GREMLIN Database
Alph_Pro_TM - Putative transmembrane protein (Alph_Pro_TM)
PFAM: PF09608 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 227 (225)
Sequences: 4277 (2901)
Seq/√Len: 193.4
META: 0.872

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
37_D82_R4.5511.00
55_E64_T4.1261.00
21_E154_P3.4691.00
88_A171_F3.2261.00
57_V64_T3.1981.00
171_F176_V3.1821.00
39_V171_F2.6911.00
128_K131_E2.5471.00
88_A93_L2.5471.00
196_A200_H2.4691.00
41_V169_F2.4301.00
43_R167_E2.4051.00
198_L209_L2.3891.00
77_A135_R2.3141.00
208_L212_L2.2921.00
220_L223_A2.2381.00
21_E152_R2.1821.00
191_F195_V2.1441.00
39_V80_S2.1041.00
48_P70_D2.0161.00
79_A151_A1.9801.00
81_S143_F1.9661.00
5_D9_H1.9411.00
10_R187_R1.9341.00
197_N201_E1.8981.00
54_K63_N1.8861.00
43_R46_R1.8841.00
165_T181_T1.8411.00
4_A168_V1.8271.00
159_V186_V1.8031.00
163_T185_E1.7831.00
83_P86_E1.7511.00
26_G149_F1.7461.00
116_D119_E1.7421.00
31_D34_T1.7101.00
88_A92_T1.6961.00
96_Y176_V1.6841.00
204_L211_V1.6751.00
194_F198_L1.6681.00
167_E179_A1.6411.00
82_R86_E1.6311.00
74_S160_P1.5101.00
49_V124_L1.5091.00
129_E136_E1.5041.00
163_T183_P1.4941.00
111_G114_P1.4881.00
169_F176_V1.4881.00
82_R87_I1.4611.00
118_D122_A1.4591.00
89_S92_T1.4581.00
42_V153_I1.4461.00
93_L99_G1.4371.00
52_R66_S1.4341.00
90_P94_A1.4231.00
144_L150_R1.4171.00
39_V87_I1.4071.00
72_V134_Y1.3991.00
92_T95_R1.3981.00
100_L129_E1.3921.00
113_D116_D1.3921.00
196_A199_A1.3851.00
42_V166_V1.3641.00
41_V167_E1.3631.00
50_V66_S1.3401.00
37_D81_S1.3201.00
49_V128_K1.3131.00
142_T150_R1.3041.00
219_W223_A1.3041.00
47_Q128_K1.3031.00
87_I171_F1.2901.00
99_G103_L1.2881.00
216_L220_L1.2821.00
69_F124_L1.2781.00
98_I169_F1.2691.00
205_L208_L1.2601.00
205_L209_L1.2561.00
169_F179_A1.2531.00
67_V117_A1.2491.00
5_D150_R1.2391.00
112_A116_D1.2351.00
207_G211_V1.2171.00
65_D120_F1.2111.00
220_L224_V1.2101.00
40_V151_A1.1911.00
198_L202_H1.1891.00
80_S84_L1.1841.00
188_K192_E1.1771.00
2_L178_A1.1761.00
200_H203_P1.1571.00
140_G151_A1.1351.00
198_L205_L1.1311.00
188_K196_A1.1261.00
51_V124_L1.1191.00
23_L150_R1.1151.00
53_R119_E1.1111.00
159_V164_Y1.1111.00
57_V62_V1.1101.00
7_S23_L1.1071.00
36_Y170_L1.1061.00
32_A35_P1.1011.00
27_A148_L1.0991.00
51_V120_F1.0961.00
131_E158_N1.0941.00
44_G74_S1.0911.00
6_L184_L1.0881.00
217_A221_A1.0871.00
17_F159_V1.0841.00
30_R35_P1.0781.00
28_I38_V1.0731.00
167_E181_T1.0701.00
132_G135_R1.0581.00
166_V184_L1.0551.00
151_A154_P1.0301.00
80_S138_P1.0251.00
79_A153_I1.0231.00
46_R71_S1.0201.00
127_L130_R1.0181.00
155_L159_V1.0171.00
37_D171_F1.0121.00
22_L184_L1.0121.00
53_R64_T0.9931.00
204_L208_L0.9921.00
14_T189_V0.9870.99
93_L102_N0.9810.99
7_S25_F0.9810.99
15_S18_T0.9780.99
93_L98_I0.9700.99
223_A226_R0.9690.99
8_Q21_E0.9690.99
212_L216_L0.9680.99
128_K133_L0.9570.99
55_E65_D0.9510.99
38_V141_V0.9510.99
119_E122_A0.9500.99
29_E145_G0.9300.99
161_V186_V0.9270.99
112_A117_A0.9250.99
141_V151_A0.9220.99
124_L134_Y0.9140.99
94_A102_N0.9130.99
50_V68_T0.9120.99
17_F102_N0.8910.99
8_Q152_R0.8900.99
15_S192_E0.8890.99
53_R65_D0.8840.99
100_L136_E0.8840.99
107_P117_A0.8810.99
125_I134_Y0.8770.99
110_G114_P0.8740.99
97_Q104_Q0.8650.99
43_R165_T0.8600.99
219_W222_S0.8560.99
40_V141_V0.8550.99
206_Y214_A0.8460.98
53_R120_F0.8450.98
214_A217_A0.8440.98
216_L219_W0.8420.98
4_A182_T0.8380.98
72_V107_P0.8370.98
215_L219_W0.8370.98
8_Q20_A0.8270.98
161_V189_V0.8250.98
193_R197_N0.8250.98
202_H205_L0.8230.98
91_E94_A0.8170.98
110_G113_D0.8150.98
91_E95_R0.8150.98
11_V155_L0.8120.98
137_D153_I0.8090.98
72_V105_L0.8060.98
69_F134_Y0.8020.98
92_T175_R0.8010.98
30_R34_T0.7950.98
69_F72_V0.7940.98
185_E220_L0.7870.97
25_F148_L0.7870.97
42_V75_F0.7840.97
95_R179_A0.7810.97
137_D140_G0.7800.97
93_L171_F0.7770.97
24_L79_A0.7690.97
81_S139_G0.7660.97
129_E135_R0.7640.97
69_F121_R0.7610.97
39_V88_A0.7560.97
80_S136_E0.7510.97
37_D87_I0.7480.97
3_V27_A0.7430.96
4_A180_A0.7410.96
4_A9_H0.7400.96
65_D116_D0.7330.96
142_T146_G0.7280.96
17_F186_V0.7260.96
159_V211_V0.7220.96
207_G210_A0.7200.96
28_I36_Y0.7150.96
5_D148_L0.7130.95
172_R177_V0.7120.95
152_R166_V0.7110.95
143_F147_T0.7050.95
123_A127_L0.7040.95
4_A16_N0.7020.95
26_G141_V0.6970.95
38_V168_V0.6940.95
72_V124_L0.6940.95
12_A15_S0.6930.95
143_F146_G0.6920.95
165_T168_V0.6910.95
88_A176_V0.6900.95
124_L174_G0.6850.94
89_S175_R0.6840.94
70_D106_S0.6750.94
69_F107_P0.6720.94
41_V98_I0.6660.94
117_A121_R0.6640.93
102_N105_L0.6620.93
24_L40_V0.6600.93
48_P71_S0.6590.93
114_P118_D0.6560.93
69_F120_F0.6560.93
123_A184_L0.6550.93
3_V23_L0.6540.93
56_R59_G0.6540.93
48_P106_S0.6500.93
85_D90_P0.6490.93
80_S139_G0.6480.93
135_R154_P0.6470.93
211_V217_A0.6460.92
221_A225_F0.6450.92
143_F170_L0.6430.92
75_F164_Y0.6430.92
5_D23_L0.6420.92
4_A10_R0.6410.92
10_R185_E0.6400.92
101_D129_E0.6380.92
28_I147_T0.6360.92
213_I216_L0.6360.92
129_E213_I0.6340.92
93_L101_D0.6340.92
80_S140_G0.6330.92
74_S128_K0.6260.91
12_A187_R0.6250.91
133_L159_V0.6240.91
153_I156_P0.6240.91
52_R63_N0.6230.91
52_R120_F0.6220.91
191_F222_S0.6190.91
9_H15_S0.6190.91
170_L178_A0.6180.91
81_S87_I0.6180.91
161_V164_Y0.6180.91
193_R203_P0.6100.90
111_G116_D0.6060.90
126_R129_E0.6040.90
75_F153_I0.6020.90
84_L93_L0.6020.90
9_H142_T0.6010.90
6_L24_L0.5980.89
114_P117_A0.5980.89
160_P184_L0.5970.89
81_S141_V0.5950.89
202_H210_A0.5900.89
23_L184_L0.5900.89
194_F209_L0.5890.89
66_S105_L0.5890.89
195_V199_A0.5850.88
5_D25_F0.5850.88
70_D91_E0.5830.88
5_D16_N0.5820.88
90_P102_N0.5800.88
123_A143_F0.5780.88
31_D36_Y0.5770.88
35_P177_V0.5760.87
215_L222_S0.5730.87
30_R36_Y0.5720.87
166_V169_F0.5710.87
48_P68_T0.5710.87
47_Q74_S0.5690.87
82_R171_F0.5630.86
92_T96_Y0.5630.86
209_L212_L0.5620.86
9_H183_P0.5620.86
191_F194_F0.5610.86
166_V180_A0.5610.86
40_V166_V0.5590.86
20_A30_R0.5580.86
115_E118_D0.5550.85
179_A183_P0.5550.85
126_R130_R0.5540.85
13_I188_K0.5530.85
13_I186_V0.5530.85
90_P93_L0.5490.85
8_Q22_L0.5480.85
158_N180_A0.5480.85
187_R193_R0.5470.85
194_F202_H0.5460.85
57_V60_I0.5450.84
96_Y171_F0.5450.84
80_S87_I0.5430.84
122_A129_E0.5420.84
213_I217_A0.5420.84
94_A107_P0.5420.84
70_D94_A0.5410.84
123_A126_R0.5390.84
101_D122_A0.5380.84
185_E213_I0.5340.83
96_Y179_A0.5330.83
84_L88_A0.5320.83
132_G197_N0.5320.83
3_V9_H0.5300.83
104_Q122_A0.5280.83
118_D121_R0.5270.82
59_G66_S0.5260.82
58_A66_S0.5250.82
97_Q100_L0.5250.82
161_V193_R0.5230.82
106_S114_P0.5230.82
104_Q113_D0.5210.82
89_S93_L0.5200.82
207_G218_G0.5180.81
112_A115_E0.5150.81
109_G114_P0.5120.81
168_V185_E0.5120.81
42_V151_A0.5110.80
76_Y103_L0.5100.80
210_A216_L0.5100.80
101_D109_G0.5060.80
167_E222_S0.5050.80
45_P219_W0.5050.80
216_L222_S0.5050.80
213_I222_S0.5030.79
106_S130_R0.5030.79
197_N205_L0.5020.79
11_V14_T0.5020.79
62_V112_A0.5010.79
180_A183_P0.5010.79
100_L103_L0.5000.79
67_V76_Y0.5000.79
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  
2ag4A 1 0.5991 74.7 0.933 Contact Map
2p9rA 1 0.4493 28.4 0.95 Contact Map
2pn5A 1 0.859 21 0.953 Contact Map
4p02B 1 0.8238 17 0.955 Contact Map
4acqA 4 0.8811 16.8 0.955 Contact Map
1xwvA 1 0.5507 12.6 0.957 Contact Map
4f92B 1 0.5859 10.6 0.959 Contact Map
2b39A 1 0.8767 10.4 0.959 Contact Map
3cu7A 2 0.8899 9.7 0.959 Contact Map
3isyA 1 0.4978 9.4 0.96 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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