GREMLIN Database
YDIB - Quinate/shikimate dehydrogenase
UniProt: P0A6D5 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG11234
Length: 288 (260)
Sequences: 6318 (4707)
Seq/√Len: 291.9

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
238_M246_Q4.4671.00
15_Y43_E4.0431.00
82_T104_Y3.0801.00
91_I103_G2.8381.00
268_T274_D2.8271.00
80_E102_R2.8101.00
109_T265_E2.7451.00
80_E100_Y2.7021.00
126_T150_E2.5521.00
229_V241_L2.5381.00
265_E268_T2.5211.00
72_Q137_T2.4531.00
96_N101_L2.3531.00
128_V197_A2.1851.00
78_V103_G2.1581.00
8_E62_R2.1561.00
139_I232_C2.1321.00
78_V94_I2.1191.00
240_K244_Q2.1121.00
238_M243_Q2.1011.00
25_M263_G2.0941.00
95_V269_L1.9961.00
129_L140_G1.9891.00
85_A91_I1.9881.00
111_H230_T1.9551.00
73_L76_E1.9331.00
116_K146_E1.9071.00
65_G266_Q1.8901.00
113_R116_K1.8721.00
9_L40_M1.8321.00
229_V245_A1.8101.00
127_M148_L1.8061.00
15_Y45_D1.7941.00
242_L252_T1.7931.00
64_T94_I1.7851.00
137_T170_R1.7701.00
15_Y46_N1.7541.00
14_A67_S1.7521.00
165_L169_Q1.7241.00
74_A78_V1.7091.00
75_C81_L1.6981.00
51_G54_E1.6921.00
83_P86_K1.6921.00
111_H139_I1.6871.00
11_G42_F1.6871.00
126_T198_D1.6491.00
48_S51_G1.6121.00
224_H227_L1.6081.00
70_N73_L1.6071.00
30_L37_F1.6061.00
74_A94_I1.6021.00
13_M64_T1.5941.00
104_Y269_L1.5941.00
82_T102_R1.5681.00
10_I37_F1.5441.00
113_R261_W1.5361.00
94_I101_L1.5131.00
132_A155_N1.4851.00
128_V154_F1.4821.00
81_L86_K1.4801.00
39_Y65_G1.4781.00
93_T106_T1.4781.00
10_I30_L1.4721.00
135_A232_C1.4671.00
78_V91_I1.4481.00
50_P54_E1.4191.00
152_K197_A1.4151.00
126_T152_K1.4111.00
88_V108_G1.4101.00
114_A230_T1.3911.00
55_G58_A1.3861.00
150_E180_T1.3831.00
16_P19_H1.3791.00
12_L41_A1.3591.00
10_I62_R1.3571.00
45_D48_S1.3541.00
243_Q247_Q1.3541.00
84_A104_Y1.3501.00
79_D100_Y1.3411.00
68_M205_K1.3381.00
9_L38_T1.3361.00
114_A257_G1.3361.00
56_L61_M1.3321.00
87_L145_I1.3261.00
84_A145_I1.3181.00
28_K32_K1.3121.00
157_R162_D1.2971.00
15_Y70_N1.2821.00
12_L17_I1.2711.00
44_V52_A1.2391.00
155_N205_K1.2301.00
18_R43_E1.2241.00
97_D100_Y1.2221.00
246_Q252_T1.2211.00
227_L250_C1.2181.00
136_S203_G1.2091.00
181_V184_L1.2091.00
11_G64_T1.2051.00
57_K96_N1.2001.00
125_K198_D1.1991.00
57_K101_L1.1931.00
108_G142_Q1.1761.00
56_L64_T1.1741.00
228_L253_I1.1701.00
95_V104_Y1.1601.00
13_M66_V1.1581.00
267_F271_T1.1551.00
81_L103_G1.1471.00
245_A250_C1.1461.00
261_W277_L1.1391.00
141_A145_I1.1361.00
120_F228_L1.1321.00
127_M143_G1.1261.00
207_G233_V1.1231.00
275_F280_V1.1221.00
81_L85_A1.1191.00
117_E261_W1.1151.00
32_K279_Y1.1021.00
148_L151_I1.0851.00
30_L267_F1.0831.00
143_G201_T1.0811.00
24_E28_K1.0721.00
244_Q247_Q1.0621.00
87_L141_A1.0601.00
49_F74_A1.0591.00
244_Q248_A1.0421.00
17_I43_E1.0351.00
28_K31_E1.0271.00
109_T113_R1.0251.00
111_H201_T1.0211.00
166_A170_R1.0181.00
35_L271_T1.0161.00
276_P279_Y1.0041.00
81_L91_I1.0021.00
27_N38_T0.9981.00
17_I20_S0.9831.00
50_P77_Y0.9811.00
57_K79_D0.9741.00
47_D73_L0.9711.00
129_L136_S0.9681.00
74_A91_I0.9641.00
152_K182_T0.9641.00
157_R163_K0.9611.00
97_D102_R0.9561.00
203_G232_C0.9531.00
49_F77_Y0.9531.00
240_K243_Q0.9531.00
72_Q163_K0.9521.00
78_V81_L0.9501.00
278_E282_Q0.9491.00
42_F61_M0.9411.00
75_C78_V0.9411.00
113_R265_E0.9391.00
162_D166_A0.9371.00
162_D165_L0.9341.00
264_A277_L0.9331.00
140_G171_V0.9291.00
44_V70_N0.9281.00
132_A153_L0.9281.00
21_L24_E0.9251.00
140_G151_I0.9221.00
46_N73_L0.9181.00
57_K60_K0.9171.00
112_I116_K0.9171.00
257_G261_W0.9151.00
95_V102_R0.9121.00
134_G138_A0.9111.00
50_P73_L0.9101.00
118_S253_I0.9031.00
33_A273_K0.9031.00
260_L264_A0.8951.00
163_K166_A0.8941.00
55_G59_L0.8871.00
27_N31_E0.8861.00
33_A267_F0.8851.00
14_A17_I0.8831.00
215_S244_Q0.8691.00
112_I142_Q0.8691.00
204_T207_G0.8681.00
29_A33_A0.8551.00
112_I145_I0.8431.00
126_T196_S0.8411.00
25_M259_L0.8401.00
53_I77_Y0.8381.00
66_V70_N0.8361.00
200_L227_L0.8331.00
220_I247_Q0.8321.00
114_A261_W0.8261.00
9_L59_L0.8231.00
135_A203_G0.8171.00
113_R117_E0.8161.00
96_N99_G0.8131.00
233_V239_T0.8071.00
28_K279_Y0.7960.99
154_F182_T0.7940.99
110_G258_M0.7910.99
18_R41_A0.7890.99
62_R97_D0.7870.99
83_P87_L0.7820.99
120_F199_I0.7810.99
29_A267_F0.7750.99
143_G148_L0.7750.99
52_A55_G0.7740.99
168_A172_N0.7730.99
210_P240_K0.7690.99
64_T74_A0.7650.99
52_A59_L0.7620.99
13_M52_A0.7510.99
35_L267_F0.7510.99
265_E269_L0.7500.99
90_A105_N0.7480.99
223_L229_V0.7450.99
49_F73_L0.7430.99
53_I74_A0.7420.99
238_M242_L0.7420.99
26_Q263_G0.7420.99
221_S248_A0.7410.99
53_I57_K0.7390.99
220_I244_Q0.7380.99
68_M208_M0.7340.99
72_Q76_E0.7330.99
128_V200_L0.7320.99
130_L184_L0.7300.99
164_A167_F0.7290.99
80_E86_K0.7280.99
29_A280_V0.7280.99
64_T96_N0.7240.99
232_C258_M0.7230.99
199_I228_L0.7200.99
10_I271_T0.7180.99
117_E257_G0.7170.99
215_S240_K0.7170.99
228_L251_K0.7170.99
136_S140_G0.7140.99
233_V254_D0.7120.99
78_V101_L0.7110.99
9_L42_F0.7090.99
126_T149_K0.7060.99
223_L250_C0.7050.99
21_L235_N0.7050.99
90_A138_A0.7040.99
88_V138_A0.7020.99
168_A181_V0.6990.99
26_Q93_T0.6970.99
224_H250_C0.6970.99
88_V141_A0.6960.99
155_N163_K0.6960.99
253_I257_G0.6940.99
13_M44_V0.6940.99
140_G153_L0.6930.99
172_N175_T0.6910.98
237_H254_D0.6890.98
130_L204_T0.6880.98
125_K149_K0.6870.98
229_V242_L0.6870.98
49_F70_N0.6860.98
28_K280_V0.6810.98
238_M252_T0.6810.98
32_K276_P0.6770.98
74_A77_Y0.6770.98
208_M233_V0.6770.98
114_A118_S0.6760.98
112_I146_E0.6720.98
202_N241_L0.6710.98
79_D101_L0.6710.98
19_H68_M0.6680.98
42_F52_A0.6650.98
219_D222_L0.6580.98
39_Y93_T0.6570.98
45_D70_N0.6560.98
11_G41_A0.6490.98
54_E57_K0.6480.98
214_E217_V0.6480.98
226_G250_C0.6460.98
82_T269_L0.6460.98
130_L154_F0.6450.98
83_P145_I0.6440.98
108_G145_I0.6400.98
220_I248_A0.6400.98
50_P76_E0.6380.97
93_T266_Q0.6370.97
26_Q30_L0.6360.97
129_L153_L0.6360.97
144_A151_I0.6360.97
12_L65_G0.6330.97
113_R268_T0.6320.97
144_A171_V0.6320.97
256_Y260_L0.6310.97
257_G281_K0.6300.97
118_S257_G0.6250.97
128_V194_L0.6250.97
108_G112_I0.6220.97
88_V105_N0.6220.97
157_R205_K0.6190.97
194_L197_A0.6170.97
51_G55_G0.6160.97
155_N164_A0.6110.97
108_G141_A0.6100.97
122_I125_K0.6080.97
122_I148_L0.6050.97
265_E274_D0.6030.96
11_G61_M0.6020.96
13_M49_F0.5980.96
132_A157_R0.5970.96
13_M70_N0.5940.96
223_L244_Q0.5940.96
115_I253_I0.5930.96
114_A253_I0.5920.96
130_L200_L0.5920.96
15_Y19_H0.5920.96
164_A168_A0.5910.96
127_M201_T0.5910.96
185_A191_A0.5900.96
242_L254_D0.5880.96
110_G114_A0.5870.96
201_T232_C0.5860.96
276_P280_V0.5830.96
126_T197_A0.5830.96
9_L60_K0.5800.96
267_F275_F0.5800.96
170_R174_N0.5770.95
142_Q146_E0.5760.95
223_L245_A0.5740.95
8_E271_T0.5730.95
264_A280_V0.5720.95
238_M254_D0.5710.95
117_E281_K0.5710.95
35_L273_K0.5710.95
197_A200_L0.5710.95
118_S251_K0.5700.95
202_N233_V0.5700.95
210_P213_N0.5700.95
266_Q270_W0.5700.95
127_M199_I0.5660.95
51_G58_A0.5660.95
223_L248_A0.5650.95
268_T275_F0.5650.95
75_C85_A0.5640.95
29_A275_F0.5630.95
235_N259_L0.5610.95
209_K235_N0.5600.95
115_I143_G0.5590.95
87_L170_R0.5560.94
94_I103_G0.5550.94
206_V233_V0.5550.94
200_L229_V0.5520.94
54_E58_A0.5470.94
60_K96_N0.5460.94
124_G149_K0.5440.94
17_I235_N0.5440.94
12_L20_S0.5440.94
30_L270_W0.5440.94
123_K147_G0.5420.94
27_N36_P0.5410.94
24_E41_A0.5400.94
16_P70_N0.5400.94
68_M233_V0.5390.94
213_N240_K0.5380.93
121_D125_K0.5360.93
237_H256_Y0.5340.93
9_L55_G0.5330.93
27_N40_M0.5330.93
204_T208_M0.5330.93
61_M64_T0.5320.93
53_I101_L0.5310.93
135_A138_A0.5310.93
66_V94_I0.5310.93
207_G210_P0.5280.93
84_A141_A0.5280.93
108_G139_I0.5270.93
129_L143_G0.5270.93
9_L41_A0.5270.93
141_A171_V0.5270.93
17_I67_S0.5240.93
22_S259_L0.5240.93
96_N100_Y0.5200.92
115_I228_L0.5200.92
87_L174_N0.5200.92
38_T41_A0.5190.92
129_L203_G0.5190.92
139_I201_T0.5170.92
84_A108_G0.5150.92
118_S230_T0.5150.92
22_S234_Y0.5130.92
153_L168_A0.5110.92
132_A136_S0.5090.91
65_G93_T0.5060.91
277_L281_K0.5050.91
87_L144_A0.5030.91
130_L218_N0.5000.91
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  
3t4eA 2 0.9896 100 0.205 Contact Map
1npyA 1 0.9236 100 0.208 Contact Map
4xijA 1 0.9236 100 0.227 Contact Map
3tnlA 2 0.9757 100 0.237 Contact Map
2o7sA 2 0.9062 100 0.264 Contact Map
3phhA 1 0.875 100 0.273 Contact Map
3jyoA 2 0.9583 100 0.277 Contact Map
3fbtA 2 0.9271 100 0.285 Contact Map
3pwzA 1 0.9306 100 0.289 Contact Map
2d5cA 2 0.9062 100 0.294 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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