Query psy6758
Match_columns 101
No_of_seqs 167 out of 1029
Neff 8.3
Searched_HMMs 46136
Date Fri Aug 16 17:41:05 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy6758.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/6758hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF14604 SH3_9: Variant SH3 do 99.7 7.2E-18 1.6E-22 91.1 5.2 49 10-61 1-49 (49)
2 PF07653 SH3_2: Variant SH3 do 99.6 1.2E-15 2.7E-20 84.0 5.7 54 7-63 1-55 (55)
3 PF00018 SH3_1: SH3 domain; I 99.6 2.6E-15 5.6E-20 80.5 4.9 47 9-57 1-48 (48)
4 KOG2199|consensus 99.5 9.7E-16 2.1E-20 111.7 1.1 54 7-63 217-270 (462)
5 smart00326 SH3 Src homology 3 99.5 8.9E-14 1.9E-18 75.7 6.9 55 6-62 3-57 (58)
6 cd00174 SH3 Src homology 3 dom 99.5 1.4E-13 3E-18 74.1 6.2 52 8-61 2-53 (54)
7 KOG1118|consensus 99.5 2.4E-14 5.2E-19 101.7 2.9 61 4-67 305-365 (366)
8 KOG2070|consensus 99.5 8E-14 1.7E-18 104.2 5.8 58 4-64 16-73 (661)
9 KOG1029|consensus 99.4 7.1E-14 1.5E-18 108.7 3.2 57 6-65 1054-1110(1118)
10 KOG4226|consensus 99.4 5.7E-13 1.2E-17 93.8 6.1 57 7-65 193-251 (379)
11 KOG4792|consensus 99.3 9.1E-13 2E-17 90.6 1.2 62 4-67 123-184 (293)
12 KOG0162|consensus 99.3 3.2E-12 7E-17 99.3 3.6 55 6-63 1052-1106(1106)
13 KOG4225|consensus 99.3 6.2E-12 1.3E-16 92.8 4.5 55 8-65 233-287 (489)
14 KOG2856|consensus 99.2 8.3E-12 1.8E-16 90.8 0.9 55 6-62 415-470 (472)
15 KOG4226|consensus 99.1 7.4E-11 1.6E-15 83.2 5.0 55 8-65 110-164 (379)
16 KOG0515|consensus 99.1 4.8E-11 1E-15 90.3 2.5 55 8-65 686-743 (752)
17 KOG1264|consensus 99.1 3.9E-11 8.4E-16 94.3 2.0 61 3-65 772-832 (1267)
18 KOG2996|consensus 99.0 1.8E-10 3.9E-15 88.0 3.6 54 8-64 808-863 (865)
19 KOG3875|consensus 99.0 5E-11 1.1E-15 85.0 -1.3 58 6-65 269-332 (362)
20 KOG1029|consensus 98.9 8.8E-10 1.9E-14 86.3 4.2 59 6-67 694-754 (1118)
21 KOG4348|consensus 98.9 3.3E-10 7.1E-15 84.2 1.4 61 6-69 101-161 (627)
22 KOG4348|consensus 98.9 8.4E-10 1.8E-14 82.1 3.1 55 7-64 263-319 (627)
23 KOG2546|consensus 98.8 1.8E-09 3.9E-14 79.8 2.5 54 8-64 426-479 (483)
24 KOG3655|consensus 98.8 9.7E-10 2.1E-14 82.0 1.0 56 6-63 428-483 (484)
25 KOG4225|consensus 98.8 4.1E-09 8.9E-14 78.2 3.8 56 5-62 432-488 (489)
26 KOG1843|consensus 98.8 3.8E-09 8.2E-14 77.8 3.0 54 6-62 417-472 (473)
27 KOG4278|consensus 98.7 1.4E-08 3E-13 79.2 3.9 57 7-66 92-149 (1157)
28 KOG3601|consensus 98.7 1.5E-08 3.3E-13 69.0 2.6 56 5-63 163-218 (222)
29 KOG0197|consensus 98.5 3.5E-08 7.6E-13 74.3 1.7 56 6-63 12-69 (468)
30 KOG1702|consensus 98.4 1.6E-07 3.4E-12 64.1 3.2 55 6-62 208-263 (264)
31 KOG3557|consensus 98.4 6.8E-08 1.5E-12 74.6 1.0 63 4-69 499-561 (721)
32 KOG0609|consensus 98.3 3.1E-07 6.6E-12 69.8 1.1 58 6-63 215-281 (542)
33 KOG3523|consensus 98.2 1.3E-07 2.9E-12 72.6 -1.9 57 7-65 610-667 (695)
34 KOG2528|consensus 98.2 5.4E-07 1.2E-11 67.2 1.2 57 7-65 4-61 (490)
35 KOG3632|consensus 97.9 1.2E-05 2.5E-10 65.1 4.1 59 7-66 1140-1205(1335)
36 KOG2222|consensus 97.8 2.3E-06 5E-11 65.0 -1.6 55 7-64 550-604 (848)
37 KOG3601|consensus 97.8 2.7E-06 6E-11 58.1 -1.6 52 8-62 3-55 (222)
38 PF14603 hSH3: Helically-exten 97.7 4.9E-05 1.1E-09 45.3 3.6 44 20-63 29-72 (89)
39 KOG4773|consensus 97.7 4E-06 8.7E-11 61.0 -1.3 55 8-65 178-232 (386)
40 KOG3775|consensus 97.7 2.2E-05 4.7E-10 57.9 1.9 62 3-66 260-322 (482)
41 KOG4575|consensus 97.6 7.6E-05 1.6E-09 58.3 4.1 56 5-62 8-64 (874)
42 KOG3725|consensus 97.4 4.5E-05 9.7E-10 54.0 0.4 54 6-62 318-373 (375)
43 KOG3771|consensus 97.3 0.00011 2.4E-09 55.3 1.9 51 7-60 402-453 (460)
44 PF08239 SH3_3: Bacterial SH3 97.2 0.00076 1.6E-08 36.3 3.7 39 23-61 16-55 (55)
45 KOG4792|consensus 97.2 0.00085 1.8E-08 46.8 4.7 59 6-65 228-286 (293)
46 KOG0199|consensus 97.1 0.001 2.2E-08 53.2 5.4 57 4-64 375-433 (1039)
47 KOG3565|consensus 97.0 0.00011 2.3E-09 57.8 -0.7 56 7-64 580-637 (640)
48 KOG4429|consensus 97.0 0.00016 3.5E-09 52.1 0.1 54 7-63 365-418 (421)
49 KOG1451|consensus 96.9 0.00085 1.9E-08 52.3 3.2 52 8-62 759-811 (812)
50 smart00287 SH3b Bacterial SH3 96.7 0.0053 1.2E-07 33.7 4.7 38 23-60 24-61 (63)
51 PRK10884 SH3 domain-containing 96.6 0.0034 7.4E-08 43.1 3.7 41 25-65 49-90 (206)
52 KOG0040|consensus 96.3 6E-05 1.3E-09 63.4 -6.9 57 7-66 970-1026(2399)
53 KOG3632|consensus 96.0 0.013 2.8E-07 48.3 4.6 59 7-65 449-512 (1335)
54 KOG3812|consensus 95.2 0.012 2.7E-07 43.4 1.9 50 8-57 61-117 (475)
55 PF06347 SH3_4: Bacterial SH3 94.1 0.12 2.7E-06 27.6 3.8 36 23-60 18-53 (55)
56 KOG2996|consensus 93.9 0.027 5.9E-07 44.3 1.2 44 22-65 625-670 (865)
57 PRK13914 invasion associated s 93.8 0.15 3.3E-06 39.2 5.0 41 24-64 103-143 (481)
58 COG3103 SH3 domain protein [Si 93.7 0.14 3E-06 35.3 4.2 41 25-65 49-90 (205)
59 smart00743 Agenet Tudor-like d 87.0 1.1 2.3E-05 24.3 3.1 23 25-47 2-24 (61)
60 PF11302 DUF3104: Protein of u 86.8 1 2.2E-05 26.2 2.9 25 23-47 3-33 (75)
61 KOG3705|consensus 86.2 0.97 2.1E-05 34.5 3.3 53 8-62 512-565 (580)
62 PF12913 SH3_6: SH3 domain of 85.0 2.2 4.7E-05 23.2 3.5 34 23-57 20-54 (54)
63 KOG3580|consensus 81.2 3.4 7.4E-05 33.3 4.6 56 4-61 503-566 (1027)
64 KOG0708|consensus 80.0 0.46 1E-05 35.3 -0.4 56 5-60 66-129 (359)
65 PRK13545 tagH teichoic acids e 72.3 5.5 0.00012 31.4 3.6 39 27-65 373-416 (549)
66 KOG4384|consensus 58.0 6.9 0.00015 29.2 1.6 57 8-65 139-195 (361)
67 PF05641 Agenet: Agenet domain 47.1 24 0.00052 19.5 2.4 22 26-47 1-25 (68)
68 COG3807 Uncharacterized protei 39.1 14 0.0003 24.5 0.7 37 24-61 59-95 (171)
69 smart00333 TUDOR Tudor domain. 37.9 61 0.0013 16.7 3.3 22 25-47 2-23 (57)
70 PF11347 DUF3148: Protein of u 33.0 94 0.002 17.4 3.7 33 26-59 30-62 (63)
71 cd05789 S1_Rrp4 S1_Rrp4: Rrp4 32.7 96 0.0021 17.4 3.8 34 27-61 5-40 (86)
72 PF00575 S1: S1 RNA binding do 27.6 1.1E+02 0.0024 16.5 3.5 36 26-62 2-39 (74)
73 PF06560 GPI: Glucose-6-phosph 26.8 1.4E+02 0.003 20.2 3.9 39 27-65 90-132 (182)
74 cd04454 S1_Rrp4_like S1_Rrp4_l 25.4 1.3E+02 0.0029 16.7 4.1 34 27-61 5-40 (82)
75 PRK03187 tgl transglutaminase; 24.1 99 0.0022 22.4 2.9 23 25-47 165-190 (272)
76 PF08460 SH3_5: Bacterial SH3 22.9 1.5E+02 0.0032 16.4 3.3 35 22-56 27-64 (65)
77 COG2140 Thermophilic glucose-6 22.8 2.3E+02 0.005 19.7 4.4 38 28-65 111-148 (209)
78 PF13621 Cupin_8: Cupin-like d 21.8 64 0.0014 21.6 1.6 20 23-46 210-229 (251)
79 PF01191 RNA_pol_Rpb5_C: RNA p 21.8 72 0.0016 18.4 1.6 16 23-38 46-61 (74)
No 1
>PF14604 SH3_9: Variant SH3 domain; PDB: 2CRE_A 2E5K_A 2CT3_A 2DE0_X 2D8H_A 2DA9_A 2X3X_E 2X3W_D 2KRN_A 2ED0_A ....
Probab=99.73 E-value=7.2e-18 Score=91.09 Aligned_cols=49 Identities=29% Similarity=0.704 Sum_probs=44.1
Q ss_pred EEeccCCCCCCCCCccccCCCEEEEEEcCCCCceEEEcCCCcEEEEcCCceE
Q psy6758 10 VLYDFDYSTKDGKYVRIQEGEKLFLIKKTNKDWWQVIRSSGKPFYVPASYVE 61 (101)
Q Consensus 10 aly~f~~~~~~~~eLs~~~g~~l~vl~~~~~~Ww~~~~~~g~~G~vP~~yv~ 61 (101)
|+|+|.++.++ ||+|++||+|.|+.+.+++||.+++ +|+.|+||++||+
T Consensus 1 Al~~y~~~~~d--ELs~~~Gd~i~v~~~~~~~W~~g~~-~g~~G~~P~~yV~ 49 (49)
T PF14604_consen 1 ALYDYEAQDPD--ELSFKKGDVITVLEKSDDGWWYGRN-TGRTGLFPANYVE 49 (49)
T ss_dssp ESSCBCSSSTT--B-EB-TTEEEEEEEESSTSEEEEEE-TTEEEEEEGGGEE
T ss_pred CCccCCCCCcC--EeeEcCCCEEEEEEeCCCCEEEEEE-CCEEEEECHHhCC
Confidence 78999998887 9999999999999998899999998 8999999999985
No 2
>PF07653 SH3_2: Variant SH3 domain; InterPro: IPR011511 SH3 (src Homology-3) domains are small protein modules containing approximately 50 amino acid residues [, ]. They are found in a great variety of intracellular or membrane-associated proteins [, , ] for example, in a variety of proteins with enzymatic activity, in adaptor proteins that lack catalytic sequences and in cytoskeletal proteins, such as fodrin and yeast actin binding protein ABP-1. The SH3 domain has a characteristic fold which consists of five or six beta-strands arranged as two tightly packed anti-parallel beta sheets. The linker regions may contain short helices []. The surface of the SH3-domain bears a flat, hydrophobic ligand-binding pocket which consists of three shallow grooves defined by conservative aromatic residues in which the ligand adopts an extended left-handed helical arrangement. The ligand binds with low affinity but this may be enhanced by multiple interactions. The region bound by the SH3 domain is in all cases proline-rich and contains PXXP as a core-conserved binding motif. The function of the SH3 domain is not well understood but they may mediate many diverse processes such as increasing local concentration of proteins, altering their subcellular location and mediating the assembly of large multiprotein complexes []. This entry represents a variant of the SH3 domain.; PDB: 1I1J_B 1K0X_A 1HJD_A 2KEA_A 1KJW_A 1JXM_A 1JXO_B 2EBP_A 2DL3_A 2EYX_A ....
Probab=99.62 E-value=1.2e-15 Score=83.98 Aligned_cols=54 Identities=22% Similarity=0.564 Sum_probs=46.3
Q ss_pred EEEEEeccCCCCCCCCCccccCCCEEEEE-EcCCCCceEEEcCCCcEEEEcCCceEec
Q psy6758 7 TLKVLYDFDYSTKDGKYVRIQEGEKLFLI-KKTNKDWWQVIRSSGKPFYVPASYVEVY 63 (101)
Q Consensus 7 ~~~aly~f~~~~~~~~eLs~~~g~~l~vl-~~~~~~Ww~~~~~~g~~G~vP~~yv~~~ 63 (101)
+++|++||.+..++ +|+|++||+|.|+ ++.+++||.++. +|+.|+||++||+++
T Consensus 1 ~~~a~~d~~~~~~~--~Ls~~~Gd~i~v~~~~~~~~ww~~~~-~g~~G~~P~~~v~~~ 55 (55)
T PF07653_consen 1 YYRAIFDYVAEDPD--ELSFKKGDVIEVLGEKDDDGWWLGEN-NGRRGWFPSSYVEEI 55 (55)
T ss_dssp EEEESSSBESSSTT--B-EB-TTEEEEEEEEECSTSEEEEEE-TTEEEEEEGGGEEEH
T ss_pred CEEEeEEECCCCCC--ceEEecCCEEEEEEeecCCCEEEEEE-CCcEEEEcHHHEEEC
Confidence 47899999987666 9999999999999 777789999999 899999999999863
No 3
>PF00018 SH3_1: SH3 domain; InterPro: IPR001452 SH3 (src Homology-3) domains are small protein modules containing approximately 50 amino acid residues [, ]. They are found in a great variety of intracellular or membrane-associated proteins [, , ] for example, in a variety of proteins with enzymatic activity, in adaptor proteins that lack catalytic sequences and in cytoskeletal proteins, such as fodrin and yeast actin binding protein ABP-1. The SH3 domain has a characteristic fold which consists of five or six beta-strands arranged as two tightly packed anti-parallel beta sheets. The linker regions may contain short helices []. The surface of the SH3-domain bears a flat, hydrophobic ligand-binding pocket which consists of three shallow grooves defined by conservative aromatic residues in which the ligand adopts an extended left-handed helical arrangement. The ligand binds with low affinity but this may be enhanced by multiple interactions. The region bound by the SH3 domain is in all cases proline-rich and contains PXXP as a core-conserved binding motif. The function of the SH3 domain is not well understood but they may mediate many diverse processes such as increasing local concentration of proteins, altering their subcellular location and mediating the assembly of large multiprotein complexes []. The crystal structure of the SH3 domain of the cytoskeletal protein spectrin, and the solution structures of SH3 domains of phospholipase C (PLC-y) and phosphatidylinositol 3-kinase p85 alpha-subunit, have been determined [, , ]. In spite of relatively limited sequence similarity, their overall structures are similar. The domains belong to the alpha+beta structural class, with 5 to 8 beta-strands forming 2 tightly-packed, anti-parallel beta-sheets arranged in a barrel-like structure, and intervening loops sometimes forming helices. Conserved aliphatic and aromatic residues form a hydrophobic core (A11, L23, A29, V34, W42, L52 and V59 in PLC-y []) and a hydrophobic pocket on the molecular surface (L12, F13, W53 and P55 in PLC-y). The conserved core is believed to stabilise the fold, while the pocket is thought to serve as a binding site for target proteins. Conserved carboxylic amino acids located in the loops, on the periphery of the pocket (D14 and E22), may be involved in protein-protein interactions via proline-rich regions. The N- and C-termini are packed in close proximity, indicating that they are independent structural modules.; GO: 0005515 protein binding; PDB: 1UHF_A 1W1F_A 1WA7_A 1SEM_A 1KFZ_A 2SEM_B 1K76_A 3SEM_B 1X2Q_A 2J06_B ....
Probab=99.59 E-value=2.6e-15 Score=80.53 Aligned_cols=47 Identities=34% Similarity=0.773 Sum_probs=42.1
Q ss_pred EEEeccCCCCCCCCCccccCCCEEEEEEcCCCCceEEEcCC-CcEEEEcC
Q psy6758 9 KVLYDFDYSTKDGKYVRIQEGEKLFLIKKTNKDWWQVIRSS-GKPFYVPA 57 (101)
Q Consensus 9 ~aly~f~~~~~~~~eLs~~~g~~l~vl~~~~~~Ww~~~~~~-g~~G~vP~ 57 (101)
+|+|+|+++..+ +|+|++||.|.|+++.+.+||.+++.. +++|+||+
T Consensus 1 ~Alydf~~~~~~--eLs~~~Gd~i~v~~~~~~~Ww~~~~~~~~~~G~vP~ 48 (48)
T PF00018_consen 1 RALYDFDAEDPD--ELSFKKGDIIEVLEKSDDGWWKVRNESTGKEGWVPS 48 (48)
T ss_dssp EESSCBETSSTT--BSEB-TTEEEEEEEESSSSEEEEEETTTTEEEEEEG
T ss_pred CCCeeeCCCCCC--EEeEECCCEEEEEEecCCCEEEEEECCCCcEEEeeC
Confidence 699999998777 999999999999999988999999965 69999996
No 4
>KOG2199|consensus
Probab=99.55 E-value=9.7e-16 Score=111.68 Aligned_cols=54 Identities=17% Similarity=0.507 Sum_probs=49.0
Q ss_pred EEEEEeccCCCCCCCCCccccCCCEEEEEEcCCCCceEEEcCCCcEEEEcCCceEec
Q psy6758 7 TLKVLYDFDYSTKDGKYVRIQEGEKLFLIKKTNKDWWQVIRSSGKPFYVPASYVEVY 63 (101)
Q Consensus 7 ~~~aly~f~~~~~~~~eLs~~~g~~l~vl~~~~~~Ww~~~~~~g~~G~vP~~yv~~~ 63 (101)
.|||||||++...+ ||+|++||+|+|++..+.+||+|++ .+..|+||+|||+..
T Consensus 217 kVRALYDFeAaE~n--ELsFkaGdIItVLd~s~~~WWKG~~-~~~~GlFPsnfVT~~ 270 (462)
T KOG2199|consen 217 KVRALYDFEAAEDN--ELSFKAGDIITVLDDSDPNWWKGEN-HRGIGLFPSNFVTAD 270 (462)
T ss_pred hhhhhhcccccCCC--ccceecCcEEEEcccCCcchhcccc-CCcccccchhhhhhh
Confidence 38999999988766 9999999999999999999999997 667899999999854
No 5
>smart00326 SH3 Src homology 3 domains. Src homology 3 (SH3) domains bind to target proteins through sequences containing proline and hydrophobic amino acids. Pro-containing polypeptides may bind to SH3 domains in 2 different binding orientations.
Probab=99.51 E-value=8.9e-14 Score=75.70 Aligned_cols=55 Identities=25% Similarity=0.601 Sum_probs=49.2
Q ss_pred EEEEEEeccCCCCCCCCCccccCCCEEEEEEcCCCCceEEEcCCCcEEEEcCCceEe
Q psy6758 6 VTLKVLYDFDYSTKDGKYVRIQEGEKLFLIKKTNKDWWQVIRSSGKPFYVPASYVEV 62 (101)
Q Consensus 6 ~~~~aly~f~~~~~~~~eLs~~~g~~l~vl~~~~~~Ww~~~~~~g~~G~vP~~yv~~ 62 (101)
..++|+|+|.+...+ +|+|.+||.+.++...+.+||.+++..++.|+||++|++.
T Consensus 3 ~~~~a~~~~~~~~~~--~l~~~~Gd~v~v~~~~~~~w~~~~~~~~~~G~vP~~~v~~ 57 (58)
T smart00326 3 PQVRALYDYTAQDPD--ELSFKKGDIITVLEKSDDGWWKGRLGRGKEGLFPSNYVEE 57 (58)
T ss_pred cEEEEeeeeCCCCCC--CCCCCCCCEEEEEEcCCCCeEEEEeCCCCEEEEchHHEEE
Confidence 467999999987666 9999999999999998889999998668999999999975
No 6
>cd00174 SH3 Src homology 3 domains; SH3 domains bind to proline-rich ligands with moderate affinity and selectivity, preferentially to PxxP motifs; they play a role in the regulation of enzymes by intramolecular interactions, changing the subcellular localization of signal pathway components and mediate multiprotein complex assemblies.
Probab=99.49 E-value=1.4e-13 Score=74.13 Aligned_cols=52 Identities=29% Similarity=0.662 Sum_probs=46.9
Q ss_pred EEEEeccCCCCCCCCCccccCCCEEEEEEcCCCCceEEEcCCCcEEEEcCCceE
Q psy6758 8 LKVLYDFDYSTKDGKYVRIQEGEKLFLIKKTNKDWWQVIRSSGKPFYVPASYVE 61 (101)
Q Consensus 8 ~~aly~f~~~~~~~~eLs~~~g~~l~vl~~~~~~Ww~~~~~~g~~G~vP~~yv~ 61 (101)
++|+|+|.+..++ +|+|.+||.+.++...+.+||.+++..++.|+||.+|++
T Consensus 2 ~~a~~~~~~~~~~--~l~~~~Gd~v~v~~~~~~~w~~~~~~~~~~G~vP~~~v~ 53 (54)
T cd00174 2 VRALYDYDARDPD--ELSFKKGDIIEVLEKSDDGWWEGRLLGGKRGLFPSNYVE 53 (54)
T ss_pred EEEEEeeCCCCCC--CCCCCCCCEEEEEEcCCCCeEEEEECCCCEEEEccccCc
Confidence 6899999988776 999999999999999778999999866699999999985
No 7
>KOG1118|consensus
Probab=99.47 E-value=2.4e-14 Score=101.68 Aligned_cols=61 Identities=25% Similarity=0.534 Sum_probs=54.7
Q ss_pred CcEEEEEEeccCCCCCCCCCccccCCCEEEEEEcCCCCceEEEcCCCcEEEEcCCceEeccccC
Q psy6758 4 QDVTLKVLYDFDYSTKDGKYVRIQEGEKLFLIKKTNKDWWQVIRSSGKPFYVPASYVEVYKKLS 67 (101)
Q Consensus 4 ~~~~~~aly~f~~~~~~~~eLs~~~g~~l~vl~~~~~~Ww~~~~~~g~~G~vP~~yv~~~~~~~ 67 (101)
...+|+|+|||++.+.+ ||.|++||+|.|++..|++||.|+. .|..|+||.|||+.+.++.
T Consensus 305 ~~p~cralYdFepenEg--EL~fkeGDlI~l~~QIdenWyeG~~-~g~sG~FPvnYv~vlvpl~ 365 (366)
T KOG1118|consen 305 DQPCCRALYDFEPENEG--ELDFKEGDLITLTNQIDENWYEGEK-HGESGMFPVNYVEVLVPLP 365 (366)
T ss_pred cchhheeeeccCCCCCC--ccCcccCceeeehhhcCcchhhhee-cCccCccccceeEEeccCC
Confidence 34579999999998777 9999999999999999999999997 8889999999999887643
No 8
>KOG2070|consensus
Probab=99.47 E-value=8e-14 Score=104.19 Aligned_cols=58 Identities=19% Similarity=0.513 Sum_probs=53.1
Q ss_pred CcEEEEEEeccCCCCCCCCCccccCCCEEEEEEcCCCCceEEEcCCCcEEEEcCCceEecc
Q psy6758 4 QDVTLKVLYDFDYSTKDGKYVRIQEGEKLFLIKKTNKDWWQVIRSSGKPFYVPASYVEVYK 64 (101)
Q Consensus 4 ~~~~~~aly~f~~~~~~~~eLs~~~g~~l~vl~~~~~~Ww~~~~~~g~~G~vP~~yv~~~~ 64 (101)
.+..|+|.|.|.++..| ||+|.+||+|+|.+..+.+||.|.. +|+.||||+|||.++.
T Consensus 16 ~pLvvrAkf~F~gsNnD--ELsf~KgDvItVTq~eeGGWWEGTl-ng~TGWFPsnYV~eik 73 (661)
T KOG2070|consen 16 NPLVVRAKFNFQGSNND--ELSFSKGDVITVTQVEEGGWWEGTL-NGRTGWFPSNYVREIK 73 (661)
T ss_pred CceEEEEEeecccCCCc--eeccccCCEEEEEEeccCcceeccc-cCccCccchHHHHHHh
Confidence 35578999999988777 9999999999999999999999986 9999999999999887
No 9
>KOG1029|consensus
Probab=99.43 E-value=7.1e-14 Score=108.67 Aligned_cols=57 Identities=23% Similarity=0.587 Sum_probs=51.9
Q ss_pred EEEEEEeccCCCCCCCCCccccCCCEEEEEEcCCCCceEEEcCCCcEEEEcCCceEeccc
Q psy6758 6 VTLKVLYDFDYSTKDGKYVRIQEGEKLFLIKKTNKDWWQVIRSSGKPFYVPASYVEVYKK 65 (101)
Q Consensus 6 ~~~~aly~f~~~~~~~~eLs~~~g~~l~vl~~~~~~Ww~~~~~~g~~G~vP~~yv~~~~~ 65 (101)
+.|.|+|||.++.+| ||+|.+||+|.|+++++++||.|.. +|..|+||+|||....+
T Consensus 1054 ~qviamYdY~AqndD--ELsF~kgdiI~VlnkdepeWW~Ge~-ng~sGLFPSNYV~k~tt 1110 (1118)
T KOG1029|consen 1054 CQVIAMYDYEAQNDD--ELSFKKGDIINVLNKDEPEWWSGER-NGKSGLFPSNYVQKQTT 1110 (1118)
T ss_pred ceeEEeeccccCCcc--cccccCCCEEEecCCCChhhhcccc-cCccccCcccccccccc
Confidence 457899999999888 9999999999999999999999997 89999999999965443
No 10
>KOG4226|consensus
Probab=99.40 E-value=5.7e-13 Score=93.80 Aligned_cols=57 Identities=30% Similarity=0.645 Sum_probs=51.2
Q ss_pred EEEEEeccCCCCCCCCCccccCCCEEEEEEcC--CCCceEEEcCCCcEEEEcCCceEeccc
Q psy6758 7 TLKVLYDFDYSTKDGKYVRIQEGEKLFLIKKT--NKDWWQVIRSSGKPFYVPASYVEVYKK 65 (101)
Q Consensus 7 ~~~aly~f~~~~~~~~eLs~~~g~~l~vl~~~--~~~Ww~~~~~~g~~G~vP~~yv~~~~~ 65 (101)
.|.|||+|+...+. ||+|.+||.+.|+++. |++||++++..|..|+||.|||.++..
T Consensus 193 vVvaLYsFsssnde--ELsFeKGerleivd~Pe~DPdWwkarn~~G~vGLVPrNYv~vl~d 251 (379)
T KOG4226|consen 193 VVVALYSFSSSNDE--ELSFEKGERLEIVDKPENDPDWWKARNARGQVGLVPRNYVVVLSD 251 (379)
T ss_pred EEEEEecccCCChh--hcccccCceeEeccCCCCCchHHhhcccCCccceeecceEEEecc
Confidence 47899999988777 9999999999999974 779999999999999999999998653
No 11
>KOG4792|consensus
Probab=99.28 E-value=9.1e-13 Score=90.60 Aligned_cols=62 Identities=29% Similarity=0.603 Sum_probs=54.5
Q ss_pred CcEEEEEEeccCCCCCCCCCccccCCCEEEEEEcCCCCceEEEcCCCcEEEEcCCceEeccccC
Q psy6758 4 QDVTLKVLYDFDYSTKDGKYVRIQEGEKLFLIKKTNKDWWQVIRSSGKPFYVPASYVEVYKKLS 67 (101)
Q Consensus 4 ~~~~~~aly~f~~~~~~~~eLs~~~g~~l~vl~~~~~~Ww~~~~~~g~~G~vP~~yv~~~~~~~ 67 (101)
...+++++|||.+...+ +|.|++|+++.|+++....||.+++..|+.|+||.+||+.....+
T Consensus 123 ~~~~vr~~fdF~G~dee--DLPFkkGeiL~I~~K~eeqWW~Arns~Gk~GmIPvpYVe~~~~~~ 184 (293)
T KOG4792|consen 123 EAEYVRALFDFNGNDEE--DLPFKKGEILRIRDKPEEQWWNARNSEGKRGMIPVPYVEKYRPAS 184 (293)
T ss_pred hhhheeeeeccCCCccc--cCCcccCcEEEEecCcHHHhhhhhccCCcccceechHHHhhhhhh
Confidence 45678999999876555 999999999999999989999999999999999999999866544
No 12
>KOG0162|consensus
Probab=99.26 E-value=3.2e-12 Score=99.35 Aligned_cols=55 Identities=24% Similarity=0.520 Sum_probs=50.2
Q ss_pred EEEEEEeccCCCCCCCCCccccCCCEEEEEEcCCCCceEEEcCCCcEEEEcCCceEec
Q psy6758 6 VTLKVLYDFDYSTKDGKYVRIQEGEKLFLIKKTNKDWWQVIRSSGKPFYVPASYVEVY 63 (101)
Q Consensus 6 ~~~~aly~f~~~~~~~~eLs~~~g~~l~vl~~~~~~Ww~~~~~~g~~G~vP~~yv~~~ 63 (101)
..|.|+|+|.++..+ ||+|++||+|.|+.++.++||.++. +|++||||.+||+++
T Consensus 1052 p~~~A~Y~y~gq~~d--Els~~~~diIei~~edpSGWw~gk~-~~keG~~P~~Yv~~~ 1106 (1106)
T KOG0162|consen 1052 PVCEALYDYPGQDVD--ELSFKKGDIIEIMREDPSGWWLGKL-NGKEGLFPGNYVTEY 1106 (1106)
T ss_pred cceeeeccCCCCCcc--cccccCCCEEEEeccCCCcchhhcc-CCccccccccccccC
Confidence 468999999998666 9999999999999999999999995 899999999999753
No 13
>KOG4225|consensus
Probab=99.25 E-value=6.2e-12 Score=92.84 Aligned_cols=55 Identities=25% Similarity=0.629 Sum_probs=51.5
Q ss_pred EEEEeccCCCCCCCCCccccCCCEEEEEEcCCCCceEEEcCCCcEEEEcCCceEeccc
Q psy6758 8 LKVLYDFDYSTKDGKYVRIQEGEKLFLIKKTNKDWWQVIRSSGKPFYVPASYVEVYKK 65 (101)
Q Consensus 8 ~~aly~f~~~~~~~~eLs~~~g~~l~vl~~~~~~Ww~~~~~~g~~G~vP~~yv~~~~~ 65 (101)
++|+|+|.++... ||+|.+||+|.|+++.|.+|+.|+. +|+.|+||+|||+.+..
T Consensus 233 aralf~F~~qt~k--EL~~~kGDIVyI~rkvD~nWyeGEh-hGr~GifP~sYvE~~~~ 287 (489)
T KOG4225|consen 233 ARALFDFEAQTPK--ELPFNKGDIVYILRKVDQNWYEGEH-HGRVGIFPASYVEILTP 287 (489)
T ss_pred hhheeccccCCcc--ccccCCCCEEEEEeeccCceeeeee-cceecceechheeecCc
Confidence 6999999999777 9999999999999999999999998 99999999999998765
No 14
>KOG2856|consensus
Probab=99.15 E-value=8.3e-12 Score=90.75 Aligned_cols=55 Identities=27% Similarity=0.508 Sum_probs=49.1
Q ss_pred EEEEEEeccCCCCCCCCCccccCCCEEEEEEcCCC-CceEEEcCCCcEEEEcCCceEe
Q psy6758 6 VTLKVLYDFDYSTKDGKYVRIQEGEKLFLIKKTNK-DWWQVIRSSGKPFYVPASYVEV 62 (101)
Q Consensus 6 ~~~~aly~f~~~~~~~~eLs~~~g~~l~vl~~~~~-~Ww~~~~~~g~~G~vP~~yv~~ 62 (101)
+.|+|||||.++..+ ||+|++||.|..+...|. +|.+|+...|+.|++|+|||+-
T Consensus 415 v~vraLYDY~gqE~D--ElsfkaGd~l~kl~eeDeqGWC~Grl~~G~vGLyPAnYVe~ 470 (472)
T KOG2856|consen 415 VRVRALYDYAGQEGD--ELSFKAGDELEKLEEEDEQGWCKGRLDSGRVGLYPANYVEC 470 (472)
T ss_pred eeEEeeeccCccccc--chhhccccHhhhcCCccccccccccccCCcccccchhhhhc
Confidence 568999999998888 999999999998887654 8999998779999999999974
No 15
>KOG4226|consensus
Probab=99.13 E-value=7.4e-11 Score=83.25 Aligned_cols=55 Identities=18% Similarity=0.480 Sum_probs=49.5
Q ss_pred EEEEeccCCCCCCCCCccccCCCEEEEEEcCCCCceEEEcCCCcEEEEcCCceEeccc
Q psy6758 8 LKVLYDFDYSTKDGKYVRIQEGEKLFLIKKTNKDWWQVIRSSGKPFYVPASYVEVYKK 65 (101)
Q Consensus 8 ~~aly~f~~~~~~~~eLs~~~g~~l~vl~~~~~~Ww~~~~~~g~~G~vP~~yv~~~~~ 65 (101)
+.+.|.|.+...+ ||++.+|..+.|+++..++||+|.. +|+.||||+|||++...
T Consensus 110 AvVKf~Y~a~~eD--ELsLtKGtrv~vmEKssDGWWrG~~-ng~VGWFPSNYv~E~~d 164 (379)
T KOG4226|consen 110 AVVKFNYVAERED--ELSLTKGTRVTVMEKSSDGWWRGSY-NGQVGWFPSNYVTEEVD 164 (379)
T ss_pred eEEEEeecccccc--ccccccCcEEEEEEeccCcceeccc-CCeeccccccceehhcc
Confidence 5667889888778 9999999999999999999999987 89999999999997544
No 16
>KOG0515|consensus
Probab=99.09 E-value=4.8e-11 Score=90.31 Aligned_cols=55 Identities=27% Similarity=0.727 Sum_probs=48.5
Q ss_pred EEEEeccCCCCCCCCCccccCCCEEEEEEcCCC---CceEEEcCCCcEEEEcCCceEeccc
Q psy6758 8 LKVLYDFDYSTKDGKYVRIQEGEKLFLIKKTNK---DWWQVIRSSGKPFYVPASYVEVYKK 65 (101)
Q Consensus 8 ~~aly~f~~~~~~~~eLs~~~g~~l~vl~~~~~---~Ww~~~~~~g~~G~vP~~yv~~~~~ 65 (101)
+-|||||+++..| ||+|.+||.++||++++. +||+++. +|++||||.||+-.++.
T Consensus 686 vYAlwdYeaqf~D--ELsf~eGd~lTvirr~d~~eteWWwa~l-ng~eGyVPRnylgLyPr 743 (752)
T KOG0515|consen 686 VYALWDYEAQFED--ELSFDEGDELTVIRRDDEVETEWWWARL-NGEEGYVPRNYLGLYPR 743 (752)
T ss_pred eEEeecccccccc--cccccCCceeEEEecCCcchhhhhhHhh-cCcccccchhhhhcCcc
Confidence 5699999999888 999999999999998643 7999995 99999999999977654
No 17
>KOG1264|consensus
Probab=99.08 E-value=3.9e-11 Score=94.30 Aligned_cols=61 Identities=25% Similarity=0.495 Sum_probs=54.7
Q ss_pred CCcEEEEEEeccCCCCCCCCCccccCCCEEEEEEcCCCCceEEEcCCCcEEEEcCCceEeccc
Q psy6758 3 LQDVTLKVLYDFDYSTKDGKYVRIQEGEKLFLIKKTNKDWWQVIRSSGKPFYVPASYVEVYKK 65 (101)
Q Consensus 3 ~~~~~~~aly~f~~~~~~~~eLs~~~g~~l~vl~~~~~~Ww~~~~~~g~~G~vP~~yv~~~~~ 65 (101)
+.++.|+|||+|.++.+| ||+|.+|-+|+.+.++..+||+|...+...+|||+|||+++.+
T Consensus 772 ~~~vt~kAL~~Yka~r~D--ELSFpk~aiItnv~keeg~wWrGdYGg~iq~wfPsnyVeei~~ 832 (1267)
T KOG1264|consen 772 MPQVTVKALYDYKAKRSD--ELSFPKGAIITNVSKEEGGWWRGDYGGRIQQWFPSNYVEEIST 832 (1267)
T ss_pred ccchhhhhhhccccCCcc--cccccccceeEeeeccCCceeecccccceeeeccHHHhhhhcc
Confidence 556789999999999888 9999999999999999889999998445789999999998865
No 18
>KOG2996|consensus
Probab=99.03 E-value=1.8e-10 Score=88.03 Aligned_cols=54 Identities=24% Similarity=0.512 Sum_probs=44.5
Q ss_pred EEEEeccCCCCCCCCCccccCCCEEEEEEcC--CCCceEEEcCCCcEEEEcCCceEecc
Q psy6758 8 LKVLYDFDYSTKDGKYVRIQEGEKLFLIKKT--NKDWWQVIRSSGKPFYVPASYVEVYK 64 (101)
Q Consensus 8 ~~aly~f~~~~~~~~eLs~~~g~~l~vl~~~--~~~Ww~~~~~~g~~G~vP~~yv~~~~ 64 (101)
++|-|||-+... .+|||++||++.|+++. |.+||+|+. +|+.||||++||++..
T Consensus 808 AvarYdf~ard~--~eLSlk~GDvV~i~~k~g~d~GWWkGev-ngrvGwFPstYVee~~ 863 (865)
T KOG2996|consen 808 AVARYDFCARDM--RELSLKEGDVVKIYDKVGEDQGWWKGEV-NGRVGWFPSTYVEEDD 863 (865)
T ss_pred eeeccccCCCch--hhcccccCCEEEEehhccccCceeccee-cCcccccccccccccC
Confidence 455666765544 49999999999999985 568999997 9999999999998753
No 19
>KOG3875|consensus
Probab=98.97 E-value=5e-11 Score=85.03 Aligned_cols=58 Identities=21% Similarity=0.406 Sum_probs=48.8
Q ss_pred EEEEEEeccCCCCCCCCCccccCCCEEEEEEcC-----CCCceEEEcC-CCcEEEEcCCceEeccc
Q psy6758 6 VTLKVLYDFDYSTKDGKYVRIQEGEKLFLIKKT-----NKDWWQVIRS-SGKPFYVPASYVEVYKK 65 (101)
Q Consensus 6 ~~~~aly~f~~~~~~~~eLs~~~g~~l~vl~~~-----~~~Ww~~~~~-~g~~G~vP~~yv~~~~~ 65 (101)
.+++|+|||.+..+. ||+|++||.+.|..++ +++||..+.. .+..|+||.|||+.+..
T Consensus 269 ~~arA~YdF~a~np~--ElSlk~Gdml~ia~K~dq~~~~~~gW~lat~dg~~tG~iP~NYvkIi~r 332 (362)
T KOG3875|consen 269 EFARALYDFVARNPV--ELSLKKGDMLAIASKEDQQGVRCEGWLLATRDGGTTGLIPINYVKIIGR 332 (362)
T ss_pred HHHHHHhhhhcCCHH--HhhhhcCchhhcccccccCCCCCcceeeeeccCCeeeeeehhhhhhhhc
Confidence 468999999887664 9999999999998775 3469999886 45789999999998765
No 20
>KOG1029|consensus
Probab=98.93 E-value=8.8e-10 Score=86.34 Aligned_cols=59 Identities=22% Similarity=0.482 Sum_probs=49.4
Q ss_pred EEEEEEeccCCCCCCCCCccccCCCEEEEEEcC--CCCceEEEcCCCcEEEEcCCceEeccccC
Q psy6758 6 VTLKVLYDFDYSTKDGKYVRIQEGEKLFLIKKT--NKDWWQVIRSSGKPFYVPASYVEVYKKLS 67 (101)
Q Consensus 6 ~~~~aly~f~~~~~~~~eLs~~~g~~l~vl~~~--~~~Ww~~~~~~g~~G~vP~~yv~~~~~~~ 67 (101)
+.++|||.|++.+.+ |++|.+||+|.|-.+. .++|.-|.. +|+.||||.|||+.++..+
T Consensus 694 vkyrAly~FeaRs~d--Eisf~pGDII~V~esq~aEPGWlaGel-~gktGWFPenyvEki~~~e 754 (1118)
T KOG1029|consen 694 VKYRALYPFEARSHD--EISFEPGDIIIVFESQAAEPGWLAGEL-RGKTGWFPENYVEKIPAVE 754 (1118)
T ss_pred EEEeeecccccCCcc--cccccCCCEEEEehhccCCccccccee-ccccCcCcHHHHhhcccCC
Confidence 468999999999988 9999999999887664 446666654 8999999999999877554
No 21
>KOG4348|consensus
Probab=98.92 E-value=3.3e-10 Score=84.20 Aligned_cols=61 Identities=20% Similarity=0.401 Sum_probs=54.7
Q ss_pred EEEEEEeccCCCCCCCCCccccCCCEEEEEEcCCCCceEEEcCCCcEEEEcCCceEeccccCCC
Q psy6758 6 VTLKVLYDFDYSTKDGKYVRIQEGEKLFLIKKTNKDWWQVIRSSGKPFYVPASYVEVYKKLSNG 69 (101)
Q Consensus 6 ~~~~aly~f~~~~~~~~eLs~~~g~~l~vl~~~~~~Ww~~~~~~g~~G~vP~~yv~~~~~~~~~ 69 (101)
..|++.|.|.++.++ ||.|+.||+|.|+....++||.|.. +|..|+||+|||.+++..+..
T Consensus 101 r~c~v~f~Y~pqndD--ELelkVGDiIeli~eVEeGWw~G~L-ngk~GmFPsNFVkel~~~sde 161 (627)
T KOG4348|consen 101 RICVVTFAYSPQNDD--ELELKVGDIIELISEVEEGWWKGKL-NGKVGMFPSNFVKELPTPSDE 161 (627)
T ss_pred eeEEEEEeecCCCCc--eeeeeeccHHHhhhHhhhhhhhcee-cCcccccchhhceecCCCCcc
Confidence 358999999999888 9999999999999998899999986 899999999999998765543
No 22
>KOG4348|consensus
Probab=98.91 E-value=8.4e-10 Score=82.06 Aligned_cols=55 Identities=27% Similarity=0.573 Sum_probs=50.2
Q ss_pred EEEEEeccCCCCCCCCCccccCCCEEEEEEcC--CCCceEEEcCCCcEEEEcCCceEecc
Q psy6758 7 TLKVLYDFDYSTKDGKYVRIQEGEKLFLIKKT--NKDWWQVIRSSGKPFYVPASYVEVYK 64 (101)
Q Consensus 7 ~~~aly~f~~~~~~~~eLs~~~g~~l~vl~~~--~~~Ww~~~~~~g~~G~vP~~yv~~~~ 64 (101)
||+++|.|+++.++ ||.|++||++.+|.++ +-+||.|+. +|+.|+||-|||+.+.
T Consensus 263 ycrv~F~Ye~qndD--ELt~KEgdil~lItK~cgdaGWweGEL-nGk~GvFPDNFv~lv~ 319 (627)
T KOG4348|consen 263 YCRVKFVYEPQNDD--ELTLKEGDILILITKNCGDAGWWEGEL-NGKKGVFPDNFVELVQ 319 (627)
T ss_pred heeeeeeecCCCcc--ceeeccccEEEEecccccccceeeeee-cCccccCCchhhhhcC
Confidence 79999999999888 9999999999999986 558999996 9999999999998765
No 23
>KOG2546|consensus
Probab=98.83 E-value=1.8e-09 Score=79.77 Aligned_cols=54 Identities=28% Similarity=0.632 Sum_probs=49.1
Q ss_pred EEEEeccCCCCCCCCCccccCCCEEEEEEcCCCCceEEEcCCCcEEEEcCCceEecc
Q psy6758 8 LKVLYDFDYSTKDGKYVRIQEGEKLFLIKKTNKDWWQVIRSSGKPFYVPASYVEVYK 64 (101)
Q Consensus 8 ~~aly~f~~~~~~~~eLs~~~g~~l~vl~~~~~~Ww~~~~~~g~~G~vP~~yv~~~~ 64 (101)
++++|||.+...+ ||+|.+|-+|+|+++.|++||.+-. +|..|+||.|||+.+.
T Consensus 426 Vv~iydy~~~Kdd--eLsf~E~ailyv~kknddgw~EgV~-~~VTglFpgnyve~~~ 479 (483)
T KOG2546|consen 426 VVAIYDYTADKDD--ELSFAEGAILYVLKKNDDGWYEGVQ-DGVTGLFPGNYVEPLK 479 (483)
T ss_pred HHhhccccccccc--ccccccccEEEEEEecCCcchhhee-cCcceeccCccccccc
Confidence 6789999988777 9999999999999999999999976 8889999999998764
No 24
>KOG3655|consensus
Probab=98.83 E-value=9.7e-10 Score=81.98 Aligned_cols=56 Identities=25% Similarity=0.547 Sum_probs=50.0
Q ss_pred EEEEEEeccCCCCCCCCCccccCCCEEEEEEcCCCCceEEEcCCCcEEEEcCCceEec
Q psy6758 6 VTLKVLYDFDYSTKDGKYVRIQEGEKLFLIKKTNKDWWQVIRSSGKPFYVPASYVEVY 63 (101)
Q Consensus 6 ~~~~aly~f~~~~~~~~eLs~~~g~~l~vl~~~~~~Ww~~~~~~g~~G~vP~~yv~~~ 63 (101)
..++|+|||++-.+. |++|.++++|.+|+..+.+||.+.-.+|..|+||+|||+.+
T Consensus 428 q~A~A~~dyqAAddt--Eisf~p~d~it~Id~vdegww~g~~pdG~~glfPaNyV~li 483 (484)
T KOG3655|consen 428 QTARALYDYQAADDT--EISFDPPDAITLIDQVDEGWWTGQGPDGEVGLFPANYVELI 483 (484)
T ss_pred CCccccccccccCCc--ccccCCccccccccccCCccccccCCCCCcCcccccccccC
Confidence 357899999876555 99999999999999999999999988899999999999764
No 25
>KOG4225|consensus
Probab=98.81 E-value=4.1e-09 Score=78.15 Aligned_cols=56 Identities=21% Similarity=0.479 Sum_probs=49.4
Q ss_pred cEEEEEEeccCCCCCCCCCccccCCCEEEEEEcCCCCceEEEc-CCCcEEEEcCCceEe
Q psy6758 5 DVTLKVLYDFDYSTKDGKYVRIQEGEKLFLIKKTNKDWWQVIR-SSGKPFYVPASYVEV 62 (101)
Q Consensus 5 ~~~~~aly~f~~~~~~~~eLs~~~g~~l~vl~~~~~~Ww~~~~-~~g~~G~vP~~yv~~ 62 (101)
.+-++|||.|.++..+ ||-|+.||+|.|+++-|++|.-|.. ..|.-|.||.|||+.
T Consensus 432 ~l~yrAly~Y~pqned--eLEl~egDii~VmeKcddgWfvGts~rtg~fGtFPgnyV~~ 488 (489)
T KOG4225|consen 432 PLKYRALYSYRPQNED--ELELREGDIIDVMEKCDDGWFVGTSRRTGKFGTFPGNYVKR 488 (489)
T ss_pred cccceeccccCCCCch--hheeccCCEEeeeecccCcceeccceecccccccCcccccc
Confidence 3347999999999888 9999999999999999999999844 368899999999974
No 26
>KOG1843|consensus
Probab=98.79 E-value=3.8e-09 Score=77.84 Aligned_cols=54 Identities=28% Similarity=0.543 Sum_probs=47.5
Q ss_pred EEEEEEeccCCCCCCCCCccccCCCEEEEEEcCCC--CceEEEcCCCcEEEEcCCceEe
Q psy6758 6 VTLKVLYDFDYSTKDGKYVRIQEGEKLFLIKKTNK--DWWQVIRSSGKPFYVPASYVEV 62 (101)
Q Consensus 6 ~~~~aly~f~~~~~~~~eLs~~~g~~l~vl~~~~~--~Ww~~~~~~g~~G~vP~~yv~~ 62 (101)
..+.|+|+|.....+ +|+|++||+|+++++.+. +||.++. ++.+|+||+|||+.
T Consensus 417 n~a~a~ysfage~~G--Dl~f~kgDii~il~ks~s~~dwwtgr~-~~~egifPanyv~~ 472 (473)
T KOG1843|consen 417 NIATALYSFAGEQPG--DLSFQKGDIITILKKSDSANDWWTGRG-NGYEGIFPANYVSL 472 (473)
T ss_pred ceeeeeehhccCCCC--CcccccCceEEEecCCcchhhHHHhhc-cccccccccceecc
Confidence 368999999887666 999999999999998754 7999987 89999999999974
No 27
>KOG4278|consensus
Probab=98.70 E-value=1.4e-08 Score=79.22 Aligned_cols=57 Identities=30% Similarity=0.550 Sum_probs=48.7
Q ss_pred EEEEEeccCCCCCCCCCccccCCCEEEEEEcC-CCCceEEEcCCCcEEEEcCCceEecccc
Q psy6758 7 TLKVLYDFDYSTKDGKYVRIQEGEKLFLIKKT-NKDWWQVIRSSGKPFYVPASYVEVYKKL 66 (101)
Q Consensus 7 ~~~aly~f~~~~~~~~eLs~~~g~~l~vl~~~-~~~Ww~~~~~~g~~G~vP~~yv~~~~~~ 66 (101)
..+|||||.+.+++ .|++.+||.+.|+.-. +.+|..++..+|+ ||||+||+..+...
T Consensus 92 LFVALYDFvasGdn--tLSitKGeklRvLGYN~NgEWcEartKNGq-GWVPSNyItPvNSL 149 (1157)
T KOG4278|consen 92 LFVALYDFVASGDN--TLSITKGEKLRVLGYNKNGEWCEARTKNGQ-GWVPSNYITPVNSL 149 (1157)
T ss_pred eeEeeeeeeccccc--eeeeecCceEEEeeecCCCcceeecccCCC-ccccccccccccch
Confidence 56899999998777 9999999999999865 6689999986666 99999999876543
No 28
>KOG3601|consensus
Probab=98.65 E-value=1.5e-08 Score=68.99 Aligned_cols=56 Identities=21% Similarity=0.466 Sum_probs=49.7
Q ss_pred cEEEEEEeccCCCCCCCCCccccCCCEEEEEEcCCCCceEEEcCCCcEEEEcCCceEec
Q psy6758 5 DVTLKVLYDFDYSTKDGKYVRIQEGEKLFLIKKTNKDWWQVIRSSGKPFYVPASYVEVY 63 (101)
Q Consensus 5 ~~~~~aly~f~~~~~~~~eLs~~~g~~l~vl~~~~~~Ww~~~~~~g~~G~vP~~yv~~~ 63 (101)
..++.|+|+|.+..++ +|.|++|+.+.|++..+..||.|.. .|+.|+||++|+...
T Consensus 163 ~~yqQa~~df~~~pp~--ql~f~~gq~~~v~~~ss~~ww~Gs~-lg~agiFpagyv~p~ 218 (222)
T KOG3601|consen 163 NYYQQALYDFQPQPPG--QLAFRRGQQIQVLDSSSPFWWFGSK-LGRAGIFPAGYVAPS 218 (222)
T ss_pred chhhhhcCCCCCCCch--hhccccCCcceeecCCCcchhhccc-cCceeeecCcccccc
Confidence 3467999999988766 9999999999999999999999987 789999999999753
No 29
>KOG0197|consensus
Probab=98.53 E-value=3.5e-08 Score=74.29 Aligned_cols=56 Identities=30% Similarity=0.657 Sum_probs=48.8
Q ss_pred EEEEEEeccCCCCCCCCCccccCCCE-EEEEEcCCCCceEEEcC-CCcEEEEcCCceEec
Q psy6758 6 VTLKVLYDFDYSTKDGKYVRIQEGEK-LFLIKKTNKDWWQVIRS-SGKPFYVPASYVEVY 63 (101)
Q Consensus 6 ~~~~aly~f~~~~~~~~eLs~~~g~~-l~vl~~~~~~Ww~~~~~-~g~~G~vP~~yv~~~ 63 (101)
..+.|+|+|.+..+. +|+|.+|+. ..+++..+..||+++.. .+.+|++|+|||...
T Consensus 12 ~~~valyd~~s~~~~--dLsf~~Gd~~~~~~~~~~~~Ww~ar~~~~~~~g~ip~N~v~~~ 69 (468)
T KOG0197|consen 12 TIVVALYDYASRTPE--DLSFRKGDVVLILLETTNGDWWRARSLQLGQEGYIPSNYVARN 69 (468)
T ss_pred ceEEEeccccCCCcc--ccccccCceEEEeeccCChhHHHHHHhhcCCCCcCcCceeecc
Confidence 368999999988766 999999999 78888888899998875 678999999999964
No 30
>KOG1702|consensus
Probab=98.45 E-value=1.6e-07 Score=64.06 Aligned_cols=55 Identities=22% Similarity=0.463 Sum_probs=47.4
Q ss_pred EEEEEEeccCCCCCCCCCccccCCCEEEEEEcCCCCceEEEc-CCCcEEEEcCCceEe
Q psy6758 6 VTLKVLYDFDYSTKDGKYVRIQEGEKLFLIKKTNKDWWQVIR-SSGKPFYVPASYVEV 62 (101)
Q Consensus 6 ~~~~aly~f~~~~~~~~eLs~~~g~~l~vl~~~~~~Ww~~~~-~~g~~G~vP~~yv~~ 62 (101)
-..+|+|||.++..+ +++|.-||-|.-+...+++|..+.. ..|..|..|+||++.
T Consensus 208 ktyra~ydysaqded--evsF~dgd~ivnvq~iddGWmygtv~rtg~tGmlpaNyie~ 263 (264)
T KOG1702|consen 208 KTYRAFYDYSAQDED--EVSFVDGDYIVNVQSIDDGWMYGTVVRTGWTGMLPANYIEF 263 (264)
T ss_pred ccchhhccCcccCcc--eeEEecCCeEEEEEeccCCceeeEEEeccccCCCchhheee
Confidence 457899999888666 9999999999989988888988765 467899999999975
No 31
>KOG3557|consensus
Probab=98.42 E-value=6.8e-08 Score=74.56 Aligned_cols=63 Identities=25% Similarity=0.544 Sum_probs=53.4
Q ss_pred CcEEEEEEeccCCCCCCCCCccccCCCEEEEEEcCCCCceEEEcCCCcEEEEcCCceEeccccCCC
Q psy6758 4 QDVTLKVLYDFDYSTKDGKYVRIQEGEKLFLIKKTNKDWWQVIRSSGKPFYVPASYVEVYKKLSNG 69 (101)
Q Consensus 4 ~~~~~~aly~f~~~~~~~~eLs~~~g~~l~vl~~~~~~Ww~~~~~~g~~G~vP~~yv~~~~~~~~~ 69 (101)
+..+++++|||.+.... ||++.+||++.|+... ..||++++..|+.||||+|.+..+.+....
T Consensus 499 ~~k~~~~~Ydf~arNs~--ELsV~k~E~LEvl~d~-R~WW~~kn~~G~~GyvP~nIL~~~~~~~~~ 561 (721)
T KOG3557|consen 499 GKKWVLVLYDFQARNSS--ELSVKKGEVLEVLDDG-RKWWKVKNGHGRAGYVPSNILAPLQPEHTG 561 (721)
T ss_pred cceeeeeehhhhcccch--hhhhhhhhhhhhhhcc-ccceeccCccCCCCCcchhhhccCCCcccc
Confidence 44578999999988776 9999999999999864 579999998899999999999887664444
No 32
>KOG0609|consensus
Probab=98.25 E-value=3.1e-07 Score=69.80 Aligned_cols=58 Identities=24% Similarity=0.534 Sum_probs=47.7
Q ss_pred EEEEEEeccCCCCCC-----CCCccccCCCEEEEEEcCCCCceEEEcCC----CcEEEEcCCceEec
Q psy6758 6 VTLKVLYDFDYSTKD-----GKYVRIQEGEKLFLIKKTNKDWWQVIRSS----GKPFYVPASYVEVY 63 (101)
Q Consensus 6 ~~~~aly~f~~~~~~-----~~eLs~~~g~~l~vl~~~~~~Ww~~~~~~----g~~G~vP~~yv~~~ 63 (101)
.+++|+|||++..++ ...|+|++||++.|++++|..||+++... +..|++|+....+.
T Consensus 215 ~~vra~FdYdP~~D~~IPCkEagl~F~~GDILqIv~qdD~nWWQA~~~~~~~~~~AGLiPS~~~qer 281 (542)
T KOG0609|consen 215 VFVRALFDYDPKEDDLIPCKEAGLPFQRGDILQIVSQDDPNWWQARRVGDPFGGLAGLIPSKELQER 281 (542)
T ss_pred eeehhhcCcCcccCCcccchhcCCcccccceeeeccCCCcchhhhhcccCccccccccccCHHHHHH
Confidence 578999999987643 25789999999999999999999998743 46799999776653
No 33
>KOG3523|consensus
Probab=98.19 E-value=1.3e-07 Score=72.64 Aligned_cols=57 Identities=19% Similarity=0.395 Sum_probs=51.0
Q ss_pred EEEEEeccCCCCCCCCCccccCCCEEEEEEcCCCCceEEEc-CCCcEEEEcCCceEeccc
Q psy6758 7 TLKVLYDFDYSTKDGKYVRIQEGEKLFLIKKTNKDWWQVIR-SSGKPFYVPASYVEVYKK 65 (101)
Q Consensus 7 ~~~aly~f~~~~~~~~eLs~~~g~~l~vl~~~~~~Ww~~~~-~~g~~G~vP~~yv~~~~~ 65 (101)
++.+...|.+..+| +|++..+|++.|+++.+++|..|.+ .+|..||||.+|++++..
T Consensus 610 Qv~~~~sy~a~q~D--el~Le~~Dvv~v~~k~~DGWl~GeRl~Dge~GWFP~~~veeI~~ 667 (695)
T KOG3523|consen 610 QVQCVHSYKAKQPD--ELTLELADVVNVLQKTPDGWLEGERLRDGERGWFPSSYVEEITN 667 (695)
T ss_pred hhheeeccccCCCc--eeeeehhhhhhhhhcCCCccccccccccCccCcchHHHHHHhcC
Confidence 46778889998888 9999999999999999999999988 468899999999998765
No 34
>KOG2528|consensus
Probab=98.19 E-value=5.4e-07 Score=67.24 Aligned_cols=57 Identities=32% Similarity=0.480 Sum_probs=50.1
Q ss_pred EEEEEeccCCCCCCCCCccccCCCEEEEEEcC-CCCceEEEcCCCcEEEEcCCceEeccc
Q psy6758 7 TLKVLYDFDYSTKDGKYVRIQEGEKLFLIKKT-NKDWWQVIRSSGKPFYVPASYVEVYKK 65 (101)
Q Consensus 7 ~~~aly~f~~~~~~~~eLs~~~g~~l~vl~~~-~~~Ww~~~~~~g~~G~vP~~yv~~~~~ 65 (101)
.+||+|||...+.+ +|++..||++.+...+ ..+||.+.+..|..|+||+.||+....
T Consensus 4 k~RamyDf~~E~~s--Elsi~~~evl~i~~e~~~~GwLeg~Nsrge~GlfPa~yVeV~~~ 61 (490)
T KOG2528|consen 4 KARAMYDFQSEGHS--ELSIWEGEVLSITSEDVIEGWLEGSNSRGERGLFPASYVEVTRL 61 (490)
T ss_pred chhhhcchhhcccc--cccccccceeeecCcccccccccCCCccCccCCCcccceeeecc
Confidence 46899999877555 9999999999999886 568999999999999999999998764
No 35
>KOG3632|consensus
Probab=97.92 E-value=1.2e-05 Score=65.15 Aligned_cols=59 Identities=14% Similarity=0.224 Sum_probs=47.9
Q ss_pred EEEEEeccCCCCC------CCCCccccCCCEEEEEEcC-CCCceEEEcCCCcEEEEcCCceEecccc
Q psy6758 7 TLKVLYDFDYSTK------DGKYVRIQEGEKLFLIKKT-NKDWWQVIRSSGKPFYVPASYVEVYKKL 66 (101)
Q Consensus 7 ~~~aly~f~~~~~------~~~eLs~~~g~~l~vl~~~-~~~Ww~~~~~~g~~G~vP~~yv~~~~~~ 66 (101)
..+|||||++... ...||+|++|++|.|+..- .+++++++. +|+.|+||+|+|.++...
T Consensus 1140 ifVAlfDYDpl~MSpNpDAaEeELpFregqIikV~GDkDadgFY~GE~-ngr~GlIPcNmvae~~vd 1205 (1335)
T KOG3632|consen 1140 IFVALFDYDPLQMSPNPDAAEEELPFREGQIIKVLGDKDADGFYMGEL-NGRRGLIPCNMVAEQPVD 1205 (1335)
T ss_pred eeEeeeccCccccCCCCChhhhccccccCcEEEEeccccccceeeccc-ccccccccccccccccCC
Confidence 3689999998542 2359999999999999864 457888886 899999999999987653
No 36
>KOG2222|consensus
Probab=97.80 E-value=2.3e-06 Score=65.05 Aligned_cols=55 Identities=22% Similarity=0.399 Sum_probs=47.7
Q ss_pred EEEEEeccCCCCCCCCCccccCCCEEEEEEcCCCCceEEEcCCCcEEEEcCCceEecc
Q psy6758 7 TLKVLYDFDYSTKDGKYVRIQEGEKLFLIKKTNKDWWQVIRSSGKPFYVPASYVEVYK 64 (101)
Q Consensus 7 ~~~aly~f~~~~~~~~eLs~~~g~~l~vl~~~~~~Ww~~~~~~g~~G~vP~~yv~~~~ 64 (101)
.++||.||.-...+ ||.|+++|+++|+..-+...|-|+. +|-.||||+.||+.+.
T Consensus 550 rakal~df~r~ddd--elgfrkndiitiisekdehcwvgel-nglrgwfpakfvelld 604 (848)
T KOG2222|consen 550 RAKALHDFAREDDD--ELGFRKNDIITIISEKDEHCWVGEL-NGLRGWFPAKFVELLD 604 (848)
T ss_pred HHHHHhhhhhcccc--ccccccccEEEEeecCCcceeeecc-ccccccchHHHHHHHH
Confidence 46789999766555 9999999999999998899999986 8989999999998654
No 37
>KOG3601|consensus
Probab=97.76 E-value=2.7e-06 Score=58.12 Aligned_cols=52 Identities=15% Similarity=0.379 Sum_probs=44.3
Q ss_pred EEEEeccCCCCCCCCCccccCCCEEEEEEcC-CCCceEEEcCCCcEEEEcCCceEe
Q psy6758 8 LKVLYDFDYSTKDGKYVRIQEGEKLFLIKKT-NKDWWQVIRSSGKPFYVPASYVEV 62 (101)
Q Consensus 8 ~~aly~f~~~~~~~~eLs~~~g~~l~vl~~~-~~~Ww~~~~~~g~~G~vP~~yv~~ 62 (101)
+.++++|.++..+ ||+|.+|+.+.+++.. +.+|.+... .|.+|++|.||+..
T Consensus 3 a~a~n~f~a~i~d--ELsFlkg~~lk~l~~~d~~nw~~ael-~g~~g~~P~Nai~~ 55 (222)
T KOG3601|consen 3 AVAKNDFLAGIRD--ELSFLKGDNLKILNMEDDINWYKAEL-DGPEGFIPKNAIRM 55 (222)
T ss_pred hhhhhhhhhcCcc--cceeecCCceEecchHHhhhhhhHhh-cCccccCccccccc
Confidence 4578999888888 9999999999998875 447888876 88999999999954
No 38
>PF14603 hSH3: Helically-extended SH3 domain; PDB: 1RI9_A.
Probab=97.73 E-value=4.9e-05 Score=45.27 Aligned_cols=44 Identities=32% Similarity=0.246 Sum_probs=32.0
Q ss_pred CCCCccccCCCEEEEEEcCCCCceEEEcCCCcEEEEcCCceEec
Q psy6758 20 DGKYVRIQEGEKLFLIKKTNKDWWQVIRSSGKPFYVPASYVEVY 63 (101)
Q Consensus 20 ~~~eLs~~~g~~l~vl~~~~~~Ww~~~~~~g~~G~vP~~yv~~~ 63 (101)
+..+|++++||.+.||+..+.+-|.+|+..|+-||||.+++...
T Consensus 29 G~kDLpi~~GE~LeVI~~t~~~kvlCRN~~GKYGYV~~~~L~~~ 72 (89)
T PF14603_consen 29 GGKDLPIKPGEILEVIQFTDDNKVLCRNSEGKYGYVLRSHLLPL 72 (89)
T ss_dssp -TTB----TT-B-EEEEESSSSEEEEEETTTEEEEEEGGGS---
T ss_pred CcccCCcCCCCEEEEEEeCCCCeEEEeCCCCceeEEEHHHccCC
Confidence 44699999999999999999999999999999999999998543
No 39
>KOG4773|consensus
Probab=97.72 E-value=4e-06 Score=61.01 Aligned_cols=55 Identities=24% Similarity=0.390 Sum_probs=48.2
Q ss_pred EEEEeccCCCCCCCCCccccCCCEEEEEEcCCCCceEEEcCCCcEEEEcCCceEeccc
Q psy6758 8 LKVLYDFDYSTKDGKYVRIQEGEKLFLIKKTNKDWWQVIRSSGKPFYVPASYVEVYKK 65 (101)
Q Consensus 8 ~~aly~f~~~~~~~~eLs~~~g~~l~vl~~~~~~Ww~~~~~~g~~G~vP~~yv~~~~~ 65 (101)
..|+++|..+... ||.|.+|+++.++.+++..||.|+. .+..||+|.+|+..+..
T Consensus 178 ~~a~~df~gns~~--EL~l~agdV~~~~~r~ek~W~~gk~-R~~~g~yp~sF~~~ld~ 232 (386)
T KOG4773|consen 178 AEASFDFPGNSKL--ELNLVAGDVEFLLSRDEKYWLLGKV-RGLTGYYPDSFVKQLDD 232 (386)
T ss_pred HHhhccCCCCccc--eeeeehhhHHHHHhhcccceeeeee-ccccccccHHhhhhhcc
Confidence 4678899877666 9999999999999999999999987 78889999999987654
No 40
>KOG3775|consensus
Probab=97.67 E-value=2.2e-05 Score=57.93 Aligned_cols=62 Identities=16% Similarity=0.303 Sum_probs=52.6
Q ss_pred CCcEEEEEEeccCCCCCCCCCccccCCCEEEEEEcCCCCceEEEcC-CCcEEEEcCCceEecccc
Q psy6758 3 LQDVTLKVLYDFDYSTKDGKYVRIQEGEKLFLIKKTNKDWWQVIRS-SGKPFYVPASYVEVYKKL 66 (101)
Q Consensus 3 ~~~~~~~aly~f~~~~~~~~eLs~~~g~~l~vl~~~~~~Ww~~~~~-~g~~G~vP~~yv~~~~~~ 66 (101)
+++.+-++++.|.+..++ ||-+..||.+.|-...++.|..+.+. .|+.|.||+.|+.++...
T Consensus 260 ~qe~THR~~~rFvPRHpD--ELeLEIgDav~Ve~eadD~W~~G~NlRTG~~GIFPA~ya~evd~~ 322 (482)
T KOG3775|consen 260 EQEQTHRAVFRFVPRHPD--ELELEIGDAVLVEAEADDFWFEGFNLRTGERGIFPAFYAHEVDGP 322 (482)
T ss_pred hhchhhhhhhhccCCCcc--eeeeecCCeeEeeecccchhhccccccccccccccceeEEecCCc
Confidence 344456889999999888 99999999999988888899999884 578999999999987653
No 41
>KOG4575|consensus
Probab=97.61 E-value=7.6e-05 Score=58.28 Aligned_cols=56 Identities=14% Similarity=0.435 Sum_probs=43.4
Q ss_pred cEEEEEEeccCCCCCCCCCccccCCCEEEEEEcCCCCceEEEcC-CCcEEEEcCCceEe
Q psy6758 5 DVTLKVLYDFDYSTKDGKYVRIQEGEKLFLIKKTNKDWWQVIRS-SGKPFYVPASYVEV 62 (101)
Q Consensus 5 ~~~~~aly~f~~~~~~~~eLs~~~g~~l~vl~~~~~~Ww~~~~~-~g~~G~vP~~yv~~ 62 (101)
.++++|+|.+.++..+ +|-|.+||++.+++-.+.-||-.... ....|+||+|||.-
T Consensus 8 p~~vrA~y~w~ge~eG--dl~f~egDlie~trI~dgkwwi~lhrNk~~~g~fpsNFvhc 64 (874)
T KOG4575|consen 8 PCMVRALYAWPGEREG--DLKFTEGDLIEQTRIEDGKWWILLHRNKDEDGLFPSNFVHC 64 (874)
T ss_pred CceEEeeccCCCCccc--ccceecccceeEEeeccceeeeeeeecccccccCcccceee
Confidence 4578999999877666 99999999999988876545544433 34679999999953
No 42
>KOG3725|consensus
Probab=97.40 E-value=4.5e-05 Score=54.04 Aligned_cols=54 Identities=26% Similarity=0.438 Sum_probs=45.2
Q ss_pred EEEEEEeccCCCCCCCCCccccCCCEEEEEEcC--CCCceEEEcCCCcEEEEcCCceEe
Q psy6758 6 VTLKVLYDFDYSTKDGKYVRIQEGEKLFLIKKT--NKDWWQVIRSSGKPFYVPASYVEV 62 (101)
Q Consensus 6 ~~~~aly~f~~~~~~~~eLs~~~g~~l~vl~~~--~~~Ww~~~~~~g~~G~vP~~yv~~ 62 (101)
-.++++|||++..+. ||++-.+++|.|..-. |.+|..+++ +++.|-+|..|++.
T Consensus 318 rkArVlyDYdAa~s~--ElslladeiitVyslpGMD~dwlmgEr-GnkkGKvPvtYlEL 373 (375)
T KOG3725|consen 318 RKARVLYDYDAALSQ--ELSLLADEIITVYSLPGMDADWLMGER-GNKKGKVPVTYLEL 373 (375)
T ss_pred cceeeeecccccchh--hhhhhhcceEEEEecCCCChHHhhhhh-cCCCCCcchhHHHh
Confidence 357899999987555 9999999999988764 678999987 66789999999864
No 43
>KOG3771|consensus
Probab=97.33 E-value=0.00011 Score=55.34 Aligned_cols=51 Identities=14% Similarity=0.117 Sum_probs=38.7
Q ss_pred EEEEEeccCCCCCCCCCccccCCCEEEEEEcC-CCCceEEEcCCCcEEEEcCCce
Q psy6758 7 TLKVLYDFDYSTKDGKYVRIQEGEKLFLIKKT-NKDWWQVIRSSGKPFYVPASYV 60 (101)
Q Consensus 7 ~~~aly~f~~~~~~~~eLs~~~g~~l~vl~~~-~~~Ww~~~~~~g~~G~vP~~yv 60 (101)
.++++|+|.++..+ +|+|+.||+|.|+... ..+||.|+. .|..+-+|.+|+
T Consensus 402 ~v~a~~dy~a~~~d--eLsf~~gd~i~vi~s~~~~e~~eg~~-mg~ke~~~~~~~ 453 (460)
T KOG3771|consen 402 KVKALHDYAAQDTD--ELSFEAGDVILVIPSDNPEEQDEGWL-MGVKESDWNGLF 453 (460)
T ss_pred ceeccccccccccc--cccccCCCEEEEecCCCccchhhHHH-hhhcccccccce
Confidence 58999999999888 9999999999999865 347888876 443333344444
No 44
>PF08239 SH3_3: Bacterial SH3 domain; InterPro: IPR013247 SH3 (src Homology-3) domains are small protein modules containing approximately 50 amino acid residues [, ]. They are found in a great variety of intracellular or membrane-associated proteins [, , ] for example, in a variety of proteins with enzymatic activity, in adaptor proteins that lack catalytic sequences and in cytoskeletal proteins, such as fodrin and yeast actin binding protein ABP-1. The SH3 domain has a characteristic fold which consists of five or six beta-strands arranged as two tightly packed anti-parallel beta sheets. The linker regions may contain short helices []. The surface of the SH3-domain bears a flat, hydrophobic ligand-binding pocket which consists of three shallow grooves defined by conservative aromatic residues in which the ligand adopts an extended left-handed helical arrangement. The ligand binds with low affinity but this may be enhanced by multiple interactions. The region bound by the SH3 domain is in all cases proline-rich and contains PXXP as a core-conserved binding motif. The function of the SH3 domain is not well understood but they may mediate many diverse processes such as increasing local concentration of proteins, altering their subcellular location and mediating the assembly of large multiprotein complexes []. A homologue of the SH3 domain has been found in a number of different bacterial proteins including glycyl-glycine endopeptidase, bacteriocin and some hypothetical proteins.; PDB: 3PVQ_B 3NPF_B 3H41_A 2KQ8_A 2KRS_A 2KYB_A 2KT8_A.
Probab=97.18 E-value=0.00076 Score=36.26 Aligned_cols=39 Identities=26% Similarity=0.568 Sum_probs=31.6
Q ss_pred CccccCCCEEEEEEcCCCC-ceEEEcCCCcEEEEcCCceE
Q psy6758 23 YVRIQEGEKLFLIKKTNKD-WWQVIRSSGKPFYVPASYVE 61 (101)
Q Consensus 23 eLs~~~g~~l~vl~~~~~~-Ww~~~~~~g~~G~vP~~yv~ 61 (101)
--.+..|+.+.++.....+ |++++..+|..|||+..|++
T Consensus 16 i~~l~~g~~v~v~~~~~~~~W~~V~~~~g~~GwV~~~~l~ 55 (55)
T PF08239_consen 16 IGQLPKGEKVTVLGESGDGNWYKVRTYDGKTGWVSSSYLS 55 (55)
T ss_dssp EEEEETTSEEEEEEEETT--EEEEEEETTEEEEEEGGCEE
T ss_pred hEEEeCCCEEEEEEEcCCcEEEEEECcCCcEEEEEccccC
Confidence 3357899999999987554 99996668889999999985
No 45
>KOG4792|consensus
Probab=97.17 E-value=0.00085 Score=46.81 Aligned_cols=59 Identities=17% Similarity=0.134 Sum_probs=47.9
Q ss_pred EEEEEEeccCCCCCCCCCccccCCCEEEEEEcCCCCceEEEcCCCcEEEEcCCceEeccc
Q psy6758 6 VTLKVLYDFDYSTKDGKYVRIQEGEKLFLIKKTNKDWWQVIRSSGKPFYVPASYVEVYKK 65 (101)
Q Consensus 6 ~~~~aly~f~~~~~~~~eLs~~~g~~l~vl~~~~~~Ww~~~~~~g~~G~vP~~yv~~~~~ 65 (101)
.+++++++-.+..=+...|.++.||++.|.+..-.+-|.++. +|+.|.||..||.....
T Consensus 228 a~Arv~q~RVPnAYDkTaL~levGdiVkVTk~ninGqwegEl-nGk~G~fPfThvrf~d~ 286 (293)
T KOG4792|consen 228 AYARVIQKRVPNAYDKTALALEVGDIVKVTKKNINGQWEGEL-NGKIGHFPFTHVRFTDV 286 (293)
T ss_pred hheeeehhcCCCccChhhhhhhcCcEEEEEeeccCceeeeee-cCccccccceeEEeecc
Confidence 356777765555445569999999999999998778899997 99999999999987543
No 46
>KOG0199|consensus
Probab=97.14 E-value=0.001 Score=53.24 Aligned_cols=57 Identities=18% Similarity=0.206 Sum_probs=44.2
Q ss_pred CcEEEEEEeccCCCCCCCCCccccCCCEEEEEEcCCC-CceEEEc-CCCcEEEEcCCceEecc
Q psy6758 4 QDVTLKVLYDFDYSTKDGKYVRIQEGEKLFLIKKTNK-DWWQVIR-SSGKPFYVPASYVEVYK 64 (101)
Q Consensus 4 ~~~~~~aly~f~~~~~~~~eLs~~~g~~l~vl~~~~~-~Ww~~~~-~~g~~G~vP~~yv~~~~ 64 (101)
+...+++.||+ ...+ .|.|++||.|.||+.... -||++.+ .+++.|.||.+-|....
T Consensus 375 qp~~a~~~~d~--~ep~--aLh~~kgD~IvVIegs~a~y~WfgQn~Rn~kvG~Fprsvvt~a~ 433 (1039)
T KOG0199|consen 375 QPAVARETYDS--IEPG--ALHLTKGDEIVVIEGSGAGYDWFGQNKRNQKVGTFPRSVVTAAT 433 (1039)
T ss_pred CCceeeeeccc--cCCC--ceeeccCCeEEEEecCCccceeeccccccceecccCcceeeecc
Confidence 34456777777 4556 999999999999998754 5999976 35689999999887433
No 47
>KOG3565|consensus
Probab=97.04 E-value=0.00011 Score=57.83 Aligned_cols=56 Identities=32% Similarity=0.565 Sum_probs=47.6
Q ss_pred EEEEEeccCCCCCCCCCccccCCCEEEEEEcC-CCCceEEE-cCCCcEEEEcCCceEecc
Q psy6758 7 TLKVLYDFDYSTKDGKYVRIQEGEKLFLIKKT-NKDWWQVI-RSSGKPFYVPASYVEVYK 64 (101)
Q Consensus 7 ~~~aly~f~~~~~~~~eLs~~~g~~l~vl~~~-~~~Ww~~~-~~~g~~G~vP~~yv~~~~ 64 (101)
++.|+|.|++.+++ ++++.+|+++.+++.+ +++|-+++ ..++..|++|.+|+....
T Consensus 580 ~~~a~~~~~~~s~~--~~si~~~~il~~ie~~~g~gwt~~r~~~~~~~g~~Ptsyl~~~~ 637 (640)
T KOG3565|consen 580 TSKALYAFEGQSEG--TISIDPGEILQVIEEDKGDGWTRGRLEPNGEKGYVPTSYLDVTE 637 (640)
T ss_pred ceecccCcCCCCCC--ccccCcchhHHHHhhcccCCCCCCCCCCCCcCCCCCcccccccc
Confidence 57899999988777 9999999999999987 56788888 357789999999998643
No 48
>KOG4429|consensus
Probab=97.03 E-value=0.00016 Score=52.05 Aligned_cols=54 Identities=15% Similarity=0.033 Sum_probs=46.1
Q ss_pred EEEEEeccCCCCCCCCCccccCCCEEEEEEcCCCCceEEEcCCCcEEEEcCCceEec
Q psy6758 7 TLKVLYDFDYSTKDGKYVRIQEGEKLFLIKKTNKDWWQVIRSSGKPFYVPASYVEVY 63 (101)
Q Consensus 7 ~~~aly~f~~~~~~~~eLs~~~g~~l~vl~~~~~~Ww~~~~~~g~~G~vP~~yv~~~ 63 (101)
.|.|+|+|.++.++ +|...+|++..+-.+...+||.++. .|.-|-||+.|+++.
T Consensus 365 lcdafYSfqarqdd--el~~e~gditif~Ekkeeg~~f~rl-~gd~~hf~Aa~iEea 418 (421)
T KOG4429|consen 365 LCDAFYSFQARQDD--ELGGEIGDITIFDEKKEEGPTFCRL-LGDFEHFHAAEIEEA 418 (421)
T ss_pred Hhhhhhcccccccc--ccCCcccceeeecCcccCCCceeee-ccccCCCcHHHHHHh
Confidence 37899999998888 9999999998776677789999987 777888999998764
No 49
>KOG1451|consensus
Probab=96.92 E-value=0.00085 Score=52.29 Aligned_cols=52 Identities=21% Similarity=0.381 Sum_probs=39.0
Q ss_pred EEEEeccCCCCCCCCCccccCCCEEEEEEcC-CCCceEEEcCCCcEEEEcCCceEe
Q psy6758 8 LKVLYDFDYSTKDGKYVRIQEGEKLFLIKKT-NKDWWQVIRSSGKPFYVPASYVEV 62 (101)
Q Consensus 8 ~~aly~f~~~~~~~~eLs~~~g~~l~vl~~~-~~~Ww~~~~~~g~~G~vP~~yv~~ 62 (101)
++++|.-.+... .+++|..|.++.-+..+ .++|..|+ .+|++|++|+|||+.
T Consensus 759 ~k~lyAc~a~h~--selsf~~gt~f~nv~~S~e~Gwl~Gt-LnGktglip~nyve~ 811 (812)
T KOG1451|consen 759 VKTLYACTADHH--SELSFEPGTIFTNVYESNEDGWLVGT-LNGKTGLIPSNYVEP 811 (812)
T ss_pred ccceeccCCCCc--ccccccCcceeeeecccCCCCceeee-cCCCcccCcccccCc
Confidence 455665554444 49999999999877655 44666666 599999999999975
No 50
>smart00287 SH3b Bacterial SH3 domain homologues.
Probab=96.72 E-value=0.0053 Score=33.65 Aligned_cols=38 Identities=26% Similarity=0.508 Sum_probs=31.2
Q ss_pred CccccCCCEEEEEEcCCCCceEEEcCCCcEEEEcCCce
Q psy6758 23 YVRIQEGEKLFLIKKTNKDWWQVIRSSGKPFYVPASYV 60 (101)
Q Consensus 23 eLs~~~g~~l~vl~~~~~~Ww~~~~~~g~~G~vP~~yv 60 (101)
--.+..|+.+.++...+.+|.+++..+|..||+|..++
T Consensus 24 ~~~l~~g~~v~i~~~~~~~W~~v~~~~g~~Gwi~~~~~ 61 (63)
T smart00287 24 IGTLKKGDKVKVLGVDGQDWAKITYGSGQRGYVPGYVV 61 (63)
T ss_pred eEEecCCCEEEEEEccCCceEEEEcCCCCEEEEEeeee
Confidence 33578999999999865589999986789999987665
No 51
>PRK10884 SH3 domain-containing protein; Provisional
Probab=96.55 E-value=0.0034 Score=43.13 Aligned_cols=41 Identities=17% Similarity=0.391 Sum_probs=34.9
Q ss_pred cccCCCEEEEEEcCC-CCceEEEcCCCcEEEEcCCceEeccc
Q psy6758 25 RIQEGEKLFLIKKTN-KDWWQVIRSSGKPFYVPASYVEVYKK 65 (101)
Q Consensus 25 s~~~g~~l~vl~~~~-~~Ww~~~~~~g~~G~vP~~yv~~~~~ 65 (101)
.+..|+.+.|+...+ .+|.+++..+|.+|||+..|+...+.
T Consensus 49 ~l~~G~~v~vl~~~~~~~w~~Vr~~~G~~GWV~~~~Ls~~p~ 90 (206)
T PRK10884 49 TLNAGEEVTLLQVNANTNYAQIRDSKGRTAWIPLKQLSTTPS 90 (206)
T ss_pred EEcCCCEEEEEEEcCCCCEEEEEeCCCCEEeEEHHHhcCCcc
Confidence 577999999998764 58999998889999999999986544
No 52
>KOG0040|consensus
Probab=96.31 E-value=6e-05 Score=63.41 Aligned_cols=57 Identities=32% Similarity=0.621 Sum_probs=48.3
Q ss_pred EEEEEeccCCCCCCCCCccccCCCEEEEEEcCCCCceEEEcCCCcEEEEcCCceEecccc
Q psy6758 7 TLKVLYDFDYSTKDGKYVRIQEGEKLFLIKKTNKDWWQVIRSSGKPFYVPASYVEVYKKL 66 (101)
Q Consensus 7 ~~~aly~f~~~~~~~~eLs~~~g~~l~vl~~~~~~Ww~~~~~~g~~G~vP~~yv~~~~~~ 66 (101)
.+.|+|+|...++. +.+.++||+++++...+.+||.++. ..+.|++|+.||+.+.+.
T Consensus 970 ~v~alyd~q~kSpr--ev~mKkgDvltll~s~nkdwwkve~-~d~qg~vpa~yvk~~~~~ 1026 (2399)
T KOG0040|consen 970 CVLALYDYQEKSPR--EVTMKKGDVLTLLNSINKDWWKVEV-NDRQGFVPAAYVKRLDPG 1026 (2399)
T ss_pred HHHHHHHHHhcCHH--HHHHhhhhHHHHHhhcccccccchh-hhhcCcchHHHHHHhccC
Confidence 35689999766554 9999999999999998999999987 667899999999986653
No 53
>KOG3632|consensus
Probab=95.95 E-value=0.013 Score=48.26 Aligned_cols=59 Identities=14% Similarity=0.338 Sum_probs=47.0
Q ss_pred EEEEEeccCC---CC-CCCCCccccCCCEEEEEEcCC-CCceEEEcCCCcEEEEcCCceEeccc
Q psy6758 7 TLKVLYDFDY---ST-KDGKYVRIQEGEKLFLIKKTN-KDWWQVIRSSGKPFYVPASYVEVYKK 65 (101)
Q Consensus 7 ~~~aly~f~~---~~-~~~~eLs~~~g~~l~vl~~~~-~~Ww~~~~~~g~~G~vP~~yv~~~~~ 65 (101)
.+.|.|+|.+ .+ .-+.+|.+..|+.|+|....+ ++.+.+....|+.|++|+|||+.+..
T Consensus 449 ~~~arySynPFegpNenpeaelpltAg~yiYiyGdmdEdgfyegeL~dgrrglvPsnFVe~v~d 512 (1335)
T KOG3632|consen 449 PFTARYSYNPFEGPNENPEAELPLTAGYYIYIYGDMDEDGFYEGELRDGRRGLVPSNFVEVVTD 512 (1335)
T ss_pred eEEEEEeccCCcCCCCCCccccccccceEEEEecCCCccccceeeeecccccCCCchheEEecc
Confidence 3678888766 21 224699999999999998764 46889998899999999999998654
No 54
>KOG3812|consensus
Probab=95.20 E-value=0.012 Score=43.39 Aligned_cols=50 Identities=22% Similarity=0.480 Sum_probs=38.3
Q ss_pred EEEEeccCCCCCC-----CCCccccCCCEEEEEEcCCCCceEEEc-CCC-cEEEEcC
Q psy6758 8 LKVLYDFDYSTKD-----GKYVRIQEGEKLFLIKKTNKDWWQVIR-SSG-KPFYVPA 57 (101)
Q Consensus 8 ~~aly~f~~~~~~-----~~eLs~~~g~~l~vl~~~~~~Ww~~~~-~~g-~~G~vP~ 57 (101)
|++.-+|++.-++ ...++|...|.|.|-.+-+.+||-|+. ..| ..||||+
T Consensus 61 V~tnv~Y~gslde~~Pv~g~aisF~~kDFlHIkeKynnDWWIGRlVkeg~e~gFiPs 117 (475)
T KOG3812|consen 61 VRTNVSYDGSLDEDSPVQGHAISFEAKDFLHIKEKYNNDWWIGRLVKEGCEIGFIPS 117 (475)
T ss_pred EEeccccCCccCCCCCCCCceeeeccccceeehhhcccchhHHHHhhcCCccccccc
Confidence 5666677765433 257899999999999999999999986 234 6799997
No 55
>PF06347 SH3_4: Bacterial SH3 domain; InterPro: IPR010466 SH3 (src Homology-3) domains are small protein modules containing approximately 50 amino acid residues [, ]. They are found in a great variety of intracellular or membrane-associated proteins [, , ] for example, in a variety of proteins with enzymatic activity, in adaptor proteins that lack catalytic sequences and in cytoskeletal proteins, such as fodrin and yeast actin binding protein ABP-1. The SH3 domain has a characteristic fold which consists of five or six beta-strands arranged as two tightly packed anti-parallel beta sheets. The linker regions may contain short helices []. The surface of the SH3-domain bears a flat, hydrophobic ligand-binding pocket which consists of three shallow grooves defined by conservative aromatic residues in which the ligand adopts an extended left-handed helical arrangement. The ligand binds with low affinity but this may be enhanced by multiple interactions. The region bound by the SH3 domain is in all cases proline-rich and contains PXXP as a core-conserved binding motif. The function of the SH3 domain is not well understood but they may mediate many diverse processes such as increasing local concentration of proteins, altering their subcellular location and mediating the assembly of large multiprotein complexes []. This family consists of several hypothetical bacterial proteins of unknown function, but that contain an SH-3 region.
Probab=94.11 E-value=0.12 Score=27.60 Aligned_cols=36 Identities=22% Similarity=0.421 Sum_probs=29.1
Q ss_pred CccccCCCEEEEEEcCCCCceEEEcCCCcEEEEcCCce
Q psy6758 23 YVRIQEGEKLFLIKKTNKDWWQVIRSSGKPFYVPASYV 60 (101)
Q Consensus 23 eLs~~~g~~l~vl~~~~~~Ww~~~~~~g~~G~vP~~yv 60 (101)
...+.+|..+.|+.. ..+|.+++ .+|..|||+.+.+
T Consensus 18 v~~l~~g~~v~v~~~-~~~W~~V~-~~g~~GWv~~~~l 53 (55)
T PF06347_consen 18 VARLEPGVPVRVIEC-RGGWCKVR-ADGRTGWVHKSLL 53 (55)
T ss_pred EEEECCCCEEEEEEc-cCCeEEEE-ECCeEEeEEeeec
Confidence 456778899888855 46899999 6999999998765
No 56
>KOG2996|consensus
Probab=93.91 E-value=0.027 Score=44.27 Aligned_cols=44 Identities=25% Similarity=0.413 Sum_probs=35.1
Q ss_pred CCccccCCCEEEEEEcC-CCCceEEEcCC-CcEEEEcCCceEeccc
Q psy6758 22 KYVRIQEGEKLFLIKKT-NKDWWQVIRSS-GKPFYVPASYVEVYKK 65 (101)
Q Consensus 22 ~eLs~~~g~~l~vl~~~-~~~Ww~~~~~~-g~~G~vP~~yv~~~~~ 65 (101)
--|.+++|+++.++.-+ .+.||.+++.. +..|+||++-|...+.
T Consensus 625 P~l~~~~gdvlel~~~d~~s~~w~gr~~~sr~sg~fpss~vkp~~~ 670 (865)
T KOG2996|consen 625 PRLVLQEGDVLELLKGDAESSWWEGRNHGSRESGNFPSSTVKPCPS 670 (865)
T ss_pred CceEecCCceeehhcCCCCCcccccCCccCCccCCCCccccCcCCC
Confidence 36789999999988865 55799999844 4779999999986544
No 57
>PRK13914 invasion associated secreted endopeptidase; Provisional
Probab=93.76 E-value=0.15 Score=39.18 Aligned_cols=41 Identities=20% Similarity=0.387 Sum_probs=34.1
Q ss_pred ccccCCCEEEEEEcCCCCceEEEcCCCcEEEEcCCceEecc
Q psy6758 24 VRIQEGEKLFLIKKTNKDWWQVIRSSGKPFYVPASYVEVYK 64 (101)
Q Consensus 24 Ls~~~g~~l~vl~~~~~~Ww~~~~~~g~~G~vP~~yv~~~~ 64 (101)
=++..|+.+.|+.....+|++.+..+|++|||-..|+....
T Consensus 103 gsl~~G~~V~Vl~~~~ngW~kI~~~~GktGwV~~~YLs~~~ 143 (481)
T PRK13914 103 TSIKGGTKVTVETTESNGWHKITYNDGKTGFVNGKYLTDKV 143 (481)
T ss_pred eeecCCCEEEEeecccCCeEEEEcCCCCEEEEecccccCCC
Confidence 36789999999875556899999877999999999998643
No 58
>COG3103 SH3 domain protein [Signal transduction mechanisms]
Probab=93.67 E-value=0.14 Score=35.26 Aligned_cols=41 Identities=20% Similarity=0.370 Sum_probs=35.2
Q ss_pred cccCCCEEEEEEcCCC-CceEEEcCCCcEEEEcCCceEeccc
Q psy6758 25 RIQEGEKLFLIKKTNK-DWWQVIRSSGKPFYVPASYVEVYKK 65 (101)
Q Consensus 25 s~~~g~~l~vl~~~~~-~Ww~~~~~~g~~G~vP~~yv~~~~~ 65 (101)
++++|+.+.|+...+. +|.+++...|..||||..++...+.
T Consensus 49 ~i~~Ge~vtvl~~~~~~~~~qI~~~~g~t~wi~~~~lt~e~s 90 (205)
T COG3103 49 SIKAGEKVTVLGTDGNTGYYQIRDSSGRTGWILSKNLTSEPS 90 (205)
T ss_pred EecCCcEEEEEEEcCcccEEEEEecCCceEEEechhhccccc
Confidence 6789999999998755 7999999889999999988876544
No 59
>smart00743 Agenet Tudor-like domain present in plant sequences. Domain in plant sequences with possible chromatin-associated functions.
Probab=86.99 E-value=1.1 Score=24.30 Aligned_cols=23 Identities=17% Similarity=0.761 Sum_probs=19.8
Q ss_pred cccCCCEEEEEEcCCCCceEEEc
Q psy6758 25 RIQEGEKLFLIKKTNKDWWQVIR 47 (101)
Q Consensus 25 s~~~g~~l~vl~~~~~~Ww~~~~ 47 (101)
.|++|+.+.+..+.+..||.+..
T Consensus 2 ~~~~G~~Ve~~~~~~~~W~~a~V 24 (61)
T smart00743 2 DFKKGDRVEVFSKEEDSWWEAVV 24 (61)
T ss_pred CcCCCCEEEEEECCCCEEEEEEE
Confidence 47899999999877788999875
No 60
>PF11302 DUF3104: Protein of unknown function (DUF3104); InterPro: IPR021453 This family of proteins with unknown function appears to be restricted to Cyanobacteria.
Probab=86.81 E-value=1 Score=26.17 Aligned_cols=25 Identities=20% Similarity=0.732 Sum_probs=18.4
Q ss_pred CccccCCCEEEEEEcC------CCCceEEEc
Q psy6758 23 YVRIQEGEKLFLIKKT------NKDWWQVIR 47 (101)
Q Consensus 23 eLs~~~g~~l~vl~~~------~~~Ww~~~~ 47 (101)
=|+++.|+.+.|-... +.+||.+..
T Consensus 3 FL~Vk~Gd~ViV~~~~~~~~~~~~dWWmg~V 33 (75)
T PF11302_consen 3 FLSVKPGDTVIVQDEQEVGQKQDKDWWMGQV 33 (75)
T ss_pred ccccCCCCEEEEecCccccccCCCCcEEEEE
Confidence 4788999998665433 468999865
No 61
>KOG3705|consensus
Probab=86.25 E-value=0.97 Score=34.46 Aligned_cols=53 Identities=13% Similarity=0.059 Sum_probs=36.2
Q ss_pred EEEEeccCCCCCCCCCccccCCCEEEEEEcCCCCceEEEc-CCCcEEEEcCCceEe
Q psy6758 8 LKVLYDFDYSTKDGKYVRIQEGEKLFLIKKTNKDWWQVIR-SSGKPFYVPASYVEV 62 (101)
Q Consensus 8 ~~aly~f~~~~~~~~eLs~~~g~~l~vl~~~~~~Ww~~~~-~~g~~G~vP~~yv~~ 62 (101)
+.++++-.++..+ |+.++.||++-|-..-=++.=+|.+ ..+++|+||+.=|.+
T Consensus 512 ~ivi~aH~prt~~--ei~l~vGD~vgvAGNHWdGySKG~Nr~t~~~GlfPSyKvre 565 (580)
T KOG3705|consen 512 VIVIEAHIPRTNK--EIDLKVGDKVGVAGNHWDGYSKGTNRQTYKEGLFPSYKVRE 565 (580)
T ss_pred eEEEEecCCCccc--ccCcccCCeeeecccccccccccccccccccCCCccceeee
Confidence 5677888777777 9999999999775532122223444 235899999866654
No 62
>PF12913 SH3_6: SH3 domain of the SH3b1 type; PDB: 3M1U_B.
Probab=84.97 E-value=2.2 Score=23.19 Aligned_cols=34 Identities=12% Similarity=0.271 Sum_probs=22.9
Q ss_pred CccccCCCEEEEEEcC-CCCceEEEcCCCcEEEEcC
Q psy6758 23 YVRIQEGEKLFLIKKT-NKDWWQVIRSSGKPFYVPA 57 (101)
Q Consensus 23 eLs~~~g~~l~vl~~~-~~~Ww~~~~~~g~~G~vP~ 57 (101)
+-.+..|+-|.|+..+ |..|..++. ....|||++
T Consensus 20 ~s~l~~gtPv~i~H~S~D~~W~fV~t-~~~~GWV~s 54 (54)
T PF12913_consen 20 NSALHPGTPVYILHTSRDGAWAFVQT-PFYSGWVKS 54 (54)
T ss_dssp EEEE-TT-EEEEEEE-TTSSEEEEE--SS-EEEEEG
T ss_pred hcccCCCCCEEEEEECCCCCEEEEec-CCeeEeeeC
Confidence 5578899999999876 667988886 456788874
No 63
>KOG3580|consensus
Probab=81.17 E-value=3.4 Score=33.25 Aligned_cols=56 Identities=11% Similarity=0.221 Sum_probs=38.4
Q ss_pred CcEEEEEEeccCCCCCCCCCccccCCCEEEEEEcC----CCCceEEEcCCC----cEEEEcCCceE
Q psy6758 4 QDVTLKVLYDFDYSTKDGKYVRIQEGEKLFLIKKT----NKDWWQVIRSSG----KPFYVPASYVE 61 (101)
Q Consensus 4 ~~~~~~aly~f~~~~~~~~eLs~~~g~~l~vl~~~----~~~Ww~~~~~~g----~~G~vP~~yv~ 61 (101)
..++.+..|.++...+ ..|+|.+|+++.+++-- ..+|.-++..+. ..|+||.....
T Consensus 503 DSFyIRtHFE~Eke~P--~gL~FtrGeVFrvvDTLy~GklG~WLAvRiG~dlrE~ErGiIPNksRA 566 (1027)
T KOG3580|consen 503 DSFYIRTHFECEKETP--QGLAFTRGEVFRVVDTLYDGKLGNWLAVRIGNDLRELERGIIPNKSRA 566 (1027)
T ss_pred ceeEEeeeeeecCCCC--ccccccccceeeeeecccCCCCcceEEEeecccHHHHhcccCCCccHH
Confidence 3456777777776544 49999999999998853 235666665332 46999975443
No 64
>KOG0708|consensus
Probab=79.98 E-value=0.46 Score=35.31 Aligned_cols=56 Identities=23% Similarity=0.459 Sum_probs=40.4
Q ss_pred cEEEEEEeccCCCCCC---CCCccccCCCEEEEEEcCCCCceEEEcCCC-----cEEEEcCCce
Q psy6758 5 DVTLKVLYDFDYSTKD---GKYVRIQEGEKLFLIKKTNKDWWQVIRSSG-----KPFYVPASYV 60 (101)
Q Consensus 5 ~~~~~aly~f~~~~~~---~~eLs~~~g~~l~vl~~~~~~Ww~~~~~~g-----~~G~vP~~yv 60 (101)
..++.+++||+..... ...++|..|+++.++...+..||.++...+ ..|.+|+--.
T Consensus 66 ~~~v~~~~d~d~~~~~~~~~~~~~~~~~~i~~~~~~~~~e~~~~r~~s~~~~~~~~~~~~~~~~ 129 (359)
T KOG0708|consen 66 CLYVDALFDYDLDRGSPGYSRAQSFLYGQILHLISRSDDEWWQARHVSPRGEEKDVGLVPSKSR 129 (359)
T ss_pred eeEeeccccccccCCCCCcchhhhhhhhhhhhccccccHHHHHhhccCCCcccccccccccccc
Confidence 3578899998765432 145678899999999999899999887432 4577776443
No 65
>PRK13545 tagH teichoic acids export protein ATP-binding subunit; Provisional
Probab=72.30 E-value=5.5 Score=31.44 Aligned_cols=39 Identities=18% Similarity=0.465 Sum_probs=31.4
Q ss_pred cCCCEEEEEEcC-----CCCceEEEcCCCcEEEEcCCceEeccc
Q psy6758 27 QEGEKLFLIKKT-----NKDWWQVIRSSGKPFYVPASYVEVYKK 65 (101)
Q Consensus 27 ~~g~~l~vl~~~-----~~~Ww~~~~~~g~~G~vP~~yv~~~~~ 65 (101)
.-|+.+.|.++. +-+|.+....+|.+||+...|++.++.
T Consensus 373 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 416 (549)
T PRK13545 373 NFGDIFTISDSNKNEKKDVEWIQITLSNGEIGWISTKFIEPFKS 416 (549)
T ss_pred ecCceEEEcccccccccCcceEEEEecCCccceeeeeeeeeccc
Confidence 348888887653 447999998899999999999998764
No 66
>KOG4384|consensus
Probab=58.02 E-value=6.9 Score=29.17 Aligned_cols=57 Identities=25% Similarity=0.313 Sum_probs=44.0
Q ss_pred EEEEeccCCCCCCCCCccccCCCEEEEEEcCCCCceEEEcCCCcEEEEcCCceEeccc
Q psy6758 8 LKVLYDFDYSTKDGKYVRIQEGEKLFLIKKTNKDWWQVIRSSGKPFYVPASYVEVYKK 65 (101)
Q Consensus 8 ~~aly~f~~~~~~~~eLs~~~g~~l~vl~~~~~~Ww~~~~~~g~~G~vP~~yv~~~~~ 65 (101)
+++.-+|.+..-+..+|-+++|+++.++.+..-+-|.+-. .++.|.|+.-||..+..
T Consensus 139 ~~~~t~~tp~p~~~d~lk~~~~~~i~~~~~~~~~~~~g~~-~~kv~~f~~~~v~~~s~ 195 (361)
T KOG4384|consen 139 ARVHTDFTPSPYDTDSLKIKKGDIIDIIEKPPMGTWLGLL-NNKVGSFKFIYVDVISE 195 (361)
T ss_pred ccccccCCCCcccccchhhcccchhhccccCccccccccc-cCcccccccceeccccc
Confidence 3445567665545559999999999999998777777754 78889999999987654
No 67
>PF05641 Agenet: Agenet domain; InterPro: IPR008395 This domain is related to the TUDOR domain IPR008191 from INTERPRO []. The function of the agenet domain is unknown. This signature matches one of the two Agenet domains in the FMR proteins [].; GO: 0003723 RNA binding; PDB: 2BKD_N 3O8V_A 3KUF_A 3H8Z_A.
Probab=47.07 E-value=24 Score=19.54 Aligned_cols=22 Identities=9% Similarity=0.433 Sum_probs=13.7
Q ss_pred ccCCCEEEEEEcCCC---CceEEEc
Q psy6758 26 IQEGEKLFLIKKTNK---DWWQVIR 47 (101)
Q Consensus 26 ~~~g~~l~vl~~~~~---~Ww~~~~ 47 (101)
|++|+.+.|....+. .|+.+..
T Consensus 1 F~~G~~VEV~s~e~g~~gaWf~a~V 25 (68)
T PF05641_consen 1 FKKGDEVEVSSDEDGFRGAWFPATV 25 (68)
T ss_dssp --TT-EEEEEE-SBTT--EEEEEEE
T ss_pred CCCCCEEEEEEcCCCCCcEEEEEEE
Confidence 689999999887633 4888765
No 68
>COG3807 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=39.10 E-value=14 Score=24.50 Aligned_cols=37 Identities=16% Similarity=0.407 Sum_probs=28.6
Q ss_pred ccccCCCEEEEEEcCCCCceEEEcCCCcEEEEcCCceE
Q psy6758 24 VRIQEGEKLFLIKKTNKDWWQVIRSSGKPFYVPASYVE 61 (101)
Q Consensus 24 Ls~~~g~~l~vl~~~~~~Ww~~~~~~g~~G~vP~~yv~ 61 (101)
+.+++|.-+.|+.+. ++|-+.+..+|.+|||-.+-+.
T Consensus 59 ~y~k~GlPVEIvqEy-~~WRrirDadG~egWv~qslls 95 (171)
T COG3807 59 VYLKKGLPVEIVQEY-DNWRRIRDADGTEGWVHQSLLS 95 (171)
T ss_pred eeeccCCceehhhhh-hhhhheeCCCCCceeeeeeccc
Confidence 356788888888875 4698999889999998765544
No 69
>smart00333 TUDOR Tudor domain. Domain of unknown function present in several RNA-binding proteins. 10 copies in the Drosophila Tudor protein. Initial proposal that the survival motor neuron gene product contain a Tudor domain are corroborated by more recent database search techniques such as PSI-BLAST (unpublished).
Probab=37.94 E-value=61 Score=16.67 Aligned_cols=22 Identities=14% Similarity=0.367 Sum_probs=16.1
Q ss_pred cccCCCEEEEEEcCCCCceEEEc
Q psy6758 25 RIQEGEKLFLIKKTNKDWWQVIR 47 (101)
Q Consensus 25 s~~~g~~l~vl~~~~~~Ww~~~~ 47 (101)
.++.|+.+.+.- .+..|++++.
T Consensus 2 ~~~~G~~~~a~~-~d~~wyra~I 23 (57)
T smart00333 2 TFKVGDKVAARW-EDGEWYRARI 23 (57)
T ss_pred CCCCCCEEEEEe-CCCCEEEEEE
Confidence 356788877766 6678998875
No 70
>PF11347 DUF3148: Protein of unknown function (DUF3148); InterPro: IPR021495 This family of proteins has no known function.
Probab=33.02 E-value=94 Score=17.40 Aligned_cols=33 Identities=24% Similarity=0.556 Sum_probs=22.1
Q ss_pred ccCCCEEEEEEcCCCCceEEEcCCCcEEEEcCCc
Q psy6758 26 IQEGEKLFLIKKTNKDWWQVIRSSGKPFYVPASY 59 (101)
Q Consensus 26 ~~~g~~l~vl~~~~~~Ww~~~~~~g~~G~vP~~y 59 (101)
+..||.=.|+.....+.|-++...| .-++++.|
T Consensus 30 v~~ge~G~i~~rrp~~~w~VRf~~G-tfLid~~y 62 (63)
T PF11347_consen 30 VKIGEVGRIVDRRPGDYWAVRFRRG-TFLIDSKY 62 (63)
T ss_pred cccCCcEEEEEecCCCEEEEEEece-eEeecccc
Confidence 3456666788888788999987444 34555554
No 71
>cd05789 S1_Rrp4 S1_Rrp4: Rrp4 S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. Rrp4 protein is a subunit of the exosome complex. The exosome plays a central role in 3' to 5' RNA processing and degradation in eukarytes and archaea. Its functions include the removal of incorrectly processed RNA and the maintenance of proper levels of mRNA, rRNA and a number of small RNA species. In Saccharomyces cerevisiae, the exosome includes nine core components, six of which are homologous to bacterial RNase PH. These form a hexameric ring structure. The other three subunits (RrP4, Rrp40, and Csl4) contain an S1 RNA binding domain and are part of the "S1 pore structure".
Probab=32.70 E-value=96 Score=17.43 Aligned_cols=34 Identities=21% Similarity=0.267 Sum_probs=23.1
Q ss_pred cCCCEEE--EEEcCCCCceEEEcCCCcEEEEcCCceE
Q psy6758 27 QEGEKLF--LIKKTNKDWWQVIRSSGKPFYVPASYVE 61 (101)
Q Consensus 27 ~~g~~l~--vl~~~~~~Ww~~~~~~g~~G~vP~~yv~ 61 (101)
++|+++. |.+- .+..|.+....+.+|++|.+-+.
T Consensus 5 ~~GdiV~g~V~~i-~~~g~~v~i~~~~~G~l~~se~~ 40 (86)
T cd05789 5 EVGDVVIGRVTEV-GFKRWKVDINSPYDAVLPLSEVN 40 (86)
T ss_pred CCCCEEEEEEEEE-CCCEEEEECCCCeEEEEEHHHcc
Confidence 5788774 4443 44567777656789999987554
No 72
>PF00575 S1: S1 RNA binding domain; InterPro: IPR003029 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. The S1 domain was originally identified in ribosomal protein S1 but is found in a large number of RNA-associated proteins. The structure of the S1 RNA-binding domain from the Escherichia coli polynucleotide phosphorylase has been determined using NMR methods and consists of a five-stranded antiparallel beta barrel. Conserved residues on one face of the barrel and adjacent loops form the putative RNA-binding site []. The structure of the S1 domain is very similar to that of cold shock proteins. This suggests that they may both be derived from an ancient nucleic acid-binding protein []. More information about these proteins can be found at Protein of the Month: RNA Exosomes []. This entry does not include translation initiation factor IF-1 S1 domains.; GO: 0003723 RNA binding; PDB: 3L7Z_F 2JE6_I 2JEA_I 2JEB_I 1E3P_A 2Y0S_E 1WI5_A 2BH8_A 2CQO_A 2EQS_A ....
Probab=27.62 E-value=1.1e+02 Score=16.47 Aligned_cols=36 Identities=17% Similarity=0.114 Sum_probs=22.2
Q ss_pred ccCCCEEE--EEEcCCCCceEEEcCCCcEEEEcCCceEe
Q psy6758 26 IQEGEKLF--LIKKTNKDWWQVIRSSGKPFYVPASYVEV 62 (101)
Q Consensus 26 ~~~g~~l~--vl~~~~~~Ww~~~~~~g~~G~vP~~yv~~ 62 (101)
++.|+.+. |.+-.+ .-..+....+..|++|.+.+..
T Consensus 2 ~~~G~iv~g~V~~v~~-~g~~V~l~~~~~g~ip~~~l~~ 39 (74)
T PF00575_consen 2 LKEGDIVEGKVTSVED-FGVFVDLGNGIEGFIPISELSD 39 (74)
T ss_dssp SSTTSEEEEEEEEEET-TEEEEEESTSSEEEEEGGGSSS
T ss_pred CCCCCEEEEEEEEEEC-CEEEEEECCcEEEEEEeehhcC
Confidence 35677775 333333 3344555468899999877754
No 73
>PF06560 GPI: Glucose-6-phosphate isomerase (GPI); InterPro: IPR010551 This entry consists of several bacterial and archaeal glucose-6-phosphate isomerase (GPI) proteins (5.3.1.9 from EC), which are involved in glycolysis and in gluconeogenesis and catalyse the conversion of D-glucose 6-phosphate to D-fructose 6-phosphate. The deduced amino acid sequence of the first archaeal PGI isolated from Pyrococcus furiosus revealed that it is not related to its eukaryotic and many of its bacterial counterparts. In contrast, this archaeal PGI shares similarity with the cupin superfamily that consists of a variety of proteins that are generally involved in sugar metabolism in both prokaryotes and eukaryotes [].; GO: 0004347 glucose-6-phosphate isomerase activity, 0006094 gluconeogenesis, 0006096 glycolysis, 0005737 cytoplasm; PDB: 1J3Q_B 1J3R_B 1J3P_A 2GC0_A 1X8E_A 1X82_A 1QY4_B 2GC2_B 1QXJ_A 1QXR_B ....
Probab=26.78 E-value=1.4e+02 Score=20.17 Aligned_cols=39 Identities=28% Similarity=0.448 Sum_probs=26.0
Q ss_pred cCCCEEEEEEcCCC----CceEEEcCCCcEEEEcCCceEeccc
Q psy6758 27 QEGEKLFLIKKTNK----DWWQVIRSSGKPFYVPASYVEVYKK 65 (101)
Q Consensus 27 ~~g~~l~vl~~~~~----~Ww~~~~~~g~~G~vP~~yv~~~~~ 65 (101)
-.|+-+.++++.+. ++|..+-..|..-+||..|....-.
T Consensus 90 l~G~g~~lLq~~~~~~~~~~~~v~~~~G~~v~IPp~yaH~tIN 132 (182)
T PF06560_consen 90 LSGEGLILLQKEEGDDVGDVIAVEAKPGDVVYIPPGYAHRTIN 132 (182)
T ss_dssp EESSEEEEEE-TTS-----EEEEEE-TTEEEEE-TT-EEEEEE
T ss_pred EeCEEEEEEEecCCCcceeEEEEEeCCCCEEEECCCceEEEEE
Confidence 36888888888765 6777777788889999998876443
No 74
>cd04454 S1_Rrp4_like S1_Rrp4_like: Rrp4-like, S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. Rrp4 protein, and Rrp40 and Csl4 proteins, also represented in this group, are subunits of the exosome complex. The exosome plays a central role in 3' to 5' RNA processing and degradation in eukarytes and archaea. Its functions include the removal of incorrectly processed RNA and the maintenance of proper levels of mRNA, rRNA and a number of small RNA species. In Saccharomyces cerevisiae, the exosome includes nine core components, six of which are homologous to bacterial RNase PH. These form a hexameric ring structure. The other three subunits (RrP4, Rrp40, and Csl4) contain an S1 RNA binding domain and are part of the "S1 pore structure".
Probab=25.41 E-value=1.3e+02 Score=16.71 Aligned_cols=34 Identities=18% Similarity=0.248 Sum_probs=23.5
Q ss_pred cCCCEEE--EEEcCCCCceEEEcCCCcEEEEcCCceE
Q psy6758 27 QEGEKLF--LIKKTNKDWWQVIRSSGKPFYVPASYVE 61 (101)
Q Consensus 27 ~~g~~l~--vl~~~~~~Ww~~~~~~g~~G~vP~~yv~ 61 (101)
++|+++. |.+- ..++|.+....+.+|++|.+-+.
T Consensus 5 ~~GdiV~G~V~~v-~~~~~~V~i~~~~~g~l~~~~~~ 40 (82)
T cd04454 5 DVGDIVIGIVTEV-NSRFWKVDILSRGTARLEDSSAT 40 (82)
T ss_pred CCCCEEEEEEEEE-cCCEEEEEeCCCceEEeechhcc
Confidence 5678764 3443 45677787756688999987664
No 75
>PRK03187 tgl transglutaminase; Provisional
Probab=24.14 E-value=99 Score=22.35 Aligned_cols=23 Identities=17% Similarity=0.323 Sum_probs=17.6
Q ss_pred cccCCCEEEEEEcC-C--CCceEEEc
Q psy6758 25 RIQEGEKLFLIKKT-N--KDWWQVIR 47 (101)
Q Consensus 25 s~~~g~~l~vl~~~-~--~~Ww~~~~ 47 (101)
.+-+||.+..-+.+ + ..+|+|++
T Consensus 165 ~~~PGD~vYFkNPd~~p~tp~WqGeN 190 (272)
T PRK03187 165 DFLPGDCVYFKNPDFNPATPEWQGEN 190 (272)
T ss_pred CCCCCcEEEecCCCCCCCCCccccee
Confidence 56789999887765 2 36999987
No 76
>PF08460 SH3_5: Bacterial SH3 domain; InterPro: IPR013667 SH3 (src Homology-3) domains are small protein modules containing approximately 50 amino acid residues [, ]. They are found in a great variety of intracellular or membrane-associated proteins [, , ] for example, in a variety of proteins with enzymatic activity, in adaptor proteins that lack catalytic sequences and in cytoskeletal proteins, such as fodrin and yeast actin binding protein ABP-1. The SH3 domain has a characteristic fold which consists of five or six beta-strands arranged as two tightly packed anti-parallel beta sheets. The linker regions may contain short helices []. The surface of the SH3-domain bears a flat, hydrophobic ligand-binding pocket which consists of three shallow grooves defined by conservative aromatic residues in which the ligand adopts an extended left-handed helical arrangement. The ligand binds with low affinity but this may be enhanced by multiple interactions. The region bound by the SH3 domain is in all cases proline-rich and contains PXXP as a core-conserved binding motif. The function of the SH3 domain is not well understood but they may mediate many diverse processes such as increasing local concentration of proteins, altering their subcellular location and mediating the assembly of large multiprotein complexes []. The SH3 domain has been found in a number of different bacterial proteins including glycyl-glycine endopeptidase, bacteriocin and some hypothetical proteins.; GO: 0016787 hydrolase activity; PDB: 1R77_B.
Probab=22.91 E-value=1.5e+02 Score=16.36 Aligned_cols=35 Identities=26% Similarity=0.346 Sum_probs=17.7
Q ss_pred CCccccCCCEEE---EEEcCCCCceEEEcCCCcEEEEc
Q psy6758 22 KYVRIQEGEKLF---LIKKTNKDWWQVIRSSGKPFYVP 56 (101)
Q Consensus 22 ~eLs~~~g~~l~---vl~~~~~~Ww~~~~~~g~~G~vP 56 (101)
..-.+.+|+.+. ++..++--|-.-...+|..+|+|
T Consensus 27 ~~~~~~~G~~V~YD~~~~~dGy~Wisy~~~sG~r~Yva 64 (65)
T PF08460_consen 27 VVGTYPKGQSVNYDQVIKADGYVWISYISYSGQRRYVA 64 (65)
T ss_dssp EEEEE-TT-EEEEEEEEEETTEEEEEEE-TT--EEEEE
T ss_pred eEEEECCCCEEEEEEEEEeCCEEEEEEECCCCeEEEEE
Confidence 355678898885 44444334544444567778876
No 77
>COG2140 Thermophilic glucose-6-phosphate isomerase and related metalloenzymes [Carbohydrate transport and metabolism / General function prediction only]
Probab=22.78 E-value=2.3e+02 Score=19.69 Aligned_cols=38 Identities=24% Similarity=0.396 Sum_probs=21.0
Q ss_pred CCCEEEEEEcCCCCceEEEcCCCcEEEEcCCceEeccc
Q psy6758 28 EGEKLFLIKKTNKDWWQVIRSSGKPFYVPASYVEVYKK 65 (101)
Q Consensus 28 ~g~~l~vl~~~~~~Ww~~~~~~g~~G~vP~~yv~~~~~ 65 (101)
+|+-..++.+....=-..+...|..+|||.+|-.....
T Consensus 111 ~G~g~m~v~~~~G~~~v~~~~~Gd~iyVPp~~gH~t~N 148 (209)
T COG2140 111 KGEGRMLVQKPEGEARVIAVRAGDVIYVPPGYGHYTIN 148 (209)
T ss_pred eccEEEEEEcCCCcEEEEEecCCcEEEeCCCcceEeec
Confidence 34444555554322111122357899999988776543
No 78
>PF13621 Cupin_8: Cupin-like domain; PDB: 3AL6_C 3AL5_C 2XUM_A 2Y0I_A 1MZE_A 3KCY_A 1MZF_A 1YCI_A 2ILM_A 1H2L_A ....
Probab=21.84 E-value=64 Score=21.62 Aligned_cols=20 Identities=30% Similarity=0.898 Sum_probs=9.1
Q ss_pred CccccCCCEEEEEEcCCCCceEEE
Q psy6758 23 YVRIQEGEKLFLIKKTNKDWWQVI 46 (101)
Q Consensus 23 eLs~~~g~~l~vl~~~~~~Ww~~~ 46 (101)
+..+.+||+|.| ..+||+.-
T Consensus 210 ~~~l~pGD~Lfi----P~gWwH~V 229 (251)
T PF13621_consen 210 EVVLEPGDVLFI----PPGWWHQV 229 (251)
T ss_dssp EEEEETT-EEEE-----TT-EEEE
T ss_pred EEEECCCeEEEE----CCCCeEEE
Confidence 445556666655 34566543
No 79
>PF01191 RNA_pol_Rpb5_C: RNA polymerase Rpb5, C-terminal domain; InterPro: IPR000783 Prokaryotes contain a single DNA-dependent RNA polymerase (RNAP; 2.7.7.6 from EC) that is responsible for the transcription of all genes, while eukaryotes have three classes of RNAPs (I-III) that transcribe different sets of genes. Each class of RNA polymerase is an assemblage of ten to twelve different polypeptides. Certain subunits of RNAPs, including RPB5 (POLR2E in mammals), are common to all three eukaryotic polymerases. RPB5 plays a role in the transcription activation process. Eukaryotic RPB5 has a bipartite structure consisting of a unique N-terminal region (IPR005571 from INTERPRO), plus a C-terminal region that is structurally homologous to the prokaryotic RPB5 homologue, subunit H (gene rpoH) [, , , ]. This entry represents prokaryotic subunit H and the C-terminal domain of eukaryotic RPB5, which share a two-layer alpha/beta fold, with a core structure of beta/alpha/beta/alpha/beta(2). ; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 1EIK_A 2Y0S_Z 1DZF_A 3GTG_E 2VUM_E 3GTP_E 3GTO_E 3S17_E 3S1R_E 1I3Q_E ....
Probab=21.84 E-value=72 Score=18.36 Aligned_cols=16 Identities=25% Similarity=0.607 Sum_probs=12.1
Q ss_pred CccccCCCEEEEEEcC
Q psy6758 23 YVRIQEGEKLFLIKKT 38 (101)
Q Consensus 23 eLs~~~g~~l~vl~~~ 38 (101)
.+.+++||++.|++++
T Consensus 46 ~~g~k~GdVvkI~R~S 61 (74)
T PF01191_consen 46 YLGAKPGDVVKIIRKS 61 (74)
T ss_dssp HTT--TTSEEEEEEEE
T ss_pred hcCCCCCCEEEEEecC
Confidence 5678999999999876
Done!