Y0.5530.75
122_C126_S0.5530.75
30_I40_D0.5510.75
159_F227_M0.5490.75
235_Y238_R0.5490.75
147_L186_R0.5460.74
162_M171_M0.5440.74
62_L70_F0.5430.74
85_P213_C0.5410.74
75_V103_V0.5410.74
253_H257_T0.5410.74
197_Q209_P0.5400.73
199_F205_F0.5390.73
239_I243_F0.5390.73
50_K122_C0.5380.73
212_L216_Q0.5370.73
243_F246_M0.5320.72
126_S214_G0.5310.72
79_Q126_S0.5300.72
41_R140_L0.5300.72
59_L70_F0.5290.72
222_Q225_A0.5290.72
137_A183_I0.5290.72
46_L92_Y0.5280.72
134_Y182_H0.5280.72
216_Q219_L0.5250.71
60_R64_Q0.5240.71
50_K196_I0.5230.71
63_Q66_A0.5230.71
35_M189_A0.5220.71
177_S183_I0.5220.71
39_G97_G0.5190.71
159_F238_R0.5180.70
26_V29_A0.5170.70
108_Y111_V0.5170.70
193_E225_A0.5140.70
47_S52_S0.5140.70
39_G144_K0.5140.70
59_L185_I0.5130.70
153_D221_R0.5120.69
168_M252_S0.5070.69
79_Q107_T0.5060.69
163_F235_Y0.5060.69
121_T125_C0.5050.68
26_V188_L0.5040.68
126_S130_R0.5020.68
253_H256_D0.5010.68
35_M176_M0.5000.68
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  
3a2kA 1 0.9068 100 0.338 Contact Map
1wy5A 4 0.8971 100 0.376 Contact Map
3vrhA 2 0.9068 100 0.386 Contact Map
1ni5A 2 0.8746 100 0.389 Contact Map
2derA 1 0.8071 100 0.642 Contact Map
1surA 2 0.6463 100 0.65 Contact Map
3k32A 2 0.6174 100 0.657 Contact Map
2hmaA 2 0.8392 100 0.659 Contact Map
1zunA 1 0.5852 100 0.661 Contact Map
2vxoA 2 0.9807 100 0.662 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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