GREMLIN Database
LIGB - SPBc2 prophage-derived DNA ligase-like protein LigB
UniProt: O31917 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 270 (266)
Sequences: 4738 (3009)
Seq/√Len: 184.5

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
193_T205_S4.7861.00
117_K121_E4.2921.00
22_T163_I4.1321.00
33_L42_L3.1881.00
41_K49_E3.1541.00
112_Q117_K2.9931.00
112_Q125_V2.8551.00
31_L42_L2.7611.00
106_V125_V2.7401.00
21_I119_L2.7241.00
36_F65_G2.6441.00
21_I166_A2.5561.00
109_K125_V2.5011.00
227_H230_K2.4941.00
121_E124_T2.4191.00
33_L101_Y2.4141.00
70_G101_Y2.2811.00
68_L103_V2.1861.00
65_G111_G2.1801.00
120_T166_A2.1581.00
31_L72_V2.1401.00
64_D110_D2.1331.00
51_T58_M2.0311.00
147_L151_N2.0041.00
187_Y248_N1.9751.00
114_I125_V1.9581.00
251_H254_K1.9391.00
219_P222_E1.9281.00
152_L156_K1.8871.00
171_E178_N1.8231.00
190_V206_Y1.8171.00
197_K240_V1.8121.00
208_D211_S1.8051.00
9_H177_H1.7921.00
34_S67_V1.7901.00
250_K266_E1.7691.00
120_T167_N1.7661.00
124_T128_S1.7551.00
222_E225_K1.7511.00
153_A184_N1.7271.00
115_A172_I1.6971.00
225_K229_M1.6941.00
118_P121_E1.6631.00
23_E123_K1.6251.00
125_V128_S1.6231.00
192_I247_C1.6211.00
22_T146_G1.6081.00
113_S116_A1.6071.00
11_I180_L1.5991.00
35_K38_N1.5781.00
44_T50_V1.5621.00
106_V129_L1.5611.00
163_I182_V1.5561.00
154_K184_N1.5411.00
138_V141_G1.5221.00
74_V99_I1.5121.00
31_L101_Y1.4991.00
34_S43_Y1.4861.00
123_K127_N1.4741.00
145_N148_A1.4711.00
76_A80_A1.4681.00
74_V97_H1.4591.00
217_F264_S1.4581.00
165_K178_N1.4571.00
114_I117_K1.4431.00
151_N155_E1.4261.00
100_V137_F1.4251.00
123_K141_G1.3841.00
171_E174_K1.3831.00
117_K125_V1.3811.00
190_V204_L1.3731.00
148_A152_L1.3641.00
56_E89_R1.3561.00
228_S231_Q1.3421.00
206_Y212_A1.3321.00
54_F90_F1.3161.00
40_I58_M1.3111.00
66_T109_K1.3031.00
247_C265_F1.2831.00
73_I102_C1.2561.00
57_L60_L1.2521.00
224_T228_S1.2491.00
221_A224_T1.2371.00
57_L72_V1.2091.00
21_I123_K1.1991.00
63_P66_T1.1961.00
119_L123_K1.1941.00
153_A158_L1.1921.00
234_S237_D1.1851.00
229_M245_I1.1841.00
258_G262_I1.1811.00
252_R262_I1.1811.00
24_L158_L1.1761.00
152_L155_E1.1741.00
168_S178_N1.1711.00
258_G261_R1.1671.00
67_V108_Y1.1661.00
247_C268_W1.1601.00
260_L263_P1.1601.00
89_R98_N1.1501.00
103_V106_V1.1481.00
195_Y240_V1.1471.00
24_L153_A1.1471.00
35_K40_I1.1411.00
68_L101_Y1.1391.00
168_S179_W1.1341.00
31_L50_V1.1151.00
119_L168_S1.1121.00
33_L103_V1.1111.00
106_V109_K1.1111.00
204_L215_M1.1071.00
116_A169_P1.1041.00
252_R263_P1.0981.00
35_K66_T1.0921.00
127_N138_V1.0801.00
29_I54_F1.0791.00
29_I44_T1.0791.00
65_G110_D1.0751.00
124_T127_N1.0691.00
183_I252_R1.0691.00
191_L246_L1.0571.00
185_Y250_K1.0571.00
82_D85_A1.0551.00
26_F139_I1.0551.00
232_V235_E1.0551.00
146_G163_I1.0531.00
36_F39_Q1.0521.00
55_P89_R1.0371.00
236_S239_Y1.0361.00
84_E256_K1.0271.00
221_A225_K1.0211.00
163_I180_L1.0171.00
164_K179_W1.0171.00
188_T206_Y1.0110.99
106_V114_I1.0050.99
83_F87_M1.0030.99
76_A82_D1.0000.99
63_P110_D1.0000.99
143_Q166_A0.9980.99
123_K138_V0.9980.99
245_I268_W0.9960.99
248_N267_S0.9910.99
265_F268_W0.9900.99
81_P158_L0.9860.99
29_I50_V0.9850.99
87_M90_F0.9810.99
192_I268_W0.9680.99
49_E52_S0.9660.99
259_K262_I0.9660.99
190_V212_A0.9610.99
7_L45_R0.9590.99
56_E98_N0.9580.99
7_L175_R0.9570.99
196_T203_L0.9570.99
234_S241_F0.9500.99
44_T53_K0.9490.99
81_P85_A0.9410.99
189_E246_L0.9400.99
89_R99_I0.9390.99
23_E164_K0.9390.99
235_E238_E0.9380.99
19_N165_K0.9280.99
139_I142_T0.9270.99
222_E265_F0.9270.99
21_I120_T0.9260.99
187_Y266_E0.9230.99
8_L162_V0.9160.99
31_L44_T0.9150.99
72_V86_V0.9050.99
203_L214_F0.9020.99
6_M168_S0.9020.99
54_F99_I0.8970.99
203_L239_Y0.8960.99
201_K216_E0.8960.99
252_R264_S0.8880.99
102_C137_F0.8800.99
137_F140_E0.8780.99
75_A102_C0.8730.98
32_I67_V0.8710.98
19_N167_N0.8680.98
55_P98_N0.8670.98
218_M223_R0.8650.98
127_N141_G0.8610.98
15_F20_Y0.8540.98
42_L101_Y0.8510.98
74_V85_A0.8500.98
201_K214_F0.8480.98
75_A81_P0.8470.98
85_A88_E0.8470.98
22_T161_I0.8440.98
118_P169_P0.8410.98
70_G103_V0.8400.98
206_Y254_K0.8360.98
185_Y264_S0.8350.98
35_K63_P0.8340.98
130_E138_V0.8330.98
42_L54_F0.8300.98
40_I51_T0.8230.98
159_E181_K0.8210.98
237_D241_F0.8180.98
120_T123_K0.8150.98
75_A100_V0.8100.98
251_H260_L0.8090.98
204_L212_A0.8080.97
127_N140_E0.8080.97
65_G108_Y0.8040.97
26_F44_T0.8010.97
214_F264_S0.8000.97
241_F244_P0.7950.97
146_G150_F0.7920.97
233_K241_F0.7910.97
30_R69_D0.7860.97
142_T152_L0.7770.97
125_V129_L0.7760.97
4_S173_N0.7730.97
189_E269_R0.7690.97
198_K223_R0.7680.97
76_A81_P0.7660.97
33_L40_I0.7660.97
60_L135_N0.7660.97
195_Y198_K0.7650.97
196_T214_F0.7650.97
193_T203_L0.7570.96
135_N138_V0.7570.96
212_A254_K0.7550.96
195_Y227_H0.7540.96
25_K28_G0.7530.96
23_E179_W0.7500.96
130_E136_V0.7490.96
14_P17_D0.7420.96
109_K114_I0.7370.96
196_T201_K0.7360.96
120_T141_G0.7340.96
109_K128_S0.7320.96
250_K264_S0.7300.95
226_F229_M0.7270.95
35_K64_D0.7270.95
136_V139_I0.7240.95
29_I90_F0.7190.95
120_T143_Q0.7180.95
222_E229_M0.7150.95
100_V135_N0.7120.95
198_K201_K0.7120.95
186_D251_H0.7120.95
234_S239_Y0.7110.95
146_G149_Y0.7100.95
218_M265_F0.7050.95
6_M176_S0.7010.94
223_R226_F0.6980.94
67_V107_I0.6950.94
220_H224_T0.6950.94
61_D135_N0.6950.94
88_E97_H0.6900.94
149_Y161_I0.6870.94
21_I141_G0.6840.94
109_K129_L0.6830.94
190_V247_C0.6820.93
194_G203_L0.6810.93
71_E159_E0.6800.93
200_I223_R0.6760.93
103_V130_E0.6750.93
20_Y163_I0.6720.93
108_Y113_S0.6710.93
188_T251_H0.6670.93
85_A97_H0.6640.93
33_L68_L0.6620.92
10_S161_I0.6600.92
246_L269_R0.6570.92
25_K159_E0.6570.92
195_Y230_K0.6560.92
86_V90_F0.6530.92
192_I242_I0.6500.92
193_T207_P0.6470.92
34_S108_Y0.6460.92
192_I202_F0.6450.91
74_V81_P0.6450.91
107_I115_A0.6450.91
203_L216_E0.6430.91
190_V260_L0.6410.91
225_K228_S0.6410.91
21_I143_Q0.6410.91
207_P211_S0.6360.91
35_K65_G0.6340.91
89_R92_S0.6320.91
119_L166_A0.6300.91
24_L81_P0.6270.90
187_Y250_K0.6260.90
166_A169_P0.6210.90
66_T129_L0.6190.90
193_T234_S0.6190.90
108_Y111_G0.6180.90
204_L213_G0.6160.90
20_Y165_K0.6100.89
223_R227_H0.6080.89
71_E181_K0.6050.89
119_L139_I0.6040.89
24_L102_C0.6040.89
189_E248_N0.6030.89
86_V89_R0.6010.88
204_L249_V0.6010.88
226_F268_W0.6000.88
186_D252_R0.5960.88
185_Y252_R0.5960.88
32_I107_I0.5950.88
233_K236_S0.5950.88
82_D253_F0.5940.88
219_P225_K0.5920.88
83_F104_F0.5910.88
8_L157_N0.5910.88
45_R216_E0.5910.88
202_F247_C0.5900.87
189_E267_S0.5900.87
201_K215_M0.5870.87
40_I57_L0.5870.87
183_I253_F0.5860.87
232_V237_D0.5860.87
59_D121_E0.5860.87
259_K263_P0.5840.87
151_N154_K0.5840.87
224_T244_P0.5820.87
120_T165_K0.5820.87
201_K217_F0.5810.87
25_K45_R0.5800.87
24_L140_E0.5780.86
9_H180_L0.5770.86
76_A79_G0.5760.86
131_L135_N0.5740.86
194_G216_E0.5720.86
254_K258_G0.5700.86
16_N147_L0.5700.86
235_E239_Y0.5670.85
43_Y47_N0.5630.85
89_R97_H0.5630.85
53_K90_F0.5610.85
56_E99_I0.5590.85
62_I129_L0.5590.85
25_K181_K0.5580.84
34_S189_E0.5570.84
142_T145_N0.5570.84
42_L72_V0.5550.84
17_D20_Y0.5550.84
27_D159_E0.5540.84
55_P99_I0.5520.84
137_F142_T0.5510.84
200_I220_H0.5510.84
188_T212_A0.5490.83
150_F182_V0.5480.83
220_H223_R0.5480.83
62_I66_T0.5480.83
233_K242_I0.5480.83
47_N50_V0.5470.83
202_F218_M0.5450.83
121_E125_V0.5450.83
192_I245_I0.5440.83
50_V89_R0.5430.83
83_F89_R0.5410.83
215_M247_C0.5410.83
217_F255_T0.5400.82
14_P182_V0.5350.82
26_F268_W0.5320.82
169_P178_N0.5310.81
68_L106_V0.5300.81
252_R255_T0.5290.81
40_I204_L0.5280.81
136_V140_E0.5280.81
202_F255_T0.5270.81
56_E92_S0.5270.81
103_V126_L0.5260.81
24_L156_K0.5250.81
23_E141_G0.5240.81
134_P138_V0.5240.81
15_F149_Y0.5240.81
187_Y267_S0.5240.81
214_F236_S0.5240.81
37_D64_D0.5240.81
137_F209_G0.5230.80
190_V265_F0.5230.80
75_A79_G0.5190.80
146_G182_V0.5180.80
207_P246_L0.5170.80
117_K124_T0.5170.80
153_A161_I0.5160.80
69_D101_Y0.5160.80
50_V163_I0.5160.80
153_A156_K0.5150.79
214_F254_K0.5150.79
254_K260_L0.5140.79
26_F190_V0.5130.79
90_F183_I0.5120.79
223_R265_F0.5110.79
36_F41_K0.5070.78
75_A80_A0.5060.78
4_S10_S0.5050.78
45_R175_R0.5050.78
8_L216_E0.5050.78
45_R181_K0.5030.78
155_E162_V0.5030.78
31_L45_R0.5020.78
257_H262_I0.5000.77
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  
2cfmA 1 1 100 0.208 Contact Map
3gdeA 1 0.9852 100 0.213 Contact Map
1vs0A 1 0.9778 100 0.213 Contact Map
3w1bA 1 0.9963 100 0.221 Contact Map
2hivA 1 0.9963 100 0.222 Contact Map
1x9nA 1 1 100 0.227 Contact Map
3l2pA 1 0.9519 100 0.266 Contact Map
1a0iA 1 0.9519 100 0.305 Contact Map
4d05A 1 0.8741 100 0.33 Contact Map
1fviA 1 0.8741 100 0.339 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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