GREMLIN Database
RIBD - Riboflavin biosynthesis protein RibD
UniProt: P25539 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG11321
Length: 367 (346)
Sequences: 3107 (2306)
Seq/√Len: 124.0

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
9_R40_E4.1271.00
99_S131_A3.8411.00
86_D114_R3.6391.00
68_A88_L3.4261.00
113_Y117_Q3.3241.00
98_A112_L3.1001.00
268_R291_Q3.0161.00
254_A284_L2.8341.00
100_M139_L2.8101.00
67_T97_V2.7741.00
128_M132_E2.7651.00
150_Q187_S2.7221.00
132_E143_R2.6461.00
179_D320_Y2.5361.00
86_D90_A2.5061.00
64_K92_G2.4471.00
140_K315_D2.4361.00
298_V308_L2.3831.00
29_C68_A2.2561.00
45_R48_E2.2471.00
76_S85_C2.2401.00
89_I114_R2.2331.00
140_K144_T2.2161.00
22_H188_H2.2091.00
95_R121_D2.2001.00
201_D243_R2.1891.00
68_A93_V2.0811.00
173_S358_P2.0741.00
136_K316_E2.0341.00
123_S126_L2.0151.00
287_Q291_Q2.0151.00
6_Y37_I1.9981.00
324_K347_Q1.9691.00
76_S110_R1.9561.00
140_K146_F1.9151.00
149_I285_M1.8841.00
60_G63_A1.8661.00
228_I252_W1.8591.00
281_L313_L1.8571.00
183_L297_W1.8551.00
287_Q290_K1.8361.00
194_S198_L1.8311.00
101_Q112_L1.8081.00
10_A71_T1.7741.00
46_A80_R1.7671.00
31_I68_A1.7671.00
44_Q54_H1.7521.00
192_T300_A1.7501.00
191_L304_L1.7301.00
189_A230_I1.7111.00
194_S238_V1.7091.00
89_I120_I1.7081.00
87_A91_A1.6951.00
198_L237_R1.6921.00
308_L313_L1.6771.00
203_A243_R1.6681.00
155_A321_I1.6571.00
113_Y116_Q1.6491.00
324_K345_A1.6361.00
78_H86_D1.6241.00
56_L63_A1.6151.00
173_S176_A1.6111.00
95_R123_S1.5791.00
88_L93_V1.5771.00
197_V244_I1.5771.00
156_S324_K1.5761.00
318_I361_C1.5761.00
195_A199_A1.5701.00
146_F286_M1.5591.00
254_A287_Q1.5511.00
3_D95_R1.5471.00
18_R186_Q1.5441.00
8_A127_M1.5261.00
232_I304_L1.5121.00
183_L318_I1.5071.00
16_R42_Y1.4991.00
151_L305_A1.4991.00
36_E62_K1.4831.00
156_S326_L1.4701.00
104_N142_M1.4631.00
259_D263_W1.4621.00
170_W177_R1.4451.00
205_T249_G1.4441.00
285_M308_L1.4431.00
228_I293_I1.4331.00
76_S114_R1.4301.00
136_K148_Y1.4251.00
161_T302_P1.4241.00
175_Q357_G1.4231.00
352_E363_H1.4211.00
85_C89_I1.4171.00
273_P283_V1.4171.00
320_Y361_C1.4011.00
85_C114_R1.3971.00
173_S359_D1.3961.00
236_N255_R1.3931.00
49_P57_R1.3761.00
192_T197_V1.3551.00
250_E268_R1.3471.00
167_E342_L1.3461.00
316_E363_H1.3401.00
127_M130_E1.3331.00
78_H82_P1.3211.00
167_E341_K1.3151.00
3_D123_S1.3111.00
101_Q124_H1.3111.00
172_T176_A1.3101.00
194_S237_R1.3041.00
231_V244_I1.2941.00
179_D361_C1.2921.00
21_T46_A1.2841.00
233_D237_R1.2841.00
39_G58_M1.2831.00
56_L87_A1.2801.00
8_A130_E1.2761.00
148_Y316_E1.2681.00
59_A63_A1.2621.00
133_Q136_K1.2491.00
153_L319_V1.2410.99
141_R294_N1.2390.99
255_R269_T1.2340.99
198_L239_T1.2280.99
191_L232_I1.2270.99
238_V253_F1.2170.99
6_Y32_V1.2150.99
139_L143_R1.2070.99
3_D97_V1.2000.99
232_I284_L1.2000.99
231_V238_V1.1990.99
141_R289_G1.1980.99
256_T279_L1.1900.99
191_L308_L1.1860.99
32_V69_Y1.1590.99
198_L233_D1.1590.99
125_G128_M1.1580.99
18_R26_N1.1560.99
160_R332_G1.1540.99
151_L309_L1.1510.99
112_L124_H1.1450.99
179_D354_R1.1450.99
185_A206_V1.1440.99
20_T185_A1.1400.99
234_S256_T1.1390.99
100_M132_E1.1300.99
29_C88_L1.1290.99
167_E343_A1.1270.99
350_F362_L1.1160.99
38_V60_G1.1150.99
53_V57_R1.1120.99
158_D327_G1.0920.99
49_P53_V1.0890.99
17_G20_T1.0880.99
110_R114_R1.0860.99
9_R12_K1.0840.99
155_A333_L1.0820.99
153_L305_A1.0800.99
326_L342_L1.0790.99
270_L287_Q1.0710.98
242_H245_V1.0650.98
9_R37_I1.0620.98
262_E266_T1.0600.98
197_V238_V1.0550.98
77_H107_V1.0530.98
98_A124_H1.0520.98
150_Q318_I1.0490.98
58_M63_A1.0470.98
151_L314_V1.0470.98
49_P54_H1.0470.98
194_S233_D1.0360.98
15_Q18_R1.0360.98
9_R13_L1.0360.98
353_I360_V1.0350.98
17_G42_Y1.0340.98
54_H57_R1.0320.98
298_V304_L1.0270.98
53_V87_A1.0260.98
33_K38_V1.0230.98
38_V63_A1.0160.98
135_N139_L1.0150.98
114_R118_A1.0120.98
44_Q48_E1.0120.98
194_S245_V1.0110.98
229_R251_T1.0100.98
232_I279_L1.0030.98
254_A270_L1.0000.98
26_N135_N1.0000.98
187_S295_S0.9980.98
153_L333_L0.9970.98
110_R113_Y0.9850.97
151_L298_V0.9840.97
67_T95_R0.9830.97
48_E54_H0.9800.97
309_L334_C0.9800.97
17_G21_T0.9790.97
43_H48_E0.9760.97
144_T289_G0.9700.97
13_L40_E0.9650.97
238_V245_V0.9610.97
239_T242_H0.9580.97
230_I288_L0.9520.97
11_L131_A0.9500.97
321_I362_L0.9470.97
286_M290_K0.9450.97
191_L296_I0.9420.97
26_N43_H0.9420.97
56_L91_A0.9340.96
192_T231_V0.9310.96
259_D271_L0.9290.96
145_G289_G0.9270.96
348_F362_L0.9260.96
40_E58_M0.9240.96
293_I296_I0.9210.96
243_R246_Q0.9190.96
171_I342_L0.9140.96
155_A319_V0.9140.96
252_W270_L0.9140.96
279_L284_L0.9130.96
31_I55_A0.9120.96
54_H58_M0.9090.96
97_V126_L0.9000.96
188_H294_N0.8970.95
168_S177_R0.8920.95
137_G141_R0.8890.95
93_V96_V0.8880.95
97_V123_S0.8830.95
179_D183_L0.8820.95
232_I254_A0.8800.95
162_A170_W0.8760.95
240_P261_R0.8760.95
15_Q134_L0.8750.95
244_I251_T0.8710.95
194_S234_S0.8640.94
39_G59_A0.8610.94
201_D241_V0.8580.94
58_M62_K0.8560.94
260_S263_W0.8520.94
355_H360_V0.8510.94
234_S279_L0.8500.94
13_L39_G0.8470.94
150_Q295_S0.8470.94
258_E271_L0.8450.94
245_V267_V0.8450.94
100_M134_L0.8440.94
14_A135_N0.8440.94
76_S89_I0.8430.94
179_D182_L0.8430.94
14_A134_L0.8420.94
8_A12_K0.8410.94
4_E127_M0.8370.93
283_V287_Q0.8370.93
149_I298_V0.8350.93
328_S338_G0.8330.93
43_H134_L0.8300.93
306_G310_Q0.8280.93
33_K62_K0.8240.93
179_D318_I0.8230.93
259_D262_E0.8180.93
197_V242_H0.8170.93
17_G43_H0.8120.92
179_D356_V0.8090.92
3_D69_Y0.8090.92
13_L42_Y0.8080.92
146_F282_V0.8070.92
38_V58_M0.8070.92
38_V62_K0.8040.92
85_C88_L0.8020.92
31_I87_A0.8020.92
116_Q122_V0.8000.92
39_G53_V0.8000.92
300_A305_A0.7970.92
272_I283_V0.7960.92
191_L298_V0.7900.91
32_V66_A0.7890.91
238_V242_H0.7890.91
162_A168_S0.7880.91
319_V333_L0.7880.91
252_W291_Q0.7880.91
160_R330_A0.7870.91
194_S239_T0.7850.91
31_I39_G0.7820.91
238_V244_I0.7820.91
53_V82_P0.7800.91
33_K66_A0.7780.91
132_E139_L0.7780.91
146_F315_D0.7760.91
7_M125_G0.7760.91
304_L308_L0.7720.90
351_K363_H0.7720.90
354_R363_H0.7710.90
4_E8_A0.7580.90
89_I118_A0.7560.89
33_K65_G0.7550.89
107_V111_G0.7520.89
106_Q142_M0.7500.89
180_V342_L0.7480.89
53_V90_A0.7480.89
101_Q128_M0.7460.89
175_Q358_P0.7460.89
325_L348_F0.7460.89
103_P139_L0.7440.89
250_E291_Q0.7430.89
355_H358_P0.7410.89
280_D283_V0.7390.88
195_A237_R0.7370.88
31_I93_V0.7340.88
169_Q342_L0.7320.88
189_A296_I0.7300.88
163_M167_E0.7300.88
94_A121_D0.7290.88
156_S163_M0.7280.88
245_V251_T0.7280.88
190_I226_Q0.7260.88
77_H83_P0.7250.87
356_V361_C0.7230.87
137_G295_S0.7210.87
149_I296_I0.7190.87
106_Q110_R0.7160.87
177_R320_Y0.7160.87
11_L15_Q0.7150.87
43_H46_A0.7140.87
183_L187_S0.7130.87
76_S86_D0.7120.87
229_R249_G0.7070.86
116_Q124_H0.7060.86
124_H127_M0.7050.86
328_S336_L0.7040.86
100_M128_M0.7000.86
150_Q183_L0.6960.85
100_M135_N0.6950.85
196_T202_P0.6930.85
189_A293_I0.6900.85
65_G94_A0.6890.85
174_P178_R0.6880.85
85_C110_R0.6880.85
12_K15_Q0.6830.84
15_Q130_E0.6790.84
98_A122_V0.6770.84
11_L99_S0.6760.84
329_D332_G0.6760.84
206_V226_Q0.6760.84
232_I308_L0.6740.83
281_L311_A0.6740.83
103_P143_R0.6670.83
303_T307_A0.6660.83
246_Q249_G0.6660.83
173_S356_V0.6640.82
192_T204_L0.6610.82
98_A116_Q0.6570.82
68_A92_G0.6560.82
112_L116_Q0.6550.82
251_T255_R0.6540.82
252_W268_R0.6540.82
176_A359_D0.6530.81
56_L88_L0.6520.81
341_K344_D0.6480.81
187_S297_W0.6480.81
253_F262_E0.6480.81
326_L339_L0.6480.81
137_G187_S0.6470.81
305_A314_V0.6460.81
22_H294_N0.6460.81
350_F360_V0.6450.81
22_H225_R0.6440.81
353_I362_L0.6420.80
302_P335_T0.6420.80
175_Q178_R0.6410.80
41_G54_H0.6410.80
43_H135_N0.6410.80
150_Q316_E0.6410.80
245_V265_E0.6390.80
173_S357_G0.6380.80
26_N134_L0.6370.80
347_Q358_P0.6370.80
68_A71_T0.6360.80
318_I363_H0.6340.79
13_L16_R0.6340.79
234_S278_H0.6320.79
105_P142_M0.6280.79
255_R271_L0.6250.79
256_T271_L0.6230.78
176_A320_Y0.6210.78
163_M326_L0.6210.78
298_V314_V0.6180.78
201_D242_H0.6180.78
100_M124_H0.6170.78
101_Q116_Q0.6160.78
257_Q271_L0.6150.77
183_L320_Y0.6150.77
31_I63_A0.6130.77
263_W269_T0.6120.77
26_N295_S0.6100.77
254_A279_L0.6090.77
67_T94_A0.6080.77
137_G294_N0.6070.76
153_L317_L0.6060.76
26_N137_G0.6050.76
43_H54_H0.6050.76
247_Q251_T0.6030.76
23_P46_A0.6030.76
145_G286_M0.6020.76
260_S264_P0.6010.76
194_S242_H0.6010.76
303_T335_T0.5990.76
66_A93_V0.5980.75
176_A357_G0.5890.74
190_I209_S0.5880.74
100_M131_A0.5880.74
156_S171_I0.5870.74
76_S107_V0.5860.74
3_D67_T0.5860.74
270_L291_Q0.5830.74
192_T202_P0.5820.73
282_V311_A0.5810.73
246_Q265_E0.5800.73
78_H83_P0.5800.73
112_L122_V0.5800.73
246_Q251_T0.5790.73
206_V209_S0.5790.73
328_S332_G0.5780.73
281_L298_V0.5780.73
193_S308_L0.5770.73
163_M170_W0.5760.73
289_G294_N0.5760.73
203_A246_Q0.5750.73
310_Q337_P0.5740.72
272_I279_L0.5730.72
176_A179_D0.5720.72
98_A125_G0.5720.72
24_N27_V0.5710.72
194_S262_E0.5700.72
281_L285_M0.5690.72
176_A356_V0.5690.72
205_T229_R0.5680.72
266_T269_T0.5680.72
197_V233_D0.5670.72
278_H303_T0.5670.72
104_N108_A0.5670.72
283_V286_M0.5640.71
191_L230_I0.5630.71
298_V305_A0.5630.71
182_L186_Q0.5610.71
306_G337_P0.5610.71
342_L345_A0.5610.71
9_R30_V0.5610.71
172_T322_A0.5580.70
3_D126_L0.5580.70
7_M71_T0.5570.70
99_S125_G0.5560.70
58_M61_E0.5550.70
181_Q206_V0.5540.70
354_R361_C0.5510.69
320_Y356_V0.5500.69
96_V120_I0.5480.69
270_L284_L0.5480.69
281_L308_L0.5470.69
6_Y69_Y0.5450.69
352_E361_C0.5440.68
350_F353_I0.5430.68
160_R326_L0.5430.68
340_E344_D0.5420.68
11_L71_T0.5400.68
185_A226_Q0.5390.68
17_G46_A0.5390.68
309_L317_L0.5390.68
162_A169_Q0.5380.68
244_I247_Q0.5370.67
233_D236_N0.5370.67
157_L321_I0.5370.67
104_N107_V0.5370.67
38_V59_A0.5360.67
167_E326_L0.5360.67
314_V317_L0.5300.66
79_G83_P0.5300.66
238_V267_V0.5300.66
178_R182_L0.5290.66
230_I284_L0.5280.66
326_L345_A0.5260.66
138_F142_M0.5260.66
188_H225_R0.5250.66
20_T42_Y0.5240.66
193_S300_A0.5240.66
4_E126_L0.5240.66
39_G54_H0.5240.66
171_I322_A0.5230.65
335_T338_G0.5230.65
236_N266_T0.5230.65
82_P87_A0.5230.65
188_H295_S0.5220.65
39_G66_A0.5210.65
167_E171_I0.5190.65
162_A165_S0.5180.65
137_G316_E0.5180.65
7_M10_A0.5170.65
137_G148_Y0.5170.65
75_C84_C0.5170.65
281_L307_A0.5160.64
322_A359_D0.5140.64
17_G26_N0.5130.64
180_V297_W0.5110.64
187_S316_E0.5110.64
196_T204_L0.5110.64
56_L93_V0.5110.64
129_S133_Q0.5100.63
150_Q297_W0.5100.63
19_F185_A0.5090.63
163_M168_S0.5080.63
325_L334_C0.5080.63
229_R250_E0.5070.63
10_A29_C0.5070.63
19_F26_N0.5070.63
160_R328_S0.5060.63
7_M126_L0.5040.63
204_L300_A0.5040.63
131_A134_L0.5040.63
54_H60_G0.5040.63
116_Q123_S0.5020.62
262_E265_E0.5010.62
282_V286_M0.5000.62
342_L348_F0.5000.62
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  
2g6vA 2 0.9837 100 0.236 Contact Map
2b3zA 3 0.9564 100 0.249 Contact Map
3zpgA 2 0.9537 100 0.276 Contact Map
2hxvA 2 0.9319 100 0.284 Contact Map
2p4gA 2 0.6322 100 0.641 Contact Map
4ha7A 2 0.5613 100 0.653 Contact Map
2aznA 2 0.5695 100 0.654 Contact Map
3g8qA 2 0.6812 100 0.656 Contact Map
1z3aA 2 0.3787 100 0.713 Contact Map
2nx8A 2 0.4005 100 0.718 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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