GREMLIN Database
Peptidase_A8 - Signal peptidase (SPase) II
PFAM: PF01252 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 130 (127)
Sequences: 62898 (42582)
Seq/√Len: 3778.6
META: 0.911

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
35_E98_Y3.3771.00
5_V116_A2.9351.00
12_T102_F2.8681.00
17_V100_V2.5231.00
30_N104_D2.3691.00
6_L91_I2.3231.00
15_L19_N2.3161.00
78_A123_L2.1391.00
5_V84_G2.0421.00
115_S119_V1.9851.00
29_F103_I1.9411.00
17_V35_E1.8881.00
37_T98_Y1.8391.00
14_A18_A1.8331.00
118_T122_I1.8241.00
96_Y100_V1.7891.00
80_G84_G1.6131.00
30_N106_H1.5981.00
91_I95_R1.5571.00
33_L100_V1.5551.00
20_L33_L1.5441.00
32_T109_V1.5421.00
23_P26_P1.4961.00
112_V116_A1.4861.00
21_S30_N1.4571.00
65_V69_R1.4551.00
23_P30_N1.4531.00
32_T104_D1.4491.00
37_T45_A1.4281.00
57_A93_R1.4151.00
12_T112_V1.3841.00
10_Q91_I1.3291.00
104_D109_V1.3111.00
41_F108_P1.3091.00
16_V20_L1.3071.00
112_V115_S1.3001.00
72_S75_L1.3001.00
105_F110_F1.2951.00
73_R77_L1.2891.00
125_L128_S1.2871.00
29_F105_F1.2821.00
62_V66_Y1.2761.00
11_L15_L1.2461.00
82_I120_G1.2001.00
16_V33_L1.1861.00
78_A120_G1.1841.00
84_G116_A1.1801.00
5_V80_G1.1761.00
75_L127_D1.1701.00
8_L112_V1.1691.00
110_F115_S1.1681.00
34_V109_V1.1551.00
63_V67_L1.1531.00
74_L78_A1.1411.00
74_L123_L1.1321.00
10_Q14_A1.1201.00
2_A83_L1.1191.00
21_S32_T1.0751.00
122_I125_L1.0721.00
23_P27_G1.0661.00
17_V33_L1.0601.00
16_V31_L1.0561.00
119_V123_L1.0561.00
26_P30_N1.0541.00
54_I57_A1.0491.00
2_A80_G1.0451.00
78_A124_L1.0301.00
78_A127_D1.0151.00
7_A11_L1.0151.00
17_V96_Y1.0141.00
115_S118_T1.0121.00
25_I28_F1.0041.00
47_G50_R0.9851.00
63_V66_Y0.9741.00
35_E100_V0.9721.00
51_W54_I0.9471.00
73_R76_A0.9461.00
59_V63_V0.9401.00
6_L87_L0.9351.00
82_I86_A0.9341.00
107_W118_T0.9321.00
28_F106_H0.9271.00
51_W55_L0.9191.00
54_I90_L0.9161.00
61_L83_L0.9141.00
10_Q92_D0.9091.00
42_G45_A0.9071.00
57_A90_L0.9061.00
34_V42_G0.9011.00
39_A53_L0.9001.00
10_Q96_Y0.8981.00
27_G30_N0.8961.00
70_R73_R0.8921.00
11_L14_A0.8791.00
12_T16_V0.8791.00
122_I126_L0.8491.00
6_L10_Q0.8481.00
76_A80_G0.8321.00
24_V29_F0.8301.00
58_L62_V0.8301.00
81_L116_A0.8251.00
81_L123_L0.8211.00
55_L59_V0.8141.00
39_A43_L0.8111.00
16_V19_N0.8051.00
10_Q17_V0.8051.00
12_T103_I0.8021.00
10_Q100_V0.8011.00
74_L127_D0.8011.00
71_R75_L0.8001.00
77_L80_G0.8001.00
66_Y69_R0.7981.00
9_D13_K0.7981.00
81_L120_G0.7861.00
52_L56_L0.7781.00
121_V125_L0.7761.00
103_I115_S0.7641.00
54_I94_L0.7551.00
46_G49_Q0.7541.00
60_A67_L0.7501.00
87_L91_I0.7501.00
68_L76_A0.7461.00
61_L65_V0.7171.00
2_A84_G0.7171.00
50_R54_I0.7151.00
22_I31_L0.7141.00
14_A17_V0.7131.00
72_S127_D0.7121.00
8_L11_L0.7111.00
61_L90_L0.7041.00
64_L83_L0.7001.00
60_A63_V0.6901.00
33_L98_Y0.6811.00
24_V31_L0.6801.00
77_L81_L0.6801.00
61_L86_A0.6791.00
2_A87_L0.6621.00
90_L94_L0.6581.00
75_L79_L0.6561.00
72_S76_A0.6551.00
123_L127_D0.6531.00
48_W51_W0.6511.00
5_V81_L0.6511.00
89_N111_N0.6491.00
92_D100_V0.6431.00
95_R98_Y0.6421.00
118_T121_V0.6401.00
104_D108_P0.6381.00
81_L119_V0.6371.00
107_W110_F0.6321.00
49_Q52_L0.6311.00
57_A86_A0.6291.00
41_F107_W0.6271.00
53_L57_A0.6241.00
12_T15_L0.6221.00
70_R75_L0.6151.00
80_G116_A0.6061.00
119_V122_I0.6041.00
74_L77_L0.5971.00
118_T125_L0.5891.00
78_A81_L0.5831.00
31_L103_I0.5821.00
16_V102_F0.5811.00
65_V83_L0.5791.00
52_L55_L0.5781.00
60_A66_Y0.5761.00
82_I117_I0.5741.00
106_H109_V0.5731.00
60_A86_A0.5651.00
75_L124_L0.5641.00
47_G51_W0.5621.00
71_R76_A0.5561.00
59_V62_V0.5541.00
102_F112_V0.5531.00
89_N99_V0.5511.00
61_L87_L0.5501.00
42_G108_P0.5471.00
124_L127_D0.5441.00
86_A117_I0.5431.00
3_L7_A0.5411.00
37_T46_G0.5311.00
15_L20_L0.5311.00
35_E96_Y0.5301.00
64_L79_L0.5261.00
6_L84_G0.5171.00
121_V128_S0.5171.00
62_V65_V0.5021.00
40_A44_L0.5021.00
27_G106_H0.5011.00
57_A61_L0.5001.00
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  
2kegA 1 0.2462 1.4 0.935 Contact Map
3zbqA 1 0.3538 1.3 0.937 Contact Map
2vakA 2 0.3385 0.9 0.943 Contact Map
4i0uA 4 0.5154 0.8 0.945 Contact Map
4ev6A 3 0.5308 0.8 0.946 Contact Map
2jwaA 2 0.3385 0.7 0.948 Contact Map
2zjsE 1 0.1308 0.7 0.948 Contact Map
3r4vA 1 0.3769 0.7 0.948 Contact Map
3zdqA 2 0.5615 0.7 0.948 Contact Map
2gsvA 3 0.2538 0.6 0.949 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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