Query psy12414
Match_columns 71
No_of_seqs 159 out of 1019
Neff 9.7
Searched_HMMs 46136
Date Fri Aug 16 18:38:21 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy12414.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/12414hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF00017 SH2: SH2 domain; Int 100.0 4.7E-28 1E-32 120.1 7.2 71 1-71 1-74 (77)
2 smart00252 SH2 Src homology 2 99.9 3.4E-27 7.3E-32 118.6 9.1 71 1-71 3-75 (84)
3 cd00173 SH2 Src homology 2 dom 99.9 4.9E-26 1.1E-30 116.1 9.1 71 1-71 2-74 (94)
4 KOG0790|consensus 99.8 2.4E-20 5.1E-25 115.2 6.5 71 1-71 112-193 (600)
5 KOG4637|consensus 99.8 6.7E-20 1.4E-24 110.9 5.3 71 1-71 25-96 (464)
6 KOG4226|consensus 99.8 1.6E-19 3.4E-24 106.2 6.5 70 1-71 283-354 (379)
7 KOG4278|consensus 99.8 1.7E-19 3.7E-24 115.9 6.3 71 1-71 154-226 (1157)
8 KOG4792|consensus 99.8 8.2E-19 1.8E-23 100.8 7.2 70 1-71 13-91 (293)
9 KOG2996|consensus 99.7 4.7E-17 1E-21 103.3 5.3 71 1-71 687-758 (865)
10 KOG1264|consensus 99.6 3.4E-16 7.4E-21 102.3 5.7 71 1-71 536-618 (1267)
11 KOG1264|consensus 99.6 3.9E-16 8.4E-21 102.0 5.8 69 1-71 650-720 (1267)
12 KOG0197|consensus 99.6 4.7E-16 1E-20 97.0 5.9 71 1-71 83-165 (468)
13 KOG4637|consensus 99.6 8.6E-16 1.9E-20 93.3 4.0 70 1-71 334-405 (464)
14 KOG1930|consensus 99.6 1.5E-15 3.3E-20 93.2 5.0 71 1-71 214-303 (483)
15 KOG0194|consensus 99.5 9.7E-14 2.1E-18 87.2 7.9 69 1-71 51-126 (474)
16 KOG0790|consensus 99.5 5.3E-14 1.2E-18 87.5 4.8 71 1-71 6-78 (600)
17 KOG3601|consensus 99.4 1E-13 2.2E-18 78.9 0.3 70 1-71 60-131 (222)
18 PF14633 SH2_2: SH2 domain; PD 98.8 9.7E-08 2.1E-12 55.5 7.8 66 5-71 43-118 (220)
19 KOG3751|consensus 98.6 3.1E-08 6.8E-13 63.1 3.2 71 1-71 521-599 (622)
20 KOG4566|consensus 97.8 3.4E-05 7.5E-10 45.9 4.0 58 1-58 54-112 (258)
21 KOG3697|consensus 97.5 0.00013 2.8E-09 44.2 3.1 68 1-71 203-318 (345)
22 KOG1856|consensus 97.4 0.00021 4.5E-09 49.7 3.2 67 5-71 1113-1188(1299)
23 PF14633 SH2_2: SH2 domain; PD 97.1 0.00044 9.6E-09 40.5 2.3 64 7-71 142-213 (220)
24 PF02762 Cbl_N3: CBL proto-onc 96.8 0.02 4.2E-07 28.4 6.1 40 2-41 5-47 (86)
25 KOG1856|consensus 95.5 0.079 1.7E-06 37.7 6.2 64 7-71 1212-1281(1299)
26 KOG3667|consensus 94.1 0.095 2.1E-06 35.3 3.7 48 3-50 567-616 (682)
27 smart00557 IG_FLMN Filamin-typ 91.6 0.35 7.7E-06 24.3 3.1 27 16-42 51-78 (93)
28 KOG1785|consensus 87.2 1 2.3E-05 29.1 3.3 39 2-40 259-300 (563)
29 PF00630 Filamin: Filamin/ABP2 86.3 1.2 2.6E-05 22.3 2.8 26 17-42 66-92 (101)
30 COG1724 Predicted RNA binding 78.3 3.9 8.4E-05 19.7 2.6 25 4-30 5-29 (66)
31 KOG3508|consensus 78.0 1.6 3.4E-05 30.9 1.6 51 1-51 83-136 (932)
32 PF10505 NARG2_C: NMDA recepto 67.6 17 0.00037 21.6 4.1 26 13-40 138-164 (220)
33 KOG0518|consensus 64.1 13 0.00029 27.0 3.6 25 17-41 903-928 (1113)
34 PF00408 PGM_PMM_IV: Phosphogl 63.6 7.4 0.00016 18.5 1.8 15 18-32 32-47 (73)
35 PF11469 Ribonucleas_3_2: Ribo 61.5 3.6 7.9E-05 21.7 0.5 17 1-17 70-86 (120)
36 PF09430 DUF2012: Protein of u 52.7 31 0.00068 18.3 3.2 30 19-50 28-59 (123)
37 PF13266 DUF4057: Protein of u 52.5 19 0.00042 22.4 2.6 27 2-28 51-77 (302)
38 cd00214 Calpain_III Calpain, s 51.5 28 0.00061 19.0 3.0 11 19-29 116-126 (150)
39 COG1576 Uncharacterized conser 50.9 16 0.00034 20.6 1.9 21 7-27 53-73 (155)
40 KOG3997|consensus 49.8 8.8 0.00019 23.2 0.9 28 1-28 40-78 (281)
41 smart00720 calpain_III calpain 48.4 39 0.00084 18.1 3.2 11 19-29 111-121 (143)
42 PF01067 Calpain_III: Calpain 44.6 45 0.00097 17.7 3.1 11 19-29 115-125 (147)
43 PF14591 AF0941-like: AF0941-l 42.7 21 0.00045 19.5 1.5 15 2-16 54-68 (127)
44 TIGR03573 WbuX N-acetyl sugar 42.5 14 0.0003 23.2 1.0 15 3-17 300-314 (343)
45 PF09634 DUF2025: Protein of u 39.9 15 0.00033 18.9 0.7 16 18-33 23-38 (106)
46 COG2921 Uncharacterized conser 38.1 40 0.00087 17.3 2.0 26 14-39 35-62 (90)
47 PRK15255 fimbrial outer membra 36.5 93 0.002 22.2 4.2 32 19-50 302-336 (829)
48 KOG0723|consensus 35.1 30 0.00064 18.4 1.4 15 2-16 49-63 (112)
49 PF03563 Bunya_G2: Bunyavirus 35.1 13 0.00028 22.9 0.0 46 6-51 101-149 (285)
50 PF08846 DUF1816: Domain of un 34.4 29 0.00064 16.8 1.2 16 1-16 24-39 (68)
51 PF09121 Tower: Tower; InterP 33.7 35 0.00075 14.9 1.2 11 18-28 4-14 (42)
52 PF04162 Gyro_capsid: Gyroviru 33.3 1.2E+02 0.0026 19.6 3.9 15 14-28 48-62 (449)
53 PF13620 CarboxypepD_reg: Carb 32.8 61 0.0013 15.2 2.7 24 18-43 35-59 (82)
54 PF07935 SSV1_ORF_D-335: ORF D 32.7 69 0.0015 15.7 2.7 29 20-49 5-35 (72)
55 PF03443 Glyco_hydro_61: Glyco 32.1 26 0.00057 20.7 1.0 10 18-27 146-155 (218)
56 COG3908 Uncharacterized protei 30.8 71 0.0015 15.6 2.2 11 31-41 26-37 (77)
57 PRK15273 putative fimbrial out 30.6 1.3E+02 0.0028 21.8 4.1 32 19-50 300-334 (881)
58 COG4398 Uncharacterized protei 30.3 39 0.00085 21.4 1.5 34 17-50 260-298 (389)
59 PF14334 DUF4390: Domain of un 30.3 1E+02 0.0023 17.1 4.2 62 9-70 32-101 (165)
60 COG3549 HigB Plasmid maintenan 30.2 88 0.0019 16.2 3.4 27 13-43 55-82 (94)
61 KOG3508|consensus 29.7 45 0.00098 24.2 1.9 35 1-35 232-267 (932)
62 PF09625 VP9: VP9 protein; In 29.4 77 0.0017 15.8 2.2 17 24-40 29-46 (79)
63 PRK15284 putative fimbrial out 27.9 1.5E+02 0.0032 21.5 4.1 32 19-50 322-356 (881)
64 COG3456 Predicted component of 26.1 58 0.0013 21.5 1.8 17 44-60 49-65 (430)
65 PRK03298 hypothetical protein; 26.1 26 0.00057 21.0 0.3 18 11-28 23-40 (224)
66 COG1637 Predicted nuclease of 25.9 14 0.00031 22.5 -0.8 19 11-29 50-68 (253)
67 PF00577 Usher: Outer membrane 25.0 2E+02 0.0044 19.2 4.2 32 19-50 116-151 (552)
68 KOG0291|consensus 24.9 2.6E+02 0.0057 20.4 4.7 33 18-50 64-96 (893)
69 TIGR03769 P_ac_wall_RPT actino 24.7 75 0.0016 13.6 1.6 11 30-40 10-21 (41)
70 PF04485 NblA: Phycobilisome d 24.3 67 0.0014 14.8 1.4 13 4-16 20-32 (53)
71 PF00432 Prenyltrans: Prenyltr 24.3 24 0.00052 15.0 -0.1 21 7-27 2-24 (44)
72 PRK11251 DNA-binding transcrip 23.8 1.3E+02 0.0028 15.9 4.3 47 5-53 39-86 (109)
73 PF13983 YsaB: YsaB-like lipop 23.8 1.1E+02 0.0023 15.0 2.7 30 19-48 45-75 (77)
74 PF04355 SmpA_OmlA: SmpA / Oml 23.5 60 0.0013 15.1 1.3 12 5-16 15-26 (71)
75 PF07095 IgaA: Intracellular g 23.4 1.3E+02 0.0029 21.3 3.1 21 10-30 564-584 (705)
76 PRK10518 alkaline phosphatase; 23.3 92 0.002 20.9 2.3 21 9-29 331-351 (476)
77 PRK15223 pilin outer membrane 22.9 2.2E+02 0.0047 20.5 4.2 32 19-50 302-337 (836)
78 smart00098 alkPPc Alkaline pho 22.7 94 0.002 20.4 2.3 21 9-29 241-261 (419)
79 PF13342 Toprim_Crpt: C-termin 22.6 91 0.002 14.6 1.7 17 5-21 15-31 (62)
80 PF08272 Topo_Zn_Ribbon: Topoi 22.4 4.4 9.6E-05 17.7 -2.6 9 19-27 11-19 (42)
81 PTZ00391 transport protein par 21.9 47 0.001 19.0 0.8 32 6-38 74-106 (168)
82 PLN03181 glycosyltransferase; 21.8 45 0.00098 22.1 0.7 11 19-29 247-257 (453)
83 PRK15294 putative fimbrial out 21.7 2.3E+02 0.0051 20.4 4.1 32 19-50 307-342 (845)
84 PF02070 NMU: Neuromedin U; I 21.5 72 0.0016 12.2 1.1 10 19-28 15-24 (25)
85 PF15517 TBPIP_N: TBP-interact 21.4 1.4E+02 0.003 15.5 2.3 16 7-22 48-63 (99)
86 COG5453 Uncharacterized conser 21.3 1.4E+02 0.003 15.4 4.1 31 19-49 27-63 (96)
87 KOG0177|consensus 20.8 62 0.0013 19.0 1.1 16 1-16 146-161 (200)
88 PF11423 Repressor_Mnt: Regula 20.4 49 0.0011 13.3 0.5 6 9-14 2-7 (30)
89 KOG4748|consensus 20.4 58 0.0013 21.0 1.0 11 19-29 250-260 (364)
90 smart00084 NMU Neuromedin U. N 20.3 79 0.0017 12.2 1.2 10 19-28 15-24 (26)
91 PRK15304 putative fimbrial out 20.2 2.7E+02 0.0058 20.0 4.1 32 19-50 288-323 (801)
92 PRK15298 fimbrial outer membra 20.2 2.7E+02 0.0059 20.1 4.2 32 19-50 311-346 (848)
93 COG3721 HugX Putative heme iro 20.1 75 0.0016 18.1 1.3 18 5-22 12-29 (176)
94 PRK15235 outer membrane fimbri 20.0 2.7E+02 0.0058 20.1 4.1 32 19-50 286-324 (814)
No 1
>PF00017 SH2: SH2 domain; InterPro: IPR000980 The Src homology 2 (SH2) domain is a protein domain of about 100 amino-acid residues first identified as a conserved sequence region between the oncoproteins Src and Fps []. Similar sequences were later found in many other intracellular signal-transducing proteins []. SH2 domains function as regulatory modules of intracellular signalling cascades by interacting with high affinity to phosphotyrosine-containing target peptides in a sequence-specific, SH2 domains recognise between 3-6 residues C-terminal to the phosphorylated tyrosine in a fashion that differs from one SH2 domain to another, and strictly phosphorylation-dependent manner [, , , ]. They are found in a wide variety of protein contexts e.g., in association with catalytic domains of phospholipase Cy (PLCy) and the non-receptor protein tyrosine kinases; within structural proteins such as fodrin and tensin; and in a group of small adaptor molecules, i.e Crk and Nck. The domains are frequently found as repeats in a single protein sequence and will then often bind both mono- and di-phosphorylated substrates. The structure of the SH2 domain belongs to the alpha+beta class, its overall shape forming a compact flattened hemisphere. The core structural elements comprise a central hydrophobic anti-parallel beta-sheet, flanked by 2 short alpha-helices. The loop between strands 2 and 3 provides many of the binding interactions with the phosphate group of its phosphopeptide ligand, and is hence designated the phosphate binding loop, the phosphorylated ligand binds perpendicular to the beta-sheet and typically interacts with the phosphate binding loop and a hydrophobic binding pocket that interacts with a pY+3 side chain. The N- and C-termini of the domain are close together in space and on the opposite face from the phosphopeptide binding surface and it has been speculated that this has facilitated their integration into surface-exposed regions of host proteins [].; GO: 0005515 protein binding; PDB: 1M27_A 1KA6_A 1D4W_B 1D4T_A 1D1Z_B 1KA7_A 1UUR_A 1UUS_A 1BLJ_A 1BLK_A ....
Probab=99.95 E-value=4.7e-28 Score=120.07 Aligned_cols=71 Identities=45% Similarity=0.781 Sum_probs=66.5
Q ss_pred CcccCCCHHHHHHhhCC-CCCceEEEEecCCCCCce-EEEEeCCeEEEEEEEeeCCe-EEECCCCCcCChhHhC
Q psy12414 1 WFHGKISRETAESLLAP-KEDGLFLVRESTNFPQDF-MCVCFESKVEHYRVKYKEAH-LTIDDEEFFENLAQLV 71 (71)
Q Consensus 1 w~~g~i~r~~a~~~L~~-~~~G~fliR~s~~~~~~~-Ls~~~~~~v~h~~I~~~~~~-~~~~~~~~F~sl~~Lv 71 (71)
||||.|+|++|+++|+. .++|+||||.|.+.++.| ||++.++.++||+|.+++++ |++.+...|+||.+||
T Consensus 1 W~~g~isr~~Ae~~L~~~~~~G~FLvR~s~~~~~~~~Lsv~~~~~v~h~~I~~~~~~~~~~~~~~~F~sl~~LV 74 (77)
T PF00017_consen 1 WFHGFISRQEAERLLMQGKPDGTFLVRPSSSKPGKYVLSVRFDGKVKHFRINRTENGGYFLSDGKKFPSLSDLV 74 (77)
T ss_dssp TBEESSHHHHHHHHHHTTSSTTEEEEEEESSSTTSEEEEEEETTEEEEEEEEEETTSEEESSTSSEBSSHHHHH
T ss_pred CcCCCCCHHHHHHHHHhcCCCCeEEEEeccccccccccccccccccEEEEEEecCCceEEccCCCcCCCHHHHH
Confidence 99999999999999987 899999999999889999 99999999999999998764 8888878899999996
No 2
>smart00252 SH2 Src homology 2 domains. Src homology 2 domains bind phosphotyrosine-containing polypeptides via 2 surface pockets. Specificity is provided via interaction with residues that are distinct from the phosphotyrosine. Only a single occurrence of a SH2 domain has been found in S. cerevisiae.
Probab=99.95 E-value=3.4e-27 Score=118.59 Aligned_cols=71 Identities=45% Similarity=0.784 Sum_probs=66.8
Q ss_pred CcccCCCHHHHHHhhCCCCCceEEEEecCCCCCce-EEEEeCCeEEEEEEEeeC-CeEEECCCCCcCChhHhC
Q psy12414 1 WFHGKISRETAESLLAPKEDGLFLVRESTNFPQDF-MCVCFESKVEHYRVKYKE-AHLTIDDEEFFENLAQLV 71 (71)
Q Consensus 1 w~~g~i~r~~a~~~L~~~~~G~fliR~s~~~~~~~-Ls~~~~~~v~h~~I~~~~-~~~~~~~~~~F~sl~~Lv 71 (71)
||||.|+|++|+++|.+.++|+||||.|++.++.| ||++.++.++||+|...+ +.|.+.+...|+||.|||
T Consensus 3 w~~g~i~r~~Ae~lL~~~~~G~FLvR~s~~~~~~~~Lsv~~~~~~~h~~I~~~~~~~~~l~~~~~F~sl~eLI 75 (84)
T smart00252 3 WYHGFISREEAEKLLKNEGDGDFLVRDSESEPGDYVLSVRVKGKVKHYRIRRNEDGKFYLDGGRKFPSLVELV 75 (84)
T ss_pred eecccCCHHHHHHHHhcCCCcEEEEEcCCCCCCCEEEEEEECCEEEEEEEEECCCCcEEECCCCccCCHHHHH
Confidence 99999999999999998889999999999888999 999999999999999886 789998778999999986
No 3
>cd00173 SH2 Src homology 2 domains; Signal transduction, involved in recognition of phosphorylated tyrosine (pTyr). SH2 domains typically bind pTyr-containing ligands via two surface pockets, a pTyr and hydrophobic binding pocket, allowing proteins with SH2 domains to localize to tyrosine phosphorylated sites.
Probab=99.94 E-value=4.9e-26 Score=116.11 Aligned_cols=71 Identities=42% Similarity=0.751 Sum_probs=65.2
Q ss_pred CcccCCCHHHHHHhhCCCCCceEEEEecCCCCCce-EEEEeCCeEEEEEEEeeCCeEEECC-CCCcCChhHhC
Q psy12414 1 WFHGKISRETAESLLAPKEDGLFLVRESTNFPQDF-MCVCFESKVEHYRVKYKEAHLTIDD-EEFFENLAQLV 71 (71)
Q Consensus 1 w~~g~i~r~~a~~~L~~~~~G~fliR~s~~~~~~~-Ls~~~~~~v~h~~I~~~~~~~~~~~-~~~F~sl~~Lv 71 (71)
||||.|+|++|+++|++.++|+||||.|++.++.| ||++.++.++|++|...++++.+.. ...|+||.|||
T Consensus 2 w~~g~i~r~~Ae~~L~~~~~G~FLiR~s~~~~~~~~Lsv~~~~~v~H~~I~~~~~~~~~~~~~~~f~sl~eLv 74 (94)
T cd00173 2 WYHGPISREEAEELLKKKPDGTFLVRDSESSPGDYVLSVRVKGKVKHYRIERTDDGYYLLGEGRSFPSLPELI 74 (94)
T ss_pred ccccCCCHHHHHHHHhcCCCceEEEEecCCCCCCEEEEEEECCEEEEEEEEECCCCeEEecCCCccCCHHHHH
Confidence 99999999999999999999999999999889999 9999999999999999877666654 68999999986
No 4
>KOG0790|consensus
Probab=99.82 E-value=2.4e-20 Score=115.20 Aligned_cols=71 Identities=41% Similarity=0.725 Sum_probs=66.7
Q ss_pred CcccCCCHHHHHHhhC-CCCCceEEEEecCCCCCce-EEEEeCC---------eEEEEEEEeeCCeEEECCCCCcCChhH
Q psy12414 1 WFHGKISRETAESLLA-PKEDGLFLVRESTNFPQDF-MCVCFES---------KVEHYRVKYKEAHLTIDDEEFFENLAQ 69 (71)
Q Consensus 1 w~~g~i~r~~a~~~L~-~~~~G~fliR~s~~~~~~~-Ls~~~~~---------~v~h~~I~~~~~~~~~~~~~~F~sl~~ 69 (71)
||||.++.++||.||. ....|+||||+|.+.||+| ||++.++ +|.|..|...++.|.+++...|.||.+
T Consensus 112 WfHG~LsgkeAekLl~ekgk~gsfLvReSqs~PGdfVlSvrTdd~~~~~~~~~kVtHvmI~~q~~kydVGgge~F~sltd 191 (600)
T KOG0790|consen 112 WFHGHLSGKEAEKLLQEKGKHGSFLVRESQSHPGDFVLSVRTDDKKESNDSKLKVTHVMIRCQEGKYDVGGGERFDSLTD 191 (600)
T ss_pred hhccCCCchhHHHHHHhcCCCccEEEeccccCCCceEEEEEcCCcccCCCCccceEEEEEEecccccccCCccccchHHH
Confidence 9999999999999995 5789999999999999999 9999854 899999999999999998999999999
Q ss_pred hC
Q psy12414 70 LV 71 (71)
Q Consensus 70 Lv 71 (71)
||
T Consensus 192 Li 193 (600)
T KOG0790|consen 192 LV 193 (600)
T ss_pred HH
Confidence 86
No 5
>KOG4637|consensus
Probab=99.80 E-value=6.7e-20 Score=110.89 Aligned_cols=71 Identities=24% Similarity=0.517 Sum_probs=68.1
Q ss_pred CcccCCCHHHHHHhhCCCCCceEEEEecCCCCCce-EEEEeCCeEEEEEEEeeCCeEEECCCCCcCChhHhC
Q psy12414 1 WFHGKISRETAESLLAPKEDGLFLVRESTNFPQDF-MCVCFESKVEHYRVKYKEAHLTIDDEEFFENLAQLV 71 (71)
Q Consensus 1 w~~g~i~r~~a~~~L~~~~~G~fliR~s~~~~~~~-Ls~~~~~~v~h~~I~~~~~~~~~~~~~~F~sl~~Lv 71 (71)
||||.|+|+++...|.++|+|+||||+..+.+|.| |+++.++.++-++|.+.+|+|-+.+...|.|+++||
T Consensus 25 WYWgdisReev~~~L~d~PDGsFlVRdAstm~GdYTLtl~k~g~~KLikI~h~DgKyGF~d~ltf~SVVelI 96 (464)
T KOG4637|consen 25 WYWGDISREEVNKKLRDQPDGSFLVRDASTMQGDYTLTLRKGGNNKLIKIVHRDGKYGFSDPLTFNSVVELI 96 (464)
T ss_pred ccccccCHHHHHHHhcCCCCCcEEeeccccCCCceEEEEecCCccceeeeEEecCccCCCCchhhHHHHHHH
Confidence 99999999999999999999999999988899999 999999999999999999998888889999999986
No 6
>KOG4226|consensus
Probab=99.80 E-value=1.6e-19 Score=106.23 Aligned_cols=70 Identities=30% Similarity=0.606 Sum_probs=66.3
Q ss_pred CcccCCCHHHHHHhh-CCCCCceEEEEecCCCCCce-EEEEeCCeEEEEEEEeeCCeEEECCCCCcCChhHhC
Q psy12414 1 WFHGKISRETAESLL-APKEDGLFLVRESTNFPQDF-MCVCFESKVEHYRVKYKEAHLTIDDEEFFENLAQLV 71 (71)
Q Consensus 1 w~~g~i~r~~a~~~L-~~~~~G~fliR~s~~~~~~~-Ls~~~~~~v~h~~I~~~~~~~~~~~~~~F~sl~~Lv 71 (71)
||.|.|+|.+||.+| ....+|+||||+|++.||+| +|++..++-+||++...++-|+|+ ...|.+|.+||
T Consensus 283 WYyG~itR~qae~~Ln~hG~eGdFLiRDSEsnpgD~SvSlka~grNKHFkVq~~d~~ycIG-qRkF~tmd~Lv 354 (379)
T KOG4226|consen 283 WYYGNITRHQAECALNEHGHEGDFLIRDSESNPGDFSVSLKASGRNKHFKVQLVDNVYCIG-QRKFHTMDELV 354 (379)
T ss_pred ceeccccHHHHHHHHhccCccCceEEecCCCCCcceeEEeeccCCCcceEEEEecceEEec-cceeccHHHHH
Confidence 999999999999999 56899999999999999999 999999999999999999999998 58899999986
No 7
>KOG4278|consensus
Probab=99.79 E-value=1.7e-19 Score=115.92 Aligned_cols=71 Identities=38% Similarity=0.757 Sum_probs=66.8
Q ss_pred CcccCCCHHHHHHhhCCCCCceEEEEecCCCCCce-EEEEeCCeEEEEEEEee-CCeEEECCCCCcCChhHhC
Q psy12414 1 WFHGKISRETAESLLAPKEDGLFLVRESTNFPQDF-MCVCFESKVEHYRVKYK-EAHLTIDDEEFFENLAQLV 71 (71)
Q Consensus 1 w~~g~i~r~~a~~~L~~~~~G~fliR~s~~~~~~~-Ls~~~~~~v~h~~I~~~-~~~~~~~~~~~F~sl~~Lv 71 (71)
||||.++|..||.+|.+.-.|+||||+|++.+|.| +|+++.+.|.||+|.-+ +++.++.....|.||.|||
T Consensus 154 WYHGpvSRsaaEy~LsSgInGSFLVRESEsSpgQ~sISlRyeGRVyHYRINt~~dgK~yvt~EsrF~TLaELV 226 (1157)
T KOG4278|consen 154 WYHGPVSRSAAEYILSSGINGSFLVRESESSPGQYSISLRYEGRVYHYRINTDNDGKMYVTQESRFRTLAELV 226 (1157)
T ss_pred cccCccccchhhhhhhcCcccceEEeeccCCCcceeEEEEecceEEEEEeeccCCccEEEeehhhhhHHHHHH
Confidence 99999999999999999999999999999999999 99999999999999876 5788887778999999996
No 8
>KOG4792|consensus
Probab=99.78 E-value=8.2e-19 Score=100.85 Aligned_cols=70 Identities=36% Similarity=0.713 Sum_probs=62.9
Q ss_pred CcccCCCHHHHHHhhCCCCCceEEEEecCCCCCce-EEEEeCCeEEEEEEEeeC--------CeEEECCCCCcCChhHhC
Q psy12414 1 WFHGKISRETAESLLAPKEDGLFLVRESTNFPQDF-MCVCFESKVEHYRVKYKE--------AHLTIDDEEFFENLAQLV 71 (71)
Q Consensus 1 w~~g~i~r~~a~~~L~~~~~G~fliR~s~~~~~~~-Ls~~~~~~v~h~~I~~~~--------~~~~~~~~~~F~sl~~Lv 71 (71)
||+|.|+|+||..+|+.+..|.||+|+|.+.||.| |||+.+..|.||.|.+.. ..+.|+ +..|++|+.|+
T Consensus 13 wYfg~mSRqeA~~lL~~~r~G~FLvRDSst~pGdYvLsV~E~srVshYiIn~~~p~~~~~~~~~~rIg-dQ~Fd~lPaLL 91 (293)
T KOG4792|consen 13 WYFGPMSRQEAVALLQGQRHGVFLVRDSSTSPGDYVLSVSENSRVSHYIINSSPPSPAQPPPSRLRIG-DQEFDSLPALL 91 (293)
T ss_pred eecCcccHHHHHHHhcCcceeeEEEecCCCCCCceEEEEecCcceeeeeecCCCCCccCCCcceeeec-cccccchHHHH
Confidence 99999999999999998889999999999999999 999999999999998721 268887 57899999874
No 9
>KOG2996|consensus
Probab=99.69 E-value=4.7e-17 Score=103.35 Aligned_cols=71 Identities=28% Similarity=0.656 Sum_probs=68.4
Q ss_pred CcccCCCHHHHHHhhCCCCCceEEEEecCCCCCce-EEEEeCCeEEEEEEEeeCCeEEECCCCCcCChhHhC
Q psy12414 1 WFHGKISRETAESLLAPKEDGLFLVRESTNFPQDF-MCVCFESKVEHYRVKYKEAHLTIDDEEFFENLAQLV 71 (71)
Q Consensus 1 w~~g~i~r~~a~~~L~~~~~G~fliR~s~~~~~~~-Ls~~~~~~v~h~~I~~~~~~~~~~~~~~F~sl~~Lv 71 (71)
||.|.|-|..||..|++.++|+||||.+....+.| +|+++++.|+|++|...+|.+.|.+...|.|+.|||
T Consensus 687 WyaG~MERaqaes~Lk~~~ngT~LVR~r~kea~e~AISikynnevKHikI~~~dg~~~i~E~k~F~sl~ELV 758 (865)
T KOG2996|consen 687 WYAGEMERAQAESTLKNRPNGTYLVRYRTKEAKEFAISIKYNNEVKHIKIETNDGKVHITEDKKFNSLVELV 758 (865)
T ss_pred hhcchHhhhhhhhHhhcCCCceEEEEecccchhheeEEEEeccccceEEEEecCCeEEechhhhhhhHHHHH
Confidence 99999999999999999999999999998888999 999999999999999999999999999999999986
No 10
>KOG1264|consensus
Probab=99.64 E-value=3.4e-16 Score=102.27 Aligned_cols=71 Identities=39% Similarity=0.724 Sum_probs=64.0
Q ss_pred CcccCCC-HHHHHHhhC------CCCCceEEEEecCCCCCce-EEEEeCCeEEEEEEEee--CC--eEEECCCCCcCChh
Q psy12414 1 WFHGKIS-RETAESLLA------PKEDGLFLVRESTNFPQDF-MCVCFESKVEHYRVKYK--EA--HLTIDDEEFFENLA 68 (71)
Q Consensus 1 w~~g~i~-r~~a~~~L~------~~~~G~fliR~s~~~~~~~-Ls~~~~~~v~h~~I~~~--~~--~~~~~~~~~F~sl~ 68 (71)
||||.+. |.+|+++|+ ..++|+||||+|..-.|+| ||+..+++|.|++|.-. +| +|++.++..|+||-
T Consensus 536 WFHgkle~R~eAekll~eycke~G~~dGtFlVReS~tFvgDytLSfwr~grv~HcRIrsk~e~gt~Kyyl~dN~vfdslY 615 (1267)
T KOG1264|consen 536 WFHGKLEGRTEAEKLLQEYCKETGGKDGTFLVRESETFVGDYTLSFWRSGRVQHCRIRSKMEGGTLKYYLTDNLVFDSLY 615 (1267)
T ss_pred hhhcccccchHHHHHHHHHHHHhCCCCccEEEeeccccccceeeeeeECCceeeEEEEeeecCCceeEEEecchhHHHHH
Confidence 9999999 999999986 2479999999999999999 99999999999999854 33 79999899999999
Q ss_pred HhC
Q psy12414 69 QLV 71 (71)
Q Consensus 69 ~Lv 71 (71)
+||
T Consensus 616 ~LI 618 (1267)
T KOG1264|consen 616 ALI 618 (1267)
T ss_pred HHH
Confidence 886
No 11
>KOG1264|consensus
Probab=99.64 E-value=3.9e-16 Score=102.01 Aligned_cols=69 Identities=30% Similarity=0.641 Sum_probs=61.1
Q ss_pred CcccCCCHHHHHHhhCC-CCCceEEEEecCCCCCce-EEEEeCCeEEEEEEEeeCCeEEECCCCCcCChhHhC
Q psy12414 1 WFHGKISRETAESLLAP-KEDGLFLVRESTNFPQDF-MCVCFESKVEHYRVKYKEAHLTIDDEEFFENLAQLV 71 (71)
Q Consensus 1 w~~g~i~r~~a~~~L~~-~~~G~fliR~s~~~~~~~-Ls~~~~~~v~h~~I~~~~~~~~~~~~~~F~sl~~Lv 71 (71)
|||...+|++||++|.. +.+|+|||| +...++.| ||++.+++++||+|.+++..|.++. ..|.||++||
T Consensus 650 W~~as~treqAE~mL~rvp~DGaFLiR-~~~~~nsy~iSfr~~gkikHcRi~rdGr~fvl~t-~~FesLv~lv 720 (1267)
T KOG1264|consen 650 WYHASLTREQAEDMLMRVPRDGAFLIR-KREGSNSYAISFRARGKIKHCRINRDGRHFVLGT-SAFESLVELV 720 (1267)
T ss_pred cccccccHHHHHHHHhhCccCcceEEE-eccCCceEEEEEEEcCcEeEEEEccCceEEEecc-HHHHHHHHHH
Confidence 99999999999999975 677999999 44567889 9999999999999998888888874 5699999986
No 12
>KOG0197|consensus
Probab=99.64 E-value=4.7e-16 Score=97.02 Aligned_cols=71 Identities=48% Similarity=0.768 Sum_probs=61.6
Q ss_pred CcccCCCHHHHHHhhCC--CCCceEEEEecCCCCCce-EEEEeCC------eEEEEEEEeeC-CeEE--ECCCCCcCChh
Q psy12414 1 WFHGKISRETAESLLAP--KEDGLFLVRESTNFPQDF-MCVCFES------KVEHYRVKYKE-AHLT--IDDEEFFENLA 68 (71)
Q Consensus 1 w~~g~i~r~~a~~~L~~--~~~G~fliR~s~~~~~~~-Ls~~~~~------~v~h~~I~~~~-~~~~--~~~~~~F~sl~ 68 (71)
||+|.|+|++||+.|.. ++.|+||||+|++.++.| ||++... .|+||+|...+ +++. +.....|++|.
T Consensus 83 Wf~~~isR~~ae~~ll~p~~~~G~flvR~se~~~g~yslsv~~~~~~~~~~~v~hyri~~~~~~~~~~~~~~~~~F~~l~ 162 (468)
T KOG0197|consen 83 WFFGKISREEAERQLLAPENKEGAFLVRESESDKGDYSLSVREGDSGGLGAKVKHYRIRQLDGGGLYPYIDERELFSSLQ 162 (468)
T ss_pred chhccccHHHHHHhhcCCCCCccceeeecccCCcCCeeEEEEeccccCCccceeeeeeeEcCCCCeecCCCHHHhhhhHH
Confidence 99999999999976654 466999999999999999 9999855 89999999874 5566 88779999999
Q ss_pred HhC
Q psy12414 69 QLV 71 (71)
Q Consensus 69 ~Lv 71 (71)
+||
T Consensus 163 ~lv 165 (468)
T KOG0197|consen 163 QLV 165 (468)
T ss_pred HHH
Confidence 986
No 13
>KOG4637|consensus
Probab=99.60 E-value=8.6e-16 Score=93.32 Aligned_cols=70 Identities=29% Similarity=0.498 Sum_probs=61.9
Q ss_pred CcccCCCHHHHHHhhCCCCCceEEEEecCCCCCce-EEEEeCCeEEEEEEEeeCCeEEECCC-CCcCChhHhC
Q psy12414 1 WFHGKISRETAESLLAPKEDGLFLVRESTNFPQDF-MCVCFESKVEHYRVKYKEAHLTIDDE-EFFENLAQLV 71 (71)
Q Consensus 1 w~~g~i~r~~a~~~L~~~~~G~fliR~s~~~~~~~-Ls~~~~~~v~h~~I~~~~~~~~~~~~-~~F~sl~~Lv 71 (71)
|+.+.+.|..||.+|+.+++|+||||.| ++.|+| +||..++.|+|+.|..+..+|-+... ..+.||.+||
T Consensus 334 w~~~~a~r~kAe~llrg~~dGtFLIR~s-s~~g~yalSV~~~~~V~HClIy~tatG~GFa~pyn~y~tlk~lV 405 (464)
T KOG4637|consen 334 WRVRDANRDKAEELLRGKPDGTFLIRES-SKGGCYALSVVHDGEVKHCLIYQTATGFGFAEPYNLYSTLKELV 405 (464)
T ss_pred hHHhhhhHHHHHHHhcCCCCCeEEEeec-cCCCceEEEEEECCceeeeEEeeccccccccchhHHHHHHHHHH
Confidence 8889999999999999999999999996 568999 99999999999999999888887654 5577777775
No 14
>KOG1930|consensus
Probab=99.60 E-value=1.5e-15 Score=93.18 Aligned_cols=71 Identities=32% Similarity=0.609 Sum_probs=61.7
Q ss_pred CcccCCCHHHHHHhhCCCCCceEEEEecCCCCCce-EEEEe----------C-----CeEEEEEEEeeCCeEEEC---CC
Q psy12414 1 WFHGKISRETAESLLAPKEDGLFLVRESTNFPQDF-MCVCF----------E-----SKVEHYRVKYKEAHLTID---DE 61 (71)
Q Consensus 1 w~~g~i~r~~a~~~L~~~~~G~fliR~s~~~~~~~-Ls~~~----------~-----~~v~h~~I~~~~~~~~~~---~~ 61 (71)
||...|+|++|..||+++++|+||||+|.+.+|.| |.++. + .-|+||.|.....+..+. +.
T Consensus 214 WYKP~isREQAIalLrdkePGtFvvRDS~SfrGayGLAlKVstPPPs~~~~~g~~~neLVRHFLIE~spkGVkLKGC~nE 293 (483)
T KOG1930|consen 214 WYKPNISREQAIALLRDKEPGTFVVRDSHSFRGAYGLALKVSTPPPSVQPGDGSDSNELVRHFLIEPSPKGVKLKGCDNE 293 (483)
T ss_pred ccCCCCCHHHHHHHhhcCCCCeEEEecCCcCCCccceEEEeccCCCcccCCCCCchhhhhhhheeccCCCceeccCCCCC
Confidence 99999999999999999999999999999999999 99885 1 348999999877666663 34
Q ss_pred CCcCChhHhC
Q psy12414 62 EFFENLAQLV 71 (71)
Q Consensus 62 ~~F~sl~~Lv 71 (71)
..|.||..||
T Consensus 294 P~FGSLSALV 303 (483)
T KOG1930|consen 294 PVFGSLSALV 303 (483)
T ss_pred CccchhHHHH
Confidence 7899998886
No 15
>KOG0194|consensus
Probab=99.52 E-value=9.7e-14 Score=87.24 Aligned_cols=69 Identities=35% Similarity=0.605 Sum_probs=59.5
Q ss_pred CcccCCCHHHHHHhhCCCCCceEEEEecCCCCCc---e--EEEEeC--CeEEEEEEEeeCCeEEECCCCCcCChhHhC
Q psy12414 1 WFHGKISRETAESLLAPKEDGLFLVRESTNFPQD---F--MCVCFE--SKVEHYRVKYKEAHLTIDDEEFFENLAQLV 71 (71)
Q Consensus 1 w~~g~i~r~~a~~~L~~~~~G~fliR~s~~~~~~---~--Ls~~~~--~~v~h~~I~~~~~~~~~~~~~~F~sl~~Lv 71 (71)
||||.+.|++|+.+|. .+|+||||.+...++. + ||+... ..++||.|.+.++.++......|+|+.+||
T Consensus 51 ~yHG~l~red~~~lL~--~~GDfLvR~s~~~~~~~~~~~vlSv~~~~~~~~~h~vi~~~~~~~~~~~~~~F~si~~li 126 (474)
T KOG0194|consen 51 YYHGLLPREDAEKLLK--NDGDFLVRASEPKEGEKREFVVLSVKWSVFKKIKHYVIKRNGNLFFFEGLRKFPTISELV 126 (474)
T ss_pred cccccccHhHHHHHhC--CCCceEEEeecccCCcceeEEEEEEEeecCCceeEEEEEEcCCeeEEeccccCCcHHHHH
Confidence 9999999999999999 6999999999876542 3 788874 789999999988877777779999999985
No 16
>KOG0790|consensus
Probab=99.48 E-value=5.3e-14 Score=87.50 Aligned_cols=71 Identities=38% Similarity=0.574 Sum_probs=66.6
Q ss_pred CcccCCCHHHHHHhhCC-CCCceEEEEecCCCCCce-EEEEeCCeEEEEEEEeeCCeEEECCCCCcCChhHhC
Q psy12414 1 WFHGKISRETAESLLAP-KEDGLFLVRESTNFPQDF-MCVCFESKVEHYRVKYKEAHLTIDDEEFFENLAQLV 71 (71)
Q Consensus 1 w~~g~i~r~~a~~~L~~-~~~G~fliR~s~~~~~~~-Ls~~~~~~v~h~~I~~~~~~~~~~~~~~F~sl~~Lv 71 (71)
|||..++..+||.||+. ..+|+||.|.|+++|+.| |+++.++.+.|.+|...++.|.+-++..|.++.|||
T Consensus 6 wfh~~~~g~~ae~Ll~~~g~dgsfl~r~s~sNp~~fsl~~r~~~~v~hikiq~~~~~~~l~~gekfat~~ELv 78 (600)
T KOG0790|consen 6 WFHPDLSGVEAETLLKERGVDGSFLARPSESNPGDFSLSVRRGDKVTHIKIQNSGDFYDLYGGEKFATLAELV 78 (600)
T ss_pred hcCCCccchhHHHHHHHhccccchhhccccCCCcceeEEEEeCCceEEEEEeecCccccccCCccccchHHHH
Confidence 99999999999999974 689999999999999999 999999999999999888888888889999999986
No 17
>KOG3601|consensus
Probab=99.36 E-value=1e-13 Score=78.94 Aligned_cols=70 Identities=39% Similarity=0.582 Sum_probs=61.4
Q ss_pred CcccCCCHHHHHHhhCCCCCceEEEEecCCCCCce-EEEEeCCeEEEEEEEeeC-CeEEECCCCCcCChhHhC
Q psy12414 1 WFHGKISRETAESLLAPKEDGLFLVRESTNFPQDF-MCVCFESKVEHYRVKYKE-AHLTIDDEEFFENLAQLV 71 (71)
Q Consensus 1 w~~g~i~r~~a~~~L~~~~~G~fliR~s~~~~~~~-Ls~~~~~~v~h~~I~~~~-~~~~~~~~~~F~sl~~Lv 71 (71)
||+|.++|..||++|....+|+||+|.+++.|+.| ++++....|.|+++.+.. ++|++- ...|.++.+|+
T Consensus 60 wve~~i~r~~ae~~l~~~~~G~fl~r~s~sSPg~fsgsvr~~d~vqhfkvvrpa~~k~~lw-~skfnslnplv 131 (222)
T KOG3601|consen 60 WVEGLIPRPLAEDLLSKKRDGDFLIRLSESSPGDFSGSVRFPDGVQHFKVVRPAFGKYFLW-SSKFNSLNPLV 131 (222)
T ss_pred ceecccccchhhhhhhccCcchhhhhhhhcCcccccccccCCCCceeccccccCccccccc-hhhccCCCCCc
Confidence 89999999999999988999999999999999999 999999999999999874 566654 46688876654
No 18
>PF14633 SH2_2: SH2 domain; PDB: 3GXX_A 3GXW_B 3PJP_B 2XP1_A.
Probab=98.77 E-value=9.7e-08 Score=55.48 Aligned_cols=66 Identities=24% Similarity=0.399 Sum_probs=48.9
Q ss_pred CCCHHHHHHhhCCCCCceEEEEecCCCCCce-EEEEe-CCeEEEEEEEeeC--------CeEEECCCCCcCChhHhC
Q psy12414 5 KISRETAESLLAPKEDGLFLVRESTNFPQDF-MCVCF-ESKVEHYRVKYKE--------AHLTIDDEEFFENLAQLV 71 (71)
Q Consensus 5 ~i~r~~a~~~L~~~~~G~fliR~s~~~~~~~-Ls~~~-~~~v~h~~I~~~~--------~~~~~~~~~~F~sl~~Lv 71 (71)
+++-.+|++.|.+.+.|.++||+|+...... ++++. ++...|+-|.-.+ ..+.++ ...|.+|.|||
T Consensus 43 n~~~~qAe~~L~~~~~Ge~iIRPSSkG~dhL~vTwKv~d~vyqHidV~E~~K~n~~slG~~L~i~-~~~yeDLDEii 118 (220)
T PF14633_consen 43 NFNYKQAEEYLADQDVGEVIIRPSSKGPDHLTVTWKVADGVYQHIDVKEEDKENEFSLGKTLKIG-GEEYEDLDEII 118 (220)
T ss_dssp SS-HHHHHHHHCCS-TT-EEEEE-TTTTTEEEEEEEEETTEEEEEEEEEECSSSTTS-SSEEEET-TEEESSHHHHH
T ss_pred CCCHHHHHHHHhcCCCCCEEEeeCCCCCCeEEEEEEEcCCcEEEEEEEECCCcCccccCcEEEEC-CeEECCHHHHH
Confidence 7899999999999999999999997655555 77776 6778899997542 245665 67899999985
No 19
>KOG3751|consensus
Probab=98.63 E-value=3.1e-08 Score=63.12 Aligned_cols=71 Identities=45% Similarity=0.823 Sum_probs=57.4
Q ss_pred CcccCCCHHHHHHhhCC--CCCceEEEEecCCCCCce-EEEEeCCeEEEEEEEeeC--Ce--EEECC-CCCcCChhHhC
Q psy12414 1 WFHGKISRETAESLLAP--KEDGLFLVRESTNFPQDF-MCVCFESKVEHYRVKYKE--AH--LTIDD-EEFFENLAQLV 71 (71)
Q Consensus 1 w~~g~i~r~~a~~~L~~--~~~G~fliR~s~~~~~~~-Ls~~~~~~v~h~~I~~~~--~~--~~~~~-~~~F~sl~~Lv 71 (71)
|||+.|+++++..++++ -.+|-|++|.+.++|..| +++....+|+||+|...+ +. +.... ...|.++.+||
T Consensus 521 ~~~~kis~~es~~~ikq~glv~~~~l~r~sqsnP~~~~~~~~~~~~v~~~~~~P~~~~~~~~~t~~~g~t~~sd~~ql~ 599 (622)
T KOG3751|consen 521 WFHGKISRDESQRLIKQQGLVDGLFLVRDSQSNPKIFVLSLCHPQKVKHFQILPVEDDGCTFFTLDDGPTKFSDLIQLV 599 (622)
T ss_pred CcccccCchhhhhHHHhcccceeeeeecccccCcchhhhhccCCccccceEEecCCCCCceeeccCCCCcccccccccc
Confidence 99999999999998875 378999999999999999 999999999999998763 32 33322 26677776654
No 20
>KOG4566|consensus
Probab=97.83 E-value=3.4e-05 Score=45.91 Aligned_cols=58 Identities=28% Similarity=0.470 Sum_probs=46.4
Q ss_pred CcccCCCHHHHHHhhCCCCCceEEEEecCCCCCce-EEEEeCCeEEEEEEEeeCCeEEE
Q psy12414 1 WFHGKISRETAESLLAPKEDGLFLVRESTNFPQDF-MCVCFESKVEHYRVKYKEAHLTI 58 (71)
Q Consensus 1 w~~g~i~r~~a~~~L~~~~~G~fliR~s~~~~~~~-Ls~~~~~~v~h~~I~~~~~~~~~ 58 (71)
||+|.++..+|+..|...+.|+|++|+|...+-.+ |+++.....+.-+|.+.++.+..
T Consensus 54 ~~w~~~~~~~~~~~l~~~p~~~~l~Rdss~~~~~~~I~vk~~~g~~~~r~~~~~~sfr~ 112 (258)
T KOG4566|consen 54 HYWGLETANEAELCLGQEPRGTFLVRDSSHRPYLFTISVKTHSGPKNLRIQYQDSSFRL 112 (258)
T ss_pred cccccccchhHHHhhcCCCccceeeecCcCccccceeEeeeccCCCCccccccccceec
Confidence 78999999999999988899999999997766666 99988766666667665554444
No 21
>KOG3697|consensus
Probab=97.49 E-value=0.00013 Score=44.15 Aligned_cols=68 Identities=13% Similarity=0.191 Sum_probs=48.6
Q ss_pred CcccCCCHHHHHHhhCCCCCceEEEEecCC-----------------------------------------------CCC
Q psy12414 1 WFHGKISRETAESLLAPKEDGLFLVRESTN-----------------------------------------------FPQ 33 (71)
Q Consensus 1 w~~g~i~r~~a~~~L~~~~~G~fliR~s~~-----------------------------------------------~~~ 33 (71)
|++|.++++.+++.|. ++|.|++|.+.. .+|
T Consensus 203 p~~g~l~~~~~q~~l~--~~a~~~a~~~~~~p~~~~ls~l~~~n~ppp~~p~~kl~~~~~~~n~~~~~~rd~~~~~~~~g 280 (345)
T KOG3697|consen 203 PPGGFLDTRLKQRPLA--PDAAQFAGKEQTYPQGRHLSDLRQGNSPPPSTPEGKLHVAPTYVNTQQIPRRDLFDETTTPG 280 (345)
T ss_pred CCCCccchhhhhccCC--cccchhhhhccCCcccccccchhhcCCCCCCCCCccCCCCcccccccccchhhhccccCCCc
Confidence 8999999999999998 888888886544 355
Q ss_pred ce-EEEEeCCeEEEEEEEeeCCeEEECCCCCcCChhHhC
Q psy12414 34 DF-MCVCFESKVEHYRVKYKEAHLTIDDEEFFENLAQLV 71 (71)
Q Consensus 34 ~~-Ls~~~~~~v~h~~I~~~~~~~~~~~~~~F~sl~~Lv 71 (71)
.| |+=..+++.+|..+.--+|... .....|+|+..||
T Consensus 281 qyvltgl~~~~~khlllvdpegvvr-tkd~~fdsishli 318 (345)
T KOG3697|consen 281 QYVLTGLQSGQPKHLLLVDPEGVVR-TKDRRFDSISHLI 318 (345)
T ss_pred cEEEecccCCCcceEEEECCcccee-cccchhhHHHHHH
Confidence 56 6555567777777643333322 3357899988775
No 22
>KOG1856|consensus
Probab=97.36 E-value=0.00021 Score=49.67 Aligned_cols=67 Identities=21% Similarity=0.358 Sum_probs=49.5
Q ss_pred CCCHHHHHHhhCCCCCceEEEEecCCCCCce-EEEEe-CCeEEEEEEEee--CCeEEEC-----CCCCcCChhHhC
Q psy12414 5 KISRETAESLLAPKEDGLFLVRESTNFPQDF-MCVCF-ESKVEHYRVKYK--EAHLTID-----DEEFFENLAQLV 71 (71)
Q Consensus 5 ~i~r~~a~~~L~~~~~G~fliR~s~~~~~~~-Ls~~~-~~~v~h~~I~~~--~~~~~~~-----~~~~F~sl~~Lv 71 (71)
+++-++|+.+|.....|.++||+|+...... ++++. ++...|+.|.-. ++.|.++ ++..|..|.|+|
T Consensus 1113 n~n~eQAe~yL~~~d~ge~iiRpSSrgddhLvvtwKVsD~iYqhidV~E~eKEn~fslg~~l~i~~e~feDLDEiI 1188 (1299)
T KOG1856|consen 1113 NLNAEQAEAYLSDMDQGELIIRPSSRGDDHLVVTWKVSDGIYQHIDVQELEKENYFSLGKTLWIGGEEFEDLDEII 1188 (1299)
T ss_pred CCCHHHHHHHHHhcccccEEeccccCCCCceEEEEEecCchhhhhhhhhhhccccccccceEEECCcccccHHHHH
Confidence 7889999999998899999999997655555 66665 466678888643 2233332 357899999875
No 23
>PF14633 SH2_2: SH2 domain; PDB: 3GXX_A 3GXW_B 3PJP_B 2XP1_A.
Probab=97.10 E-value=0.00044 Score=40.45 Aligned_cols=64 Identities=19% Similarity=0.242 Sum_probs=43.5
Q ss_pred CHHHHHHhhCC-----CCCceEEEEecCCCCCce-EEEEeCCeEEEEE--EEeeCCeEEECCCCCcCChhHhC
Q psy12414 7 SRETAESLLAP-----KEDGLFLVRESTNFPQDF-MCVCFESKVEHYR--VKYKEAHLTIDDEEFFENLAQLV 71 (71)
Q Consensus 7 ~r~~a~~~L~~-----~~~G~fliR~s~~~~~~~-Ls~~~~~~v~h~~--I~~~~~~~~~~~~~~F~sl~~Lv 71 (71)
+++++++.|.. +.--.|.+..+...||.| |+...+...+|.. |.-...+|.+. ...|++|.+|+
T Consensus 142 ~~~e~e~~L~~~k~~nP~~i~Y~f~~~~~~PG~F~L~y~~~~~~~~~~~~v~V~p~Gf~~r-~~~f~~~~~L~ 213 (220)
T PF14633_consen 142 TKEEVEEWLKEEKKANPKRIPYAFCISKEHPGYFILSYKPNKNPRHEYWPVKVTPDGFRFR-KQVFPSLDRLI 213 (220)
T ss_dssp -CCCCHHHHHCHHHHSTTS-EEEEEE-TTSTTEEEEEEESSTTS-EEEEEEEE-SSSEEET-TEEESSHHHHH
T ss_pred CHHHHHHHHHHHHHhCCCCceEEEEECCCCCCEEEEEEEcCCCCceEEeeEEEecCcEEEe-cccCCCHHHHH
Confidence 35566776642 233578888888899999 9998855544443 77778888886 57899999885
No 24
>PF02762 Cbl_N3: CBL proto-oncogene N-terminus, SH2-like domain; InterPro: IPR014742 Cbl (Casitas B-lineage lymphoma) is an adaptor protein that functions as a negative regulator of many signalling pathways that start from receptors at the cell surface. The N-terminal region of Cbl contains a Cbl-type phosphotyrosine-binding (Cbl-PTB) domain, which is composed of three evolutionarily conserved domains: an N-terminal four-helix bundle (4H) domain, an EF hand-like calcium-binding domain, and a divergent SH2-like domain. The calcium-bound EF-hand wedges between the 4H and SH2 domains, and roughly determines their relative orientation. The Cbl-PTB domain has also been named Cbl N-terminal (Cbl-N) or tyrosine kinase binding (TKB) domain [, ]. The N-terminal 4H domain contains four long alpha-helices. The C and D helices in this domain pack against the adjacent EF-hand-like domain, and a highly conserved loop connecting the A and B helices contacts the SH2-like domain. The EF-hand motif is similar to classical EF-hand proteins. The SH2-like domain retains the general helix-sheet-helix architecture of the SH2 fold, but lacks the secondary beta-sheet, comprising beta-strands D', E and F, and also a prominent BG loop []. This entry represents the SH2-like domain.; PDB: 3PFV_A 3VGO_A 3PLF_B 2Y1M_A 2CBL_A 3BUX_B 3BUN_B 3BUM_B 3OB1_B 3BUW_B ....
Probab=96.77 E-value=0.02 Score=28.45 Aligned_cols=40 Identities=10% Similarity=0.198 Sum_probs=31.6
Q ss_pred cccCCCHHHHHHhhCC--CCCceEEEEecCCCCCce-EEEEeC
Q psy12414 2 FHGKISRETAESLLAP--KEDGLFLVRESTNFPQDF-MCVCFE 41 (71)
Q Consensus 2 ~~g~i~r~~a~~~L~~--~~~G~fliR~s~~~~~~~-Ls~~~~ 41 (71)
|...|+=+|+...|+. ..+|+|+.|-|-++-|.+ +-....
T Consensus 5 Y~AFlTYdevk~~L~~~~~kpGsYiFRlSCTrLGQWAIGyV~~ 47 (86)
T PF02762_consen 5 YMAFLTYDEVKARLQHYRDKPGSYIFRLSCTRLGQWAIGYVTQ 47 (86)
T ss_dssp BETT--HHHHHHHHGGGTTSTTEEEEEEESSSTTSEEEEEEET
T ss_pred eeEEEeHHHHHHHHHHHhCCcccEEEeeccccccceeEEEEcC
Confidence 4557888999999973 688999999999999999 877663
No 25
>KOG1856|consensus
Probab=95.51 E-value=0.079 Score=37.73 Aligned_cols=64 Identities=23% Similarity=0.327 Sum_probs=50.2
Q ss_pred CHHHHHHhhCC--CCC---ceEEEEecCCCCCce-EEEEeCCeEEEEEEEeeCCeEEECCCCCcCChhHhC
Q psy12414 7 SRETAESLLAP--KED---GLFLVRESTNFPQDF-MCVCFESKVEHYRVKYKEAHLTIDDEEFFENLAQLV 71 (71)
Q Consensus 7 ~r~~a~~~L~~--~~~---G~fliR~s~~~~~~~-Ls~~~~~~v~h~~I~~~~~~~~~~~~~~F~sl~~Lv 71 (71)
++++.+++|.. +.+ --|....|...||.| |+.+.+..++|--|.-...+|.+. +..|+||.+|.
T Consensus 1212 t~~~~ek~L~~~k~~np~~~~Y~F~~s~~~PG~F~L~y~~~~k~~heyv~v~p~g~~~r-g~~f~tld~L~ 1281 (1299)
T KOG1856|consen 1212 TKKEVEKLLRDYKKVNPKKSVYFFCASHEHPGKFCLSYKPSSKPRHEYVKVVPEGFRFR-GQNFGTLDELC 1281 (1299)
T ss_pred CHHHHHHHHHHHhccCCCeeeEEEEecccCCceEEEEeccCCCccceeEEEcccceEEe-cccchhHHHHH
Confidence 47888888862 222 345566788899999 999999999999988888888876 47799998873
No 26
>KOG3667|consensus
Probab=94.07 E-value=0.095 Score=35.34 Aligned_cols=48 Identities=23% Similarity=0.268 Sum_probs=36.0
Q ss_pred ccCCCHHHHHHhhCCCCCceEEEEecCCCCCce-EEEEe-CCeEEEEEEE
Q psy12414 3 HGKISRETAESLLAPKEDGLFLVRESTNFPQDF-MCVCF-ESKVEHYRVK 50 (71)
Q Consensus 3 ~g~i~r~~a~~~L~~~~~G~fliR~s~~~~~~~-Ls~~~-~~~v~h~~I~ 50 (71)
.|.++++.+.++|...++|+|++|.|++.-|.. +.... .....|+.|.
T Consensus 567 mgfinkq~~~~ll~~~~~GtflLrfs~S~~GgiT~~~v~~~~~~~~~~i~ 616 (682)
T KOG3667|consen 567 MGFINKQQERALLMTKPDGTFLLRFSASEEGGITIAWVEDQKQNLIMMIM 616 (682)
T ss_pred eeecchhhhhhhhhcCCCCCceeeeeccccCceeEEecccccccceeEec
Confidence 477899999999989999999999998877765 44333 2223577776
No 27
>smart00557 IG_FLMN Filamin-type immunoglobulin domains. These form a rod-like structure in the actin-binding cytoskeleton protein, filamin. The C-terminal repeats of filamin bind beta1-integrin (CD29).
Probab=91.63 E-value=0.35 Score=24.32 Aligned_cols=27 Identities=26% Similarity=0.447 Sum_probs=21.3
Q ss_pred CCCCCceEEEEecCCCCCce-EEEEeCC
Q psy12414 16 APKEDGLFLVRESTNFPQDF-MCVCFES 42 (71)
Q Consensus 16 ~~~~~G~fliR~s~~~~~~~-Ls~~~~~ 42 (71)
.+..+|+|.+...+..+|.| |++..++
T Consensus 51 ~d~~dGty~v~y~P~~~G~~~i~V~~~g 78 (93)
T smart00557 51 KDNGDGTYTVSYTPTEPGDYTVTVKFGG 78 (93)
T ss_pred EeCCCCEEEEEEEeCCCEeEEEEEEECC
Confidence 45677888888888888888 8888765
No 28
>KOG1785|consensus
Probab=87.17 E-value=1 Score=29.12 Aligned_cols=39 Identities=13% Similarity=0.215 Sum_probs=31.7
Q ss_pred cccCCCHHHHHHhhCC--CCCceEEEEecCCCCCce-EEEEe
Q psy12414 2 FHGKISRETAESLLAP--KEDGLFLVRESTNFPQDF-MCVCF 40 (71)
Q Consensus 2 ~~g~i~r~~a~~~L~~--~~~G~fliR~s~~~~~~~-Ls~~~ 40 (71)
|...++-+|+.+.|+. ..+|+|+.|-|-+..|.+ +-...
T Consensus 259 YmAFLTYDEVk~RLqk~~~KpGSYIFRlSCTRlGQWAIGYVt 300 (563)
T KOG1785|consen 259 YMAFLTYDEVKARLQKYIKKPGSYIFRLSCTRLGQWAIGYVT 300 (563)
T ss_pred eeEEeeHHHHHHHHHHHhcCCCceEEeeccCcccceeEEEEc
Confidence 3445677888888863 589999999999999999 87766
No 29
>PF00630 Filamin: Filamin/ABP280 repeat; InterPro: IPR017868 The many different actin cross-linking proteins share a common architecture, consisting of a globular actin-binding domain and an extended rod. Whereas their actin-binding domains consist of two calponin homology domains (see IPR001715 from INTERPRO), their rods fall into three families. The rod domain of the family including the Dictyostelium discoideum (Slime mould) gelation factor (ABP120) and human filamin (ABP280) is constructed from tandem repeats of a 100-residue motif that is glycine and proline rich []. The gelation factor's rod contains 6 copies of the repeat, whereas filamin has a rod constructed from 24 repeats. The resolution of the 3D structure of rod repeats from the gelation factor has shown that they consist of a beta-sandwich, formed by two beta-sheets arranged in an immunoglobulin-like fold [, ]. Because conserved residues that form the core of the repeats are preserved in filamin, the repeat structure should be common to the members of the gelation factor/filamin family. The head to tail homodimerisation is crucial to the function of the ABP120 and ABP280 proteins. This interaction involves a small portion at the distal end of the rod domains. For the gelation factor it has been shown that the carboxy-terminal repeat 6 dimerises through a double edge-to-edge extension of the beta-sheet and that repeat 5 contributes to dimerisation to some extent [, , ].; PDB: 2DI9_A 2EEC_A 2DIC_A 2EEA_A 2DMC_A 2EE9_A 2D7O_A 2D7N_A 2K7P_A 2NQC_A ....
Probab=86.34 E-value=1.2 Score=22.27 Aligned_cols=26 Identities=19% Similarity=0.379 Sum_probs=17.8
Q ss_pred CCCCceEEEEecCCCCCce-EEEEeCC
Q psy12414 17 PKEDGLFLVRESTNFPQDF-MCVCFES 42 (71)
Q Consensus 17 ~~~~G~fliR~s~~~~~~~-Ls~~~~~ 42 (71)
+..+|.|.+......+|.| |+|..++
T Consensus 66 ~~~~G~y~v~y~p~~~G~y~i~V~~~g 92 (101)
T PF00630_consen 66 DNGDGTYTVSYTPTEPGKYKISVKING 92 (101)
T ss_dssp EESSSEEEEEEEESSSEEEEEEEEESS
T ss_pred ECCCCEEEEEEEeCccEeEEEEEEECC
Confidence 3466777777777777777 7776654
No 30
>COG1724 Predicted RNA binding protein (dsRBD-like fold), HicA family [General function prediction only]
Probab=78.33 E-value=3.9 Score=19.69 Aligned_cols=25 Identities=24% Similarity=0.403 Sum_probs=20.7
Q ss_pred cCCCHHHHHHhhCCCCCceEEEEecCC
Q psy12414 4 GKISRETAESLLAPKEDGLFLVRESTN 30 (71)
Q Consensus 4 g~i~r~~a~~~L~~~~~G~fliR~s~~ 30 (71)
..++..+++..|+ .+|-|++|..-+
T Consensus 5 p~~~~ke~ik~Le--~~Gf~~vrqkGS 29 (66)
T COG1724 5 PRMKAKEVIKALE--KDGFQLVRQKGS 29 (66)
T ss_pred CcCCHHHHHHHHH--hCCcEEEEeecc
Confidence 4677889999998 999999998644
No 31
>KOG3508|consensus
Probab=77.95 E-value=1.6 Score=30.90 Aligned_cols=51 Identities=22% Similarity=0.360 Sum_probs=39.1
Q ss_pred CcccCCCHHHHHHhhCC-CCCceEEEEecCCCCCce-EEEEe-CCeEEEEEEEe
Q psy12414 1 WFHGKISRETAESLLAP-KEDGLFLVRESTNFPQDF-MCVCF-ESKVEHYRVKY 51 (71)
Q Consensus 1 w~~g~i~r~~a~~~L~~-~~~G~fliR~s~~~~~~~-Ls~~~-~~~v~h~~I~~ 51 (71)
||||+..|.-++..+.. .+.|.++||++...++.+ ++.-. -+.+-|+++.-
T Consensus 83 ~~~~~lrr~i~e~r~r~~e~s~~~wi~e~~~lp~~~~l~~~~~~d~~l~~r~~s 136 (932)
T KOG3508|consen 83 WYMENLRRTIAESRLRRAENSGSYWIREAKRLPGKGKLSCLLQLDGTLYARTIS 136 (932)
T ss_pred hhhcchhhhcccchhhccCCceeEEeeccCcCCCcceeehhhccchhHHhhhhh
Confidence 89999999999998754 577999999999888887 54433 33477777653
No 32
>PF10505 NARG2_C: NMDA receptor-regulated gene protein 2 C-terminus; InterPro: IPR019535 The transition of neuronal cells from pre-cursor to mature state is regulated by the N-methyl-d-aspartate (NMDA) receptor, a glutamate-gated ion channel that is permeable to Ca2+. NMDA receptors probably mediate this activity by permitting expression of NARG2. NARG2 (NMDA receptor-regulated gene protein 2) is transiently expressed, being a regulatory protein that is present in the nucleus of dividing cells and then down-regulated as progenitors exit the cell cycle and begin to differentiate. NARG2 contains repeats of (S/T)PXX, (11 in mouse, 6 in human), a putative DNA-binding motif that is found in many gene-regulatory proteins including Kruppel, Hunchback and Antennapedi [].
Probab=67.61 E-value=17 Score=21.59 Aligned_cols=26 Identities=19% Similarity=0.339 Sum_probs=17.4
Q ss_pred HhhCCCCCceEEEEecCCCCCce-EEEEe
Q psy12414 13 SLLAPKEDGLFLVRESTNFPQDF-MCVCF 40 (71)
Q Consensus 13 ~~L~~~~~G~fliR~s~~~~~~~-Ls~~~ 40 (71)
+.|.+-++|.||+|... .+.| +..+.
T Consensus 138 k~L~~L~pG~YLLrh~~--~d~f~~i~k~ 164 (220)
T PF10505_consen 138 KKLSSLQPGSYLLRHTP--GDSFVLIYKS 164 (220)
T ss_pred HHHcCCCCCcEEEEecC--CCCcEEEEEc
Confidence 34456699999999987 3445 43443
No 33
>KOG0518|consensus
Probab=64.05 E-value=13 Score=27.03 Aligned_cols=25 Identities=20% Similarity=0.365 Sum_probs=22.2
Q ss_pred CCCCceEEEEecCCCCCce-EEEEeC
Q psy12414 17 PKEDGLFLVRESTNFPQDF-MCVCFE 41 (71)
Q Consensus 17 ~~~~G~fliR~s~~~~~~~-Ls~~~~ 41 (71)
...+|+|-||..+..+|.| |+|.+.
T Consensus 903 ~~~~~~y~vrFtP~e~G~~tl~V~y~ 928 (1113)
T KOG0518|consen 903 DLGQGTYQVRFTPKEPGNHTLSVKYK 928 (1113)
T ss_pred ECCCceEEEEecCCCCCceEEEEEec
Confidence 3478999999999999999 999984
No 34
>PF00408 PGM_PMM_IV: Phosphoglucomutase/phosphomannomutase, C-terminal domain; InterPro: IPR005843 The alpha-D-phosphohexomutase superfamily is composed of four related enzymes, each of which catalyses a phosphoryl transfer on their sugar substrates: phosphoglucomutase (PGM), phosphoglucomutase/phosphomannomutase (PGM/PMM), phosphoglucosamine mutase (PNGM), and phosphoacetylglucosamine mutase (PAGM) []. PGM (5.4.2.2 from EC) converts D-glucose 1-phosphate into D-glucose 6-phosphate, and participates in both the breakdown and synthesis of glucose []. PGM/PMM (5.4.2.2 from EC; 5.4.2.8 from EC) are primarily bacterial enzymes that use either glucose or mannose as substrate, participating in the biosynthesis of a variety of carbohydrates such as lipopolysaccharides and alginate [, ]. Both PNGM (5.4.2.3 from EC) and PAGM (5.4.2.10 from EC) are involved in the biosynthesis of UDP-N-acetylglucosamine [, ]. Despite differences in substrate specificity, these enzymes share a similar catalytic mechanism, converting 1-phospho-sugars to 6-phospho-sugars via a biphosphorylated 1,6-phospho-sugar. The active enzyme is phosphorylated at a conserved serine residue and binds one magnesium ion; residues around the active site serine are well conserved among family members. The reaction mechanism involves phosphoryl transfer from the phosphoserine to the substrate to create a biophosphorylated sugar, followed by a phosphoryl transfer from the substrate back to the enzyme []. The structures of PGM and PGM/PMM have been determined, and were found to be very similar in topology. These enzymes are both composed of four domains and a large central active site cleft, where each domain contains residues essential for catalysis and/or substrate recognition. Domain I contains the catalytic phosphoserine, domain II contains a metal-binding loop to coordinate the magnesium ion, domain III contains the sugar-binding loop that recognises the two different binding orientations of the 1- and 6-phospho-sugars, and domain IV contains a phosphate-binding site required for orienting the incoming phospho-sugar substrate. This entry represents the C-terminal domain alpha-D-phosphohexomutase enzymes.; GO: 0016868 intramolecular transferase activity, phosphotransferases, 0005975 carbohydrate metabolic process; PDB: 1KFQ_B 1KFI_A 3PDK_B 2F7L_A 1TUO_A 2FKM_X 3C04_A 1K2Y_X 1P5G_X 2H4L_X ....
Probab=63.55 E-value=7.4 Score=18.55 Aligned_cols=15 Identities=53% Similarity=0.547 Sum_probs=12.7
Q ss_pred CCCceEE-EEecCCCC
Q psy12414 18 KEDGLFL-VRESTNFP 32 (71)
Q Consensus 18 ~~~G~fl-iR~s~~~~ 32 (71)
..+|..+ ||.|.+.|
T Consensus 32 ~~dG~~l~vR~SgTEP 47 (73)
T PF00408_consen 32 FEDGWRLLVRPSGTEP 47 (73)
T ss_dssp ETTEEEEEEEEESSSS
T ss_pred CCCceEEEEECCCCCc
Confidence 3889999 99998866
No 35
>PF11469 Ribonucleas_3_2: Ribonuclease III; InterPro: IPR021568 This archaeal family of proteins has no known function. ; PDB: 1ZTD_A.
Probab=61.50 E-value=3.6 Score=21.71 Aligned_cols=17 Identities=41% Similarity=0.792 Sum_probs=14.3
Q ss_pred CcccCCCHHHHHHhhCC
Q psy12414 1 WFHGKISRETAESLLAP 17 (71)
Q Consensus 1 w~~g~i~r~~a~~~L~~ 17 (71)
|+.|.|+.+||.++|+.
T Consensus 70 WLeg~it~eEaveil~~ 86 (120)
T PF11469_consen 70 WLEGKITIEEAVEILKA 86 (120)
T ss_dssp HHTTSS-HHHHHHHHHC
T ss_pred HHhccccHHHHHHHHHh
Confidence 88999999999999974
No 36
>PF09430 DUF2012: Protein of unknown function (DUF2012); InterPro: IPR019008 This domain is found in different proteins, including uncharacterised protein family UPF0480 and nodal modulators. A nodal modulator has been identified as part of a protein complex that participates in the nodal signaling pathway during vertebrate development [].
Probab=52.72 E-value=31 Score=18.28 Aligned_cols=30 Identities=27% Similarity=0.483 Sum_probs=18.1
Q ss_pred CCceEEEEecCCCCCce-EEEEeCC-eEEEEEEE
Q psy12414 19 EDGLFLVRESTNFPQDF-MCVCFES-KVEHYRVK 50 (71)
Q Consensus 19 ~~G~fliR~s~~~~~~~-Ls~~~~~-~v~h~~I~ 50 (71)
.+|+|.++.-+ +|.| |.+...+ ....++|.
T Consensus 28 ~dG~F~f~~Vp--~GsY~L~V~s~~~~F~~~RVd 59 (123)
T PF09430_consen 28 SDGSFVFHNVP--PGSYLLEVHSPDYVFPPYRVD 59 (123)
T ss_pred CCCEEEeCCCC--CceEEEEEECCCccccCEEEE
Confidence 77888887654 4777 7766532 23334444
No 37
>PF13266 DUF4057: Protein of unknown function (DUF4057)
Probab=52.50 E-value=19 Score=22.37 Aligned_cols=27 Identities=33% Similarity=0.434 Sum_probs=20.6
Q ss_pred cccCCCHHHHHHhhCCCCCceEEEEec
Q psy12414 2 FHGKISRETAESLLAPKEDGLFLVRES 28 (71)
Q Consensus 2 ~~g~i~r~~a~~~L~~~~~G~fliR~s 28 (71)
|-|.++.+|||.|++.++.-.+-.++.
T Consensus 51 fGgQvT~EEAEsL~KRKpCS~~K~KEm 77 (302)
T PF13266_consen 51 FGGQVTEEEAESLNKRKPCSGYKMKEM 77 (302)
T ss_pred cCCcCCHHHHHHHhccCcCccccceec
Confidence 457899999999998766655666654
No 38
>cd00214 Calpain_III Calpain, subdomain III. Calpains are calcium-activated cytoplasmic cysteine proteinases, participate in cytoskeletal remodeling processes, cell differentiation, apoptosis and signal transduction. Catalytic domain and the two calmodulin-like domains are separated by C2-like domain III. Domain III plays an important role in calcium-induced activation of calpain involving electrostatic interactions with subdomain II. Proposed to mediate calpain's interaction with phospholipids and translocation to cytoplasmic/nuclear membranes. CD includes subdomain III of typical and atypical calpains.
Probab=51.55 E-value=28 Score=19.00 Aligned_cols=11 Identities=27% Similarity=0.449 Sum_probs=5.4
Q ss_pred CCceEEEEecC
Q psy12414 19 EDGLFLVREST 29 (71)
Q Consensus 19 ~~G~fliR~s~ 29 (71)
++|.|+|-.+.
T Consensus 116 ~pG~YvIIPsT 126 (150)
T cd00214 116 PPGEYVIVPST 126 (150)
T ss_pred CCCCEEEEeee
Confidence 44555555443
No 39
>COG1576 Uncharacterized conserved protein [Function unknown]
Probab=50.89 E-value=16 Score=20.62 Aligned_cols=21 Identities=24% Similarity=0.419 Sum_probs=16.7
Q ss_pred CHHHHHHhhCCCCCceEEEEe
Q psy12414 7 SRETAESLLAPKEDGLFLVRE 27 (71)
Q Consensus 7 ~r~~a~~~L~~~~~G~fliR~ 27 (71)
-++|++++|..-++|+|+|--
T Consensus 53 ~~~E~~~il~~i~~~~~vi~L 73 (155)
T COG1576 53 KKKEGEAILAAIPKGSYVVLL 73 (155)
T ss_pred HHHHHHHHHHhcCCCCeEEEE
Confidence 367888898887889999864
No 40
>KOG3997|consensus
Probab=49.78 E-value=8.8 Score=23.17 Aligned_cols=28 Identities=25% Similarity=0.481 Sum_probs=21.7
Q ss_pred CcccCCCHHHHHHhhCC-----------CCCceEEEEec
Q psy12414 1 WFHGKISRETAESLLAP-----------KEDGLFLVRES 28 (71)
Q Consensus 1 w~~g~i~r~~a~~~L~~-----------~~~G~fliR~s 28 (71)
|-+++++.+.|+..++. -|.|+|||-..
T Consensus 40 w~sp~msee~ae~f~kaa~~~~~~l~qivpHGsYliN~~ 78 (281)
T KOG3997|consen 40 WNSPPMSEEVAEKFWKAARETNFPLDQIVPHGSYLINAG 78 (281)
T ss_pred cCCCCccHHHHHHHHHHHHhccCchhhcccccchhcccC
Confidence 88899999999987731 16799998754
No 41
>smart00720 calpain_III calpain_III.
Probab=48.39 E-value=39 Score=18.11 Aligned_cols=11 Identities=27% Similarity=0.449 Sum_probs=5.3
Q ss_pred CCceEEEEecC
Q psy12414 19 EDGLFLVREST 29 (71)
Q Consensus 19 ~~G~fliR~s~ 29 (71)
++|.|+|=.+.
T Consensus 111 ~~G~Y~iVPsT 121 (143)
T smart00720 111 PPGEYVIVPST 121 (143)
T ss_pred CCCCEEEEEee
Confidence 44555555443
No 42
>PF01067 Calpain_III: Calpain large subunit, domain III; InterPro: IPR022682 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Cysteine peptidases have characteristic molecular topologies, which can be seen not only in their three-dimensional structures, but commonly also in the two-dimensional structures. These are peptidases in which the nucleophile is the sulphydryl group of a cysteine residue. Cysteine proteases are divided into clans (proteins which are evolutionary related), and further sub-divided into families, on the basis of the architecture of their catalytic dyad or triad []. This group of cysteine peptidases belong to the MEROPS peptidase family C2 (calpain family, clan CA). A type example is calpain, which is an intracellular protease involved in many important cellular functions that are regulated by calcium []. The protein is a complex of 2 polypeptide chains (light and heavy), with three known forms in mammals [, ]: a highly calcium-sensitive (i.e., micro-molar range) form known as mu-calpain, mu-CANP or calpain I; a form sensitive to calcium in the milli-molar range, known as m-calpain, m-CANP or calpain II; and a third form, known as p94, which is found in skeletal muscle only []. All forms have identical light but different heavy chains. Both mu- and m-calpain are heterodimers containing an identical 28kDa subunit and an 80kDa subunit that shares 55-65% sequence homology between the two proteases [, ]. The crystallographic structure of m-calpain reveals six "domains" in the 80kDa subunit: A 19-amino acid NH2-terminal sequence; Active site domain IIa; Active site domain IIb. Domain 2 shows low levels of sequence similarity to papain; although the catalytic His has not been located by biochemical means, it is likely that calpain and papain are related []. Domain III; An 18-amino acid extended sequence linking domain III to domain IV; Domain IV, which resembles the penta EF-hand family of polypeptides, binds calcium and regulates activity []. />]. Ca2+-binding causes a rearrangement of the protein backbone, the net effect of which is that a Trp side chain, which acts as a wedge between catalytic domains IIa and IIb in the apo state, moves away from the active site cleft allowing for the proper formation of the catalytic triad []. Calpain-like mRNAs have been identified in other organisms including bacteria, but the molecules encoded by these mRNAs have not been isolated, so little is known about their properties. How calpain activity is regulated in these organisms cells is still unclear In metazoans, the activity of calpain is controlled by a single proteinase inhibitor, calpastatin (IPR001259 from INTERPRO). The calpastatin gene can produce eight or more calpastatin polypeptides ranging from 17 to 85 kDa by use of different promoters and alternative splicing events. The physiological significance of these different calpastatins is unclear, although all bind to three different places on the calpain molecule; binding to at least two of the sites is Ca2+ dependent. The calpains ostensibly participate in a variety of cellular processes including remodelling of cytoskeletal/membrane attachments, different signal transduction pathways, and apoptosis. Deregulated calpain activity following loss of Ca2+ homeostasis results in tissue damage in response to events such as myocardial infarcts, stroke, and brain trauma []. This entry represents domain III. It is found in association with PF00648 from PFAM. The function of the domain III and I are currently unknown. Domain II is a cysteine protease and domain IV is a calcium binding domain. Calpains are believed to participate in intracellular signaling pathways mediated by calcium ions. ; PDB: 1QXP_B 2QFE_A 1DF0_A 1U5I_A 3DF0_A 3BOW_A 1KFU_L 1KFX_L.
Probab=44.64 E-value=45 Score=17.71 Aligned_cols=11 Identities=27% Similarity=0.495 Sum_probs=5.4
Q ss_pred CCceEEEEecC
Q psy12414 19 EDGLFLVREST 29 (71)
Q Consensus 19 ~~G~fliR~s~ 29 (71)
++|.|+|=.|.
T Consensus 115 ~~G~YvIVPsT 125 (147)
T PF01067_consen 115 PPGTYVIVPST 125 (147)
T ss_dssp -SEEEEEEEEE
T ss_pred CCCCEEEEEec
Confidence 45555555553
No 43
>PF14591 AF0941-like: AF0941-like; PDB: 1YOZ_B.
Probab=42.70 E-value=21 Score=19.48 Aligned_cols=15 Identities=40% Similarity=0.434 Sum_probs=11.4
Q ss_pred cccCCCHHHHHHhhC
Q psy12414 2 FHGKISRETAESLLA 16 (71)
Q Consensus 2 ~~g~i~r~~a~~~L~ 16 (71)
..|.|++++|.++|.
T Consensus 54 ~~Gdi~eEEA~~ll~ 68 (127)
T PF14591_consen 54 KSGDIDEEEALQLLD 68 (127)
T ss_dssp HTTSS-HHHHHHHHH
T ss_pred HcCCCCHHHHHHHHH
Confidence 368999999999874
No 44
>TIGR03573 WbuX N-acetyl sugar amidotransferase. This enzyme has been implicated in the formation of the acetamido moiety (sugar-NC(=NH)CH3) which is found on some exopolysaccharides and is positively charged at neutral pH. The reaction involves ligation of ammonia with a sugar N-acetyl group, displacing water. In E. coli (O145 strain) and Pseudomonas aeruginosa (O12 strain) this gene is known as wbuX and ifnA respectively and likely acts on sialic acid. In Campylobacter jejuni, the gene is known as pseA and acts on pseudaminic acid in the process of flagellin glycosylation. In other Pseudomonas strains and various organisms it is unclear what the identity of the sugar substrate is, and in fact, the phylogenetic tree of this family sports a considerably deep branching suggestive of possible major differences in substrate structure. Nevertheless, the family is characterized by a conserved tetracysteine motif (CxxC.....[GN]xCxxC) possibly indicative of a metal binding site, as well as an
Probab=42.54 E-value=14 Score=23.15 Aligned_cols=15 Identities=40% Similarity=0.614 Sum_probs=13.0
Q ss_pred ccCCCHHHHHHhhCC
Q psy12414 3 HGKISRETAESLLAP 17 (71)
Q Consensus 3 ~g~i~r~~a~~~L~~ 17 (71)
.|.|+|+||.++++.
T Consensus 300 ~G~itReeal~~v~~ 314 (343)
T TIGR03573 300 SGRITREEAIELVKE 314 (343)
T ss_pred cCCCCHHHHHHHHHH
Confidence 489999999999864
No 45
>PF09634 DUF2025: Protein of unknown function (DUF2025); InterPro: IPR018595 This protein is produced from gene PA1123 in Pseudomonas. It appears to be present in the biofilm layer and may be a lipoprotein. It contains three alpha helices and six beta strands and is thought to be monomeric.; PDB: 2HG6_A.
Probab=39.94 E-value=15 Score=18.94 Aligned_cols=16 Identities=25% Similarity=0.262 Sum_probs=11.3
Q ss_pred CCCceEEEEecCCCCC
Q psy12414 18 KEDGLFLVRESTNFPQ 33 (71)
Q Consensus 18 ~~~G~fliR~s~~~~~ 33 (71)
.+.|.++||.|+..-|
T Consensus 23 ~KtG~~ivRFSEDsFG 38 (106)
T PF09634_consen 23 RKTGQHIVRFSEDSFG 38 (106)
T ss_dssp TTTTEEEEES-GGG-S
T ss_pred ccCceEEEEecccccC
Confidence 5889999999976433
No 46
>COG2921 Uncharacterized conserved protein [Function unknown]
Probab=38.09 E-value=40 Score=17.27 Aligned_cols=26 Identities=12% Similarity=0.261 Sum_probs=16.6
Q ss_pred hhCCCCCceEEEEe--cCCCCCceEEEE
Q psy12414 14 LLAPKEDGLFLVRE--STNFPQDFMCVC 39 (71)
Q Consensus 14 ~L~~~~~G~fliR~--s~~~~~~~Ls~~ 39 (71)
+++...+|.+-=|. .++..|.|+|+.
T Consensus 35 vvqr~ap~~~~~~~~~k~SSkGnY~svs 62 (90)
T COG2921 35 VVQRHAPGDYTPRVSWKPSSKGNYLSVS 62 (90)
T ss_pred HHHHHCCcccCceeeeccCCCCceEEEE
Confidence 44455777887666 556678885553
No 47
>PRK15255 fimbrial outer membrane usher protein StdB; Provisional
Probab=36.49 E-value=93 Score=22.22 Aligned_cols=32 Identities=19% Similarity=0.365 Sum_probs=24.8
Q ss_pred CCceEEEEecC-CCCCce-EEEEe-CCeEEEEEEE
Q psy12414 19 EDGLFLVREST-NFPQDF-MCVCF-ESKVEHYRVK 50 (71)
Q Consensus 19 ~~G~fliR~s~-~~~~~~-Ls~~~-~~~v~h~~I~ 50 (71)
|+|-|.|.+-+ ...|.. ++|.. ++.+++|.+-
T Consensus 302 ppGPF~I~Dlp~~~~GdL~V~V~EadG~~~~ftvP 336 (829)
T PRK15255 302 SPGPFELPDLSQNISGNLDVSVRESDGSVRTWQVN 336 (829)
T ss_pred CCCCeEeccCCCCCCccEEEEEEEcCCCEEEEEee
Confidence 88999998765 345677 87776 6888999883
No 48
>KOG0723|consensus
Probab=35.13 E-value=30 Score=18.43 Aligned_cols=15 Identities=40% Similarity=0.585 Sum_probs=12.0
Q ss_pred cccCCCHHHHHHhhC
Q psy12414 2 FHGKISRETAESLLA 16 (71)
Q Consensus 2 ~~g~i~r~~a~~~L~ 16 (71)
|-..|+|.||..+|-
T Consensus 49 F~~kMsr~EA~lIL~ 63 (112)
T KOG0723|consen 49 FEPKMSRREAALILG 63 (112)
T ss_pred cccccchHHHHHHhC
Confidence 345789999999885
No 49
>PF03563 Bunya_G2: Bunyavirus glycoprotein G2; InterPro: IPR005168 Bunyavirus has three genomic segments: small (S), middle-sized (M), and large (L). The S segment encodes the nucleocapsid and a non-structural protein. The M segment codes for two glycoproteins, G1 and G2, and another non-structural protein (NSm). The L segment codes for an RNA polymerase. This entry represents the polyprotein region forming the G2 glycoprotein, which interacts with the IPR005167 from INTERPRO G1 glycoprotein [].
Probab=35.07 E-value=13 Score=22.92 Aligned_cols=46 Identities=24% Similarity=0.323 Sum_probs=31.2
Q ss_pred CCHHHHHHhhCCCCCceEEEEecCCCCCce---EEEEeCCeEEEEEEEe
Q psy12414 6 ISRETAESLLAPKEDGLFLVRESTNFPQDF---MCVCFESKVEHYRVKY 51 (71)
Q Consensus 6 i~r~~a~~~L~~~~~G~fliR~s~~~~~~~---Ls~~~~~~v~h~~I~~ 51 (71)
+++++|+-+|+...--.|-|--.....|.| .++.-++..-|.+|..
T Consensus 101 lDKe~AqIilqS~~LNHfeV~GTT~~sGWFK~k~svsLd~TCEHi~VtC 149 (285)
T PF03563_consen 101 LDKENAQIILQSDKLNHFEVSGTTISSGWFKSKTSVSLDQTCEHIKVTC 149 (285)
T ss_pred EcccccEEEEecCCcccEEEEeeEEEcceeccceEEEhhcchhheEEec
Confidence 456777777776655667777666667777 5665667777777764
No 50
>PF08846 DUF1816: Domain of unknown function (DUF1816); InterPro: IPR014945 Q4C9H3 from SWISSPROT is associated with the IPR008213 from INTERPRO domain suggesting this protein could have a role in phycobilisomes.
Probab=34.44 E-value=29 Score=16.79 Aligned_cols=16 Identities=44% Similarity=0.451 Sum_probs=12.4
Q ss_pred CcccCCCHHHHHHhhC
Q psy12414 1 WFHGKISRETAESLLA 16 (71)
Q Consensus 1 w~~g~i~r~~a~~~L~ 16 (71)
||-+..++++|+..+.
T Consensus 24 yFGPF~s~~eA~~~~~ 39 (68)
T PF08846_consen 24 YFGPFDSREEAEAALP 39 (68)
T ss_pred EeCCcCCHHHHHHHhc
Confidence 5566788999998765
No 51
>PF09121 Tower: Tower; InterPro: IPR015205 This domain adopts a secondary structure consisting of a pair of long, antiparallel alpha-helices (the stem) that support a three-helix bundle (3HB) at their end. The 3HB contains a helix-turn-helix motif and is similar to the DNA binding domains of the bacterial site-specific recombinases, and of eukaryotic Myb and homeodomain transcription factors. The Tower domain has an important role in the tumour suppressor function of BRCA2, and is essential for appropriate binding of BRCA2 to DNA []. ; PDB: 1IYJ_D 1MIU_A.
Probab=33.71 E-value=35 Score=14.90 Aligned_cols=11 Identities=18% Similarity=0.528 Sum_probs=7.6
Q ss_pred CCCceEEEEec
Q psy12414 18 KEDGLFLVRES 28 (71)
Q Consensus 18 ~~~G~fliR~s 28 (71)
.++|.|+.|..
T Consensus 4 ~~~G~~vFRn~ 14 (42)
T PF09121_consen 4 TPSGSYVFRNE 14 (42)
T ss_dssp -SSSSEEEE-C
T ss_pred cCCCceEeecc
Confidence 47899999864
No 52
>PF04162 Gyro_capsid: Gyrovirus capsid protein (VP1); InterPro: IPR007291 Gyroviruses are small circular single stranded viruses. This family includes the VP1 protein from the chicken anemia virus which is the viral capsid protein.; GO: 0019028 viral capsid
Probab=33.30 E-value=1.2e+02 Score=19.60 Aligned_cols=15 Identities=20% Similarity=0.255 Sum_probs=11.2
Q ss_pred hhCCCCCceEEEEec
Q psy12414 14 LLAPKEDGLFLVRES 28 (71)
Q Consensus 14 ~L~~~~~G~fliR~s 28 (71)
...+..+|+|+||--
T Consensus 48 ~f~NP~PGsY~VRLP 62 (449)
T PF04162_consen 48 AFHNPHPGSYSVRLP 62 (449)
T ss_pred hhcCCCCCceEEECC
Confidence 344678899999964
No 53
>PF13620 CarboxypepD_reg: Carboxypeptidase regulatory-like domain; PDB: 3MN8_D 3P0D_I 3KCP_A 2B59_B 1UWY_A 1H8L_A 1QMU_A 2NSM_A.
Probab=32.78 E-value=61 Score=15.18 Aligned_cols=24 Identities=21% Similarity=0.331 Sum_probs=15.7
Q ss_pred CCCceEEEEecCCCCCce-EEEEeCCe
Q psy12414 18 KEDGLFLVRESTNFPQDF-MCVCFESK 43 (71)
Q Consensus 18 ~~~G~fliR~s~~~~~~~-Ls~~~~~~ 43 (71)
..+|.|.++.-+ +|.| |.+...+-
T Consensus 35 d~~G~f~~~~l~--~g~Y~l~v~~~g~ 59 (82)
T PF13620_consen 35 DSDGRFSFEGLP--PGTYTLRVSAPGY 59 (82)
T ss_dssp -TTSEEEEEEE---SEEEEEEEEBTTE
T ss_pred CCCceEEEEccC--CEeEEEEEEECCc
Confidence 477888888654 3778 87776543
No 54
>PF07935 SSV1_ORF_D-335: ORF D-335-like protein; InterPro: IPR012922 The sequences featured in this family are similar to a probable integrase (P20214 from SWISSPROT) expressed by the SSV1 virus of the archaeon Sulfolobus shibatae. This protein may be necessary for the integration of the virus into the host genome by a process of site-specific recombination [].
Probab=32.74 E-value=69 Score=15.74 Aligned_cols=29 Identities=14% Similarity=0.022 Sum_probs=15.1
Q ss_pred CceEEEEecCCCCCceEEEE--eCCeEEEEEE
Q psy12414 20 DGLFLVRESTNFPQDFMCVC--FESKVEHYRV 49 (71)
Q Consensus 20 ~G~fliR~s~~~~~~~Ls~~--~~~~v~h~~I 49 (71)
-|+|+||+...+--. -.+- .++.++|-=|
T Consensus 5 ~gd~~irE~KGkYYV-Y~iE~~~~G~~re~YV 35 (72)
T PF07935_consen 5 FGDIIIRERKGKYYV-YKIEKDINGERRETYV 35 (72)
T ss_pred cCcEEEEEeCCeEEE-EEEEeccCCceeeeee
Confidence 478999987432111 2332 3455655443
No 55
>PF03443 Glyco_hydro_61: Glycosyl hydrolase family 61; InterPro: IPR005103 O-Glycosyl hydrolases 3.2.1. from EC are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families [, ]. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. The only known activity within this family is that of endoglucanase (3.2.1.4 from EC) GH61 from CAZY ; PDB: 4EIS_B 2VTC_A 4EIR_B 3EJA_D 3EII_A.
Probab=32.12 E-value=26 Score=20.66 Aligned_cols=10 Identities=30% Similarity=0.591 Sum_probs=8.5
Q ss_pred CCCceEEEEe
Q psy12414 18 KEDGLFLVRE 27 (71)
Q Consensus 18 ~~~G~fliR~ 27 (71)
-++|.||||.
T Consensus 146 l~~G~YLlR~ 155 (218)
T PF03443_consen 146 LPPGQYLLRH 155 (218)
T ss_dssp BBSEEEEEEE
T ss_pred CCCCCceEEe
Confidence 3889999995
No 56
>COG3908 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=30.81 E-value=71 Score=15.59 Aligned_cols=11 Identities=27% Similarity=0.688 Sum_probs=5.6
Q ss_pred CCCce-EEEEeC
Q psy12414 31 FPQDF-MCVCFE 41 (71)
Q Consensus 31 ~~~~~-Ls~~~~ 41 (71)
.+|.| ++-..+
T Consensus 26 ~~GsfV~CAVtg 37 (77)
T COG3908 26 SPGSFVLCAVTG 37 (77)
T ss_pred cCCcEEEEEecC
Confidence 35556 555443
No 57
>PRK15273 putative fimbrial outer membrane usher protein SteB; Provisional
Probab=30.60 E-value=1.3e+02 Score=21.81 Aligned_cols=32 Identities=13% Similarity=0.292 Sum_probs=24.3
Q ss_pred CCceEEEEecC-CCCCce-EEEEe-CCeEEEEEEE
Q psy12414 19 EDGLFLVREST-NFPQDF-MCVCF-ESKVEHYRVK 50 (71)
Q Consensus 19 ~~G~fliR~s~-~~~~~~-Ls~~~-~~~v~h~~I~ 50 (71)
|+|-|.|.+-. ...|.. ++|.. ++.+++|.+-
T Consensus 300 PpGPF~I~DLp~~~~GdL~V~V~EadG~~~~ftvP 334 (881)
T PRK15273 300 PAGPFRIQDLNQSVSGTLHVTVEEQNGQTQEFDVN 334 (881)
T ss_pred CCCCeEecCCCCCCCccEEEEEEEcCCCEEEEEec
Confidence 88999998765 345677 77776 6788888774
No 58
>COG4398 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=30.34 E-value=39 Score=21.39 Aligned_cols=34 Identities=18% Similarity=0.217 Sum_probs=18.4
Q ss_pred CCCCceEEEEecC---CCCCce-E-EEEeCCeEEEEEEE
Q psy12414 17 PKEDGLFLVREST---NFPQDF-M-CVCFESKVEHYRVK 50 (71)
Q Consensus 17 ~~~~G~fliR~s~---~~~~~~-L-s~~~~~~v~h~~I~ 50 (71)
....|+||||.-- ...|.. + -+...+.-..|.++
T Consensus 260 ~~~qGDFlIR~lLG~DPs~GaIaIgd~Vr~G~~lQF~~R 298 (389)
T COG4398 260 APGQGDFLIRGLLGADPSTGAIAIGEVVRVGATLQFQVR 298 (389)
T ss_pred CCCCCceEeeeccccCCCCCceeecceeccCcEEEEEEc
Confidence 4578999999642 223444 3 22223445556554
No 59
>PF14334 DUF4390: Domain of unknown function (DUF4390)
Probab=30.32 E-value=1e+02 Score=17.11 Aligned_cols=62 Identities=18% Similarity=0.235 Sum_probs=31.1
Q ss_pred HHHHHhhCCCCCceEEEEecCCCCCce-EEEEeCCeEEEEEEEeeC--CeEEECC-----CCCcCChhHh
Q psy12414 9 ETAESLLAPKEDGLFLVRESTNFPQDF-MCVCFESKVEHYRVKYKE--AHLTIDD-----EEFFENLAQL 70 (71)
Q Consensus 9 ~~a~~~L~~~~~G~fliR~s~~~~~~~-Ls~~~~~~v~h~~I~~~~--~~~~~~~-----~~~F~sl~~L 70 (71)
+.+++.|++..+=.|.+...-.++..| .--.....-.+++|.... ..|.+.. ...|+++.+.
T Consensus 32 ~~l~~AL~~Gipl~f~~~~~l~r~R~~w~d~~v~~~~~~~~L~Y~~Ltr~Y~v~~~~~~~~~~~~sL~~A 101 (165)
T PF14334_consen 32 PELEDALKNGIPLYFVFEIELYRPRWYWWDETVASATRRYRLSYDPLTREYRVTDGGSGLQQSFASLDEA 101 (165)
T ss_pred HHHHHHHHcCCeEEEEEEEEEEeecccccCCeeEEEEEEEEEEEeccCeeEEEEeCCCccceecCCHHHH
Confidence 345666666666566655443333333 211111234455665542 4566532 2568888764
No 60
>COG3549 HigB Plasmid maintenance system killer protein [General function prediction only]
Probab=30.21 E-value=88 Score=16.19 Aligned_cols=27 Identities=22% Similarity=0.407 Sum_probs=18.4
Q ss_pred HhhCCCCCceEEEEecCCCCCce-EEEEeCCe
Q psy12414 13 SLLAPKEDGLFLVRESTNFPQDF-MCVCFESK 43 (71)
Q Consensus 13 ~~L~~~~~G~fliR~s~~~~~~~-Ls~~~~~~ 43 (71)
++|.....|-|-||-. +.| |++++.+.
T Consensus 55 E~L~gd~~g~ySIrvN----~QwrLiF~~~~~ 82 (94)
T COG3549 55 EKLGGDLKGLYSIRVN----QQWRLIFRWEGG 82 (94)
T ss_pred HHcCCCccCcEEEEEC----CEEEEEEEeCCC
Confidence 3455667788888876 357 88877543
No 61
>KOG3508|consensus
Probab=29.68 E-value=45 Score=24.20 Aligned_cols=35 Identities=29% Similarity=0.239 Sum_probs=27.7
Q ss_pred CcccCCCHHHHHHhhCC-CCCceEEEEecCCCCCce
Q psy12414 1 WFHGKISRETAESLLAP-KEDGLFLVRESTNFPQDF 35 (71)
Q Consensus 1 w~~g~i~r~~a~~~L~~-~~~G~fliR~s~~~~~~~ 35 (71)
|++..|...+|.+.+.. ...+.|++|.+...++.|
T Consensus 232 ~q~i~i~~~e~y~~~~e~~~~~y~~lc~~lnp~l~~ 267 (932)
T KOG3508|consen 232 WQSINILPMEAYDELAETGTYNYFLLCPVLNPPLDV 267 (932)
T ss_pred ccccccCchHHHHHHHHHhccceeeeecccCCCcch
Confidence 88999999999998864 455689999887666654
No 62
>PF09625 VP9: VP9 protein; InterPro: IPR018587 VP9 is a protein containing a ferredoxin fold. Two dimers come together to form one asymmetric unit which possesses a DNA recognition fold and specific metal binding sites possibly for zinc. It is postulated that being a non-structural protein VP9 is involved in the transcriptional regulation of the White spot syndrome virus (WSSV), from which it comes. WSSV is the major viral pathogen in shrimp aquaculture []. VP9 is found N-terminal to the IPR009766 from INTERPRO. ; PDB: 2ZUG_A 2GJ2_A 2GJI_A.
Probab=29.40 E-value=77 Score=15.81 Aligned_cols=17 Identities=12% Similarity=-0.033 Sum_probs=9.4
Q ss_pred EEEecCCCCCce-EEEEe
Q psy12414 24 LVRESTNFPQDF-MCVCF 40 (71)
Q Consensus 24 liR~s~~~~~~~-Ls~~~ 40 (71)
-||.|+-..+.| .+++.
T Consensus 29 siRkSEl~d~~~iV~Lk~ 46 (79)
T PF09625_consen 29 SIRKSELRDGVYIVQLKK 46 (79)
T ss_dssp EEEE-SS-TTEEEEEE-T
T ss_pred HHHHhhcccceEEEEEec
Confidence 477777777777 55544
No 63
>PRK15284 putative fimbrial outer membrane usher protein StfC; Provisional
Probab=27.88 E-value=1.5e+02 Score=21.50 Aligned_cols=32 Identities=16% Similarity=0.314 Sum_probs=24.2
Q ss_pred CCceEEEEecC-CCCCce-EEEEe-CCeEEEEEEE
Q psy12414 19 EDGLFLVREST-NFPQDF-MCVCF-ESKVEHYRVK 50 (71)
Q Consensus 19 ~~G~fliR~s~-~~~~~~-Ls~~~-~~~v~h~~I~ 50 (71)
|+|-|.|.+-. ...|.. ++|.. ++.+++|.+-
T Consensus 322 ppGPF~I~Dl~~~~~GdL~VtV~EadG~~~~f~vp 356 (881)
T PRK15284 322 PAGPFRIQDIGDSVSGTLHVRIEEQNGQVQEYDVS 356 (881)
T ss_pred CCCCceeccCCCCCCCcEEEEEEECCCCEEEEEec
Confidence 88999998764 345667 77776 6788888884
No 64
>COG3456 Predicted component of the type VI protein secretion system, contains a FHA domain [Intracellular trafficking, secretion, and vesicular transport; Signal transduction mechanisms]
Probab=26.08 E-value=58 Score=21.51 Aligned_cols=17 Identities=18% Similarity=0.585 Sum_probs=14.6
Q ss_pred EEEEEEEeeCCeEEECC
Q psy12414 44 VEHYRVKYKEAHLTIDD 60 (71)
Q Consensus 44 v~h~~I~~~~~~~~~~~ 60 (71)
-.||.|...+|.||+.+
T Consensus 49 ~~Hc~I~~~dg~f~L~D 65 (430)
T COG3456 49 KQHCTISYRDGGFCLTD 65 (430)
T ss_pred hhheEEEecCCeEEEEe
Confidence 57999999999999864
No 65
>PRK03298 hypothetical protein; Provisional
Probab=26.08 E-value=26 Score=20.99 Aligned_cols=18 Identities=39% Similarity=0.418 Sum_probs=13.6
Q ss_pred HHHhhCCCCCceEEEEec
Q psy12414 11 AESLLAPKEDGLFLVRES 28 (71)
Q Consensus 11 a~~~L~~~~~G~fliR~s 28 (71)
|.+++.-+++|++||...
T Consensus 23 ~~RLiiiK~DGsvlVH~d 40 (224)
T PRK03298 23 ARRLLLVKADGSVSVHAD 40 (224)
T ss_pred CceEEEEccCCeEEEecC
Confidence 455555579999999976
No 66
>COG1637 Predicted nuclease of the RecB family [DNA replication, recombination, and repair]
Probab=25.89 E-value=14 Score=22.45 Aligned_cols=19 Identities=37% Similarity=0.534 Sum_probs=13.8
Q ss_pred HHHhhCCCCCceEEEEecC
Q psy12414 11 AESLLAPKEDGLFLVREST 29 (71)
Q Consensus 11 a~~~L~~~~~G~fliR~s~ 29 (71)
+.++|-.+++|+|+|....
T Consensus 50 ~dRlli~KpDGt~~vH~~~ 68 (253)
T COG1637 50 GDRLLIIKPDGTVLVHQDR 68 (253)
T ss_pred cceEEEEccCceEEecccc
Confidence 3455556799999998653
No 67
>PF00577 Usher: Outer membrane usher protein; InterPro: IPR000015 In Gram-negative bacteria the biogenesis of fimbriae (or pili) requires a two- component assembly and transport system which is composed of a periplasmic chaperone (see PDOC00552 from PROSITEDOC) and an outer membrane protein which has been termed a molecular 'usher' [, , ]. The usher protein is rather large (from 86 to 100 kDa) and seems to be mainly composed of membrane-spanning beta-sheets, a structure reminiscent of porins. Although the degree of sequence similarity of these proteins is not very high, they share a number of characteristics. One of these is the presence of two pairs of cysteines, the first one located in the N-terminal part and the second at the C-terminal extremity that are probably involved in disulphide bonds. The best conserved region is located in the central part of these proteins.; GO: 0005215 transporter activity, 0006810 transport, 0016020 membrane; PDB: 2VQI_B 3FIP_A 3RFZ_E 3OHN_A 3FCG_B.
Probab=25.02 E-value=2e+02 Score=19.17 Aligned_cols=32 Identities=13% Similarity=0.271 Sum_probs=21.1
Q ss_pred CCceEEEEecCCC--CCce-EEEEe-CCeEEEEEEE
Q psy12414 19 EDGLFLVRESTNF--PQDF-MCVCF-ESKVEHYRVK 50 (71)
Q Consensus 19 ~~G~fliR~s~~~--~~~~-Ls~~~-~~~v~h~~I~ 50 (71)
|+|.|.|.+-+.. .+.. +.|.. .+..+++.+-
T Consensus 116 ppGpF~i~dlp~~~~~gdl~V~i~d~~G~~~~~~vp 151 (552)
T PF00577_consen 116 PPGPFEIDDLPLISGSGDLQVVITDADGREQVFTVP 151 (552)
T ss_dssp -SEEEEE-SS-TTTTTSEEEEEEEETTS-EEEEEEE
T ss_pred CCCCEEecCccccCCCceEEEEEEECCCCEEEEEEE
Confidence 8899999976543 3567 88877 5788888775
No 68
>KOG0291|consensus
Probab=24.90 E-value=2.6e+02 Score=20.36 Aligned_cols=33 Identities=15% Similarity=0.193 Sum_probs=19.4
Q ss_pred CCCceEEEEecCCCCCceEEEEeCCeEEEEEEE
Q psy12414 18 KEDGLFLVRESTNFPQDFMCVCFESKVEHYRVK 50 (71)
Q Consensus 18 ~~~G~fliR~s~~~~~~~Ls~~~~~~v~h~~I~ 50 (71)
.|+|+|||-..+.....|+++.....++||..+
T Consensus 64 Sp~g~lllavdE~g~~~lvs~~~r~Vlh~f~fk 96 (893)
T KOG0291|consen 64 SPDGTLLLAVDERGRALLVSLLSRSVLHRFNFK 96 (893)
T ss_pred CCCceEEEEEcCCCcEEEEecccceeeEEEeec
Confidence 378888886655422222566555566666654
No 69
>TIGR03769 P_ac_wall_RPT actinobacterial surface-anchored protein domain. This model describes a repeat domain that one to three times in Actinobacterial proteins, some of which have LPXTG-type sortase recognition motifs for covalent attachment to the Gram-positive cell wall. Where it occurs with duplication in an LPXTG-anchored protein, it tends to be adjacent to the substrate-binding protein of the gene trio of an ABC transporter system, where that substrate-binding protein has a single copy of this same domain. This arrangement suggests a substrate-binding relay system, with the LPXTG protein acting as a substrate receptor.
Probab=24.66 E-value=75 Score=13.58 Aligned_cols=11 Identities=18% Similarity=0.301 Sum_probs=8.0
Q ss_pred CCCCce-EEEEe
Q psy12414 30 NFPQDF-MCVCF 40 (71)
Q Consensus 30 ~~~~~~-Ls~~~ 40 (71)
++||.| |.++.
T Consensus 10 T~PG~Y~l~~~a 21 (41)
T TIGR03769 10 TKPGTYTLTVQA 21 (41)
T ss_pred CCCeEEEEEEEE
Confidence 567888 87765
No 70
>PF04485 NblA: Phycobilisome degradation protein nblA ; InterPro: IPR007574 In the cyanobacterium Synechococcus species PCC 7942 (P35087 from SWISSPROT), nblA triggers degradation of light-harvesting phycobiliproteins in response to deprivation nutrients including nitrogen, phosphorus and sulphur. The mechanism of nblA function is not known, but it has been hypothesised that nblA may act by disrupting phycobilisome structure, activating a protease or tagging phycobiliproteins for proteolysis. Members of this family have also been identified in the chloroplasts of some red algae.; PDB: 3CS5_D 1OJH_L 2QDO_B 2Q8V_A.
Probab=24.28 E-value=67 Score=14.77 Aligned_cols=13 Identities=54% Similarity=0.716 Sum_probs=9.0
Q ss_pred cCCCHHHHHHhhC
Q psy12414 4 GKISRETAESLLA 16 (71)
Q Consensus 4 g~i~r~~a~~~L~ 16 (71)
..+|+++|.++|.
T Consensus 20 ~~ls~Eqaq~~Lv 32 (53)
T PF04485_consen 20 QKLSREQAQELLV 32 (53)
T ss_dssp CTS-HHHHHHHHH
T ss_pred HHhCHHHHHHHHH
Confidence 4688999988763
No 71
>PF00432 Prenyltrans: Prenyltransferase and squalene oxidase repeat This Prosite family is a subset of the Pfam family.; InterPro: IPR001330 The beta subunit of the farnesyltransferases is responsible for peptide binding. Squalene-hopene cyclase is a bacterial enzyme that catalyzes the cyclization of squalene into hopene, a key step in hopanoid (triterpenoid) metabolism []. Lanosterol synthase (5.4.99.7 from EC) (oxidosqualene-lanosterol cyclase) catalyzes the cyclization of (S)-2,3-epoxysqualene to lanosterol, the initial precursor of cholesterol, steroid hormones and vitamin D in vertebrates and of ergosterol in fungi []. Cycloartenol synthase () (2,3-epoxysqualene-cycloartenol cyclase) is a plant enzyme that catalyzes the cyclization of (S)-2,3-epoxysqualene to cycloartenol.; GO: 0003824 catalytic activity; PDB: 2IEJ_B 1LD7_B 1LD8_B 2H6G_B 1TN6_B 1S63_B 1MZC_B 2H6I_B 2H6F_B 1JCQ_B ....
Probab=24.27 E-value=24 Score=14.97 Aligned_cols=21 Identities=29% Similarity=0.215 Sum_probs=12.4
Q ss_pred CHHHHHHhhC--CCCCceEEEEe
Q psy12414 7 SRETAESLLA--PKEDGLFLVRE 27 (71)
Q Consensus 7 ~r~~a~~~L~--~~~~G~fliR~ 27 (71)
.++++.+.|. +.++|.|--|.
T Consensus 2 d~~~~~~~l~~~Q~~dGGf~~~~ 24 (44)
T PF00432_consen 2 DVEKLIRFLLSCQNPDGGFGGRP 24 (44)
T ss_dssp HHHHHHHHHHHTBBTTSSBBSST
T ss_pred CHHHHHHHHHHHCCCCCCCCCCC
Confidence 4566666443 35778775543
No 72
>PRK11251 DNA-binding transcriptional activator OsmE; Provisional
Probab=23.80 E-value=1.3e+02 Score=15.93 Aligned_cols=47 Identities=13% Similarity=0.257 Sum_probs=24.6
Q ss_pred CCCHHHHHHhhCCC-CCceEEEEecCCCCCceEEEEeCCeEEEEEEEeeC
Q psy12414 5 KISRETAESLLAPK-EDGLFLVRESTNFPQDFMCVCFESKVEHYRVKYKE 53 (71)
Q Consensus 5 ~i~r~~a~~~L~~~-~~G~fliR~s~~~~~~~Ls~~~~~~v~h~~I~~~~ 53 (71)
.|+|++...+|-.+ ..+.|.+..... -.|+-...++.-++|.|.-++
T Consensus 39 GmTr~qV~~~lGtP~~~~~~~~~~~t~--w~Yv~~~~~g~~~~~tV~Fd~ 86 (109)
T PRK11251 39 GMTRQQVAQIAGKPSSEVSMIHARGTC--QTYILGNRDGKAQTYFVSFDD 86 (109)
T ss_pred CCCHHHHHHHcCCCCccceeecCCCcc--eeEEEecCCCceEEEEEEECC
Confidence 37999999999643 224444322111 123112224556677776553
No 73
>PF13983 YsaB: YsaB-like lipoprotein
Probab=23.76 E-value=1.1e+02 Score=15.03 Aligned_cols=30 Identities=17% Similarity=0.181 Sum_probs=19.1
Q ss_pred CCceEEEEecCCCCCce-EEEEeCCeEEEEE
Q psy12414 19 EDGLFLVRESTNFPQDF-MCVCFESKVEHYR 48 (71)
Q Consensus 19 ~~G~fliR~s~~~~~~~-Ls~~~~~~v~h~~ 48 (71)
-.|+|-+|-.+.....| -|+-.+++..|..
T Consensus 45 fQgSYEm~G~T~r~E~FvCSFD~dGqFLHLS 75 (77)
T PF13983_consen 45 FQGSYEMRGYTARKEGFVCSFDADGQFLHLS 75 (77)
T ss_pred hccceEeecccccccceEEeECCCCcEEEee
Confidence 45778777766555566 5555566666653
No 74
>PF04355 SmpA_OmlA: SmpA / OmlA family; InterPro: IPR007450 This is a bacterial outer membrane lipoprotein, possibly involved in maintaining the structural integrity of the cell envelope []. The lipid attachment site is a conserved N-terminal cysteine residue sometimes found adjacent to the OmpA domain (IPR006665 from INTERPRO).; GO: 0019867 outer membrane; PDB: 4DM5_C 2PXG_A 2YH9_B 2KXX_A 2KM7_A.
Probab=23.45 E-value=60 Score=15.13 Aligned_cols=12 Identities=17% Similarity=0.512 Sum_probs=10.5
Q ss_pred CCCHHHHHHhhC
Q psy12414 5 KISRETAESLLA 16 (71)
Q Consensus 5 ~i~r~~a~~~L~ 16 (71)
.|++++...+|-
T Consensus 15 GmTk~qV~~lLG 26 (71)
T PF04355_consen 15 GMTKDQVRALLG 26 (71)
T ss_dssp TSBHHHHHHHHT
T ss_pred CCCHHHHHHhcC
Confidence 399999999995
No 75
>PF07095 IgaA: Intracellular growth attenuator protein IgaA; InterPro: IPR010771 This family consists of several bacterial intracellular growth attenuator (IgaA) proteins. IgaA is involved in negative control of bacterial proliferation within fibroblasts. IgaA is homologous to the Escherichia coli YrfF and Proteus mirabilis UmoB proteins. Whereas the biological function of YrfF is currently unknown, UmoB has been shown elsewhere to act as a positive regulator of FlhDC, the master regulator of flagella and swarming. FlhDC has been shown to repress cell division during P. mirabilis swarming, suggesting that UmoB could repress cell division via FlhDC. This biological function, if maintained in Salmonella enterica, could sustain a putative negative control of cell division and growth exerted by IgaA in intracellular bacteria [].; GO: 0009276 Gram-negative-bacterium-type cell wall, 0016021 integral to membrane
Probab=23.44 E-value=1.3e+02 Score=21.27 Aligned_cols=21 Identities=24% Similarity=0.294 Sum_probs=15.5
Q ss_pred HHHHhhCCCCCceEEEEecCC
Q psy12414 10 TAESLLAPKEDGLFLVRESTN 30 (71)
Q Consensus 10 ~a~~~L~~~~~G~fliR~s~~ 30 (71)
.|.+.|.++++|-|||+.-+.
T Consensus 564 raa~~LnSp~PGGfLi~sdEg 584 (705)
T PF07095_consen 564 RAAQALNSPPPGGFLIISDEG 584 (705)
T ss_pred HHHHHhcCCCCCceEEEecCC
Confidence 355677788999999996543
No 76
>PRK10518 alkaline phosphatase; Provisional
Probab=23.31 E-value=92 Score=20.89 Aligned_cols=21 Identities=38% Similarity=0.566 Sum_probs=16.3
Q ss_pred HHHHHhhCCCCCceEEEEecC
Q psy12414 9 ETAESLLAPKEDGLFLVREST 29 (71)
Q Consensus 9 ~~a~~~L~~~~~G~fliR~s~ 29 (71)
+.|.++|+.+++|-||+=+..
T Consensus 331 ~kAI~~Lskn~~GFFLmVEGg 351 (476)
T PRK10518 331 DKAIDLLKKNEKGFFLQVEGA 351 (476)
T ss_pred HHHHHHhccCCCceEEEeecc
Confidence 347778877899999988754
No 77
>PRK15223 pilin outer membrane usher protein SafC; Provisional
Probab=22.94 E-value=2.2e+02 Score=20.49 Aligned_cols=32 Identities=19% Similarity=0.295 Sum_probs=24.1
Q ss_pred CCceEEEEecCC--CCCce-EEEEe-CCeEEEEEEE
Q psy12414 19 EDGLFLVRESTN--FPQDF-MCVCF-ESKVEHYRVK 50 (71)
Q Consensus 19 ~~G~fliR~s~~--~~~~~-Ls~~~-~~~v~h~~I~ 50 (71)
|+|-|.|.+-.. ..|.. ++|.. ++.+++|.+-
T Consensus 302 ppGPF~I~Dl~~~~~~GdL~VtV~EadG~~~~ftvP 337 (836)
T PRK15223 302 APGPFALRDLSVTDSSGDLHVTVWEADGSTQMFVVP 337 (836)
T ss_pred CCCCeEeccccccCCCceEEEEEEEcCCCEEEEEEc
Confidence 889999987643 34677 88876 6788888774
No 78
>smart00098 alkPPc Alkaline phosphatase homologues.
Probab=22.72 E-value=94 Score=20.42 Aligned_cols=21 Identities=43% Similarity=0.600 Sum_probs=16.0
Q ss_pred HHHHHhhCCCCCceEEEEecC
Q psy12414 9 ETAESLLAPKEDGLFLVREST 29 (71)
Q Consensus 9 ~~a~~~L~~~~~G~fliR~s~ 29 (71)
+.|.++|..++.|-||+=+..
T Consensus 241 ~~Al~~L~~~~~GFfLmVEgg 261 (419)
T smart00098 241 EVAIRLLSKNERGFFLMVEGG 261 (419)
T ss_pred HHHHHHhhcCCCceEEEEecc
Confidence 357778877889999987653
No 79
>PF13342 Toprim_Crpt: C-terminal repeat of topoisomerase
Probab=22.57 E-value=91 Score=14.62 Aligned_cols=17 Identities=29% Similarity=0.517 Sum_probs=13.6
Q ss_pred CCCHHHHHHhhCCCCCc
Q psy12414 5 KISRETAESLLAPKEDG 21 (71)
Q Consensus 5 ~i~r~~a~~~L~~~~~G 21 (71)
.|+..++..||.....+
T Consensus 15 ~lt~~~~~~Ll~~gkT~ 31 (62)
T PF13342_consen 15 KLTDEEVKELLEKGKTG 31 (62)
T ss_pred CCCHHHHHHHHHcCCcc
Confidence 68999999999765544
No 80
>PF08272 Topo_Zn_Ribbon: Topoisomerase I zinc-ribbon-like ; InterPro: IPR013263 DNA topoisomerases regulate the number of topological links between two DNA strands (i.e. change the number of superhelical turns) by catalysing transient single- or double-strand breaks, crossing the strands through one another, then resealing the breaks []. These enzymes have several functions: to remove DNA supercoils during transcription and DNA replication; for strand breakage during recombination; for chromosome condensation; and to disentangle intertwined DNA during mitosis [, ]. DNA topoisomerases are divided into two classes: type I enzymes (5.99.1.2 from EC; topoisomerases I, III and V) break single-strand DNA, and type II enzymes (5.99.1.3 from EC; topoisomerases II, IV and VI) break double-strand DNA []. Type I topoisomerases are ATP-independent enzymes (except for reverse gyrase), and can be subdivided according to their structure and reaction mechanisms: type IA (bacterial and archaeal topoisomerase I, topoisomerase III and reverse gyrase) and type IB (eukaryotic topoisomerase I and topoisomerase V). These enzymes are primarily responsible for relaxing positively and/or negatively supercoiled DNA, except for reverse gyrase, which can introduce positive supercoils into DNA. This entry represents the C-terminal zinc-ribbon-like domain found in bacterial topoisomerase I (type IA) enzymes. Escherichia coli topoisomerase I proteins contain five copies of a zinc-ribbon-like domain at their C terminus, two of which have lost their cysteine residues and are therefore probably not able to bind zinc []. This domain is still considered to be a member of the zinc-ribbon superfamily despite not being able to bind zinc. More information about this protein can be found at Protein of the Month: DNA Topoisomerase [].; GO: 0003677 DNA binding, 0003918 DNA topoisomerase (ATP-hydrolyzing) activity, 0006265 DNA topological change, 0005694 chromosome; PDB: 1YUA_A.
Probab=22.39 E-value=4.4 Score=17.72 Aligned_cols=9 Identities=22% Similarity=0.113 Sum_probs=4.0
Q ss_pred CCceEEEEe
Q psy12414 19 EDGLFLVRE 27 (71)
Q Consensus 19 ~~G~fliR~ 27 (71)
.+..|.||.
T Consensus 11 k~k~qyv~s 19 (42)
T PF08272_consen 11 KTKEQYVRS 19 (42)
T ss_dssp TTTEEEEEE
T ss_pred cCcEEEEec
Confidence 334444444
No 81
>PTZ00391 transport protein particle component (TRAPP) superfamily; Provisional
Probab=21.94 E-value=47 Score=18.97 Aligned_cols=32 Identities=13% Similarity=0.364 Sum_probs=19.7
Q ss_pred CCHHHHHHhhCC-CCCceEEEEecCCCCCceEEE
Q psy12414 6 ISRETAESLLAP-KEDGLFLVRESTNFPQDFMCV 38 (71)
Q Consensus 6 i~r~~a~~~L~~-~~~G~fliR~s~~~~~~~Ls~ 38 (71)
+..++|..+ +. ..+|.|+|.+.......|+|+
T Consensus 74 lFgk~aD~L-kt~d~~~~Y~i~Dn~~~~~~~iS~ 106 (168)
T PTZ00391 74 LFGHSSDLL-KSQDSDDEYMINDKNLLLNKFISV 106 (168)
T ss_pred HhCchhhhh-cccCCCCeEEEEeCchhheeeeec
Confidence 445666665 65 466999998876433334554
No 82
>PLN03181 glycosyltransferase; Provisional
Probab=21.77 E-value=45 Score=22.10 Aligned_cols=11 Identities=36% Similarity=0.872 Sum_probs=9.2
Q ss_pred CCceEEEEecC
Q psy12414 19 EDGLFLVREST 29 (71)
Q Consensus 19 ~~G~fliR~s~ 29 (71)
..|.||||.++
T Consensus 247 N~GsFLIRNcq 257 (453)
T PLN03181 247 NAGVFLIRNCQ 257 (453)
T ss_pred ceeeeEEecCH
Confidence 67999999764
No 83
>PRK15294 putative fimbrial outer membrane usher protein SthC; Provisional
Probab=21.72 E-value=2.3e+02 Score=20.36 Aligned_cols=32 Identities=16% Similarity=0.277 Sum_probs=24.2
Q ss_pred CCceEEEEecCCC--CCce-EEEEe-CCeEEEEEEE
Q psy12414 19 EDGLFLVRESTNF--PQDF-MCVCF-ESKVEHYRVK 50 (71)
Q Consensus 19 ~~G~fliR~s~~~--~~~~-Ls~~~-~~~v~h~~I~ 50 (71)
|+|-|.|.+-... .|.. ++|.. ++.+++|.+-
T Consensus 307 ppGPF~I~Dl~~~~~~GdL~VtV~EadG~~~~ftvP 342 (845)
T PRK15294 307 PAGPFAINDLYPTGGSGDLYVTIKESDGSEQHFIVP 342 (845)
T ss_pred CCCCeEeccccCCCCCceEEEEEEeCCCCEEEEEEc
Confidence 8899999976433 4677 88877 6788888774
No 84
>PF02070 NMU: Neuromedin U; InterPro: IPR008199 Neuromedin U (NmU) [, ] is a vertebrate peptide which stimulates uterine smooth muscle contraction and causes selective vasoconstriction. Like most other active peptides, it is proteolytically processed from a larger precursor protein. The mature peptides are 8 (NmU-8) to 25 (NmU-25) residues long and C-terminally amidated. The sequence of the C-terminal extremity of NmU is extremely well conserved.; GO: 0006940 regulation of smooth muscle contraction
Probab=21.52 E-value=72 Score=12.23 Aligned_cols=10 Identities=40% Similarity=0.720 Sum_probs=7.5
Q ss_pred CCceEEEEec
Q psy12414 19 EDGLFLVRES 28 (71)
Q Consensus 19 ~~G~fliR~s 28 (71)
.-|-||.|..
T Consensus 15 srgyFlfRPR 24 (25)
T PF02070_consen 15 SRGYFLFRPR 24 (25)
T ss_pred cccEEEeccC
Confidence 5688998864
No 85
>PF15517 TBPIP_N: TBP-interacting protein N-terminus; PDB: 2CZR_A.
Probab=21.40 E-value=1.4e+02 Score=15.46 Aligned_cols=16 Identities=38% Similarity=0.565 Sum_probs=9.6
Q ss_pred CHHHHHHhhCCCCCce
Q psy12414 7 SRETAESLLAPKEDGL 22 (71)
Q Consensus 7 ~r~~a~~~L~~~~~G~ 22 (71)
++++|+.+-+....|-
T Consensus 48 skE~AdKla~k~~~gi 63 (99)
T PF15517_consen 48 SKEEADKLAEKEEVGI 63 (99)
T ss_dssp SHHHHHHHSS---SSE
T ss_pred CHHHHHHhhhccCCCe
Confidence 6889998876444443
No 86
>COG5453 Uncharacterized conserved protein [Function unknown]
Probab=21.35 E-value=1.4e+02 Score=15.41 Aligned_cols=31 Identities=16% Similarity=0.193 Sum_probs=18.6
Q ss_pred CCceEEEEecCC-CCCce-EEEEe----CCeEEEEEE
Q psy12414 19 EDGLFLVRESTN-FPQDF-MCVCF----ESKVEHYRV 49 (71)
Q Consensus 19 ~~G~fliR~s~~-~~~~~-Ls~~~----~~~v~h~~I 49 (71)
.-+.|||+..+- ..|.| ++=+. ++.++-++.
T Consensus 27 ehkdflI~atP~~eggQyr~aG~I~k~idgevk~h~F 63 (96)
T COG5453 27 EHKDFLIYATPISEGGQYRLAGRIEKEIDGEVKVHRF 63 (96)
T ss_pred cccCeEEEeeecccCCeEEEeeEeeeecCceeeeeee
Confidence 447899998874 45667 65433 344544443
No 87
>KOG0177|consensus
Probab=20.84 E-value=62 Score=19.03 Aligned_cols=16 Identities=19% Similarity=0.424 Sum_probs=13.9
Q ss_pred CcccCCCHHHHHHhhC
Q psy12414 1 WFHGKISRETAESLLA 16 (71)
Q Consensus 1 w~~g~i~r~~a~~~L~ 16 (71)
+|.+.|+.++|-++++
T Consensus 146 ~Y~pdmt~eea~~lmk 161 (200)
T KOG0177|consen 146 YYKPDMTIEEALDLMK 161 (200)
T ss_pred hhCCCCCHHHHHHHHH
Confidence 4788999999999986
No 88
>PF11423 Repressor_Mnt: Regulatory protein Mnt; InterPro: IPR024421 Mnt is a repressor which is involved in the genetic switch between lysogenic and lytic growth in bacteriophage P22. The C-terminal domain of the protein consists of a dimer of two antiparallel coiled coils with a right handed twist, which is both stronger and has closer inter-helical separation compared with those found in left-handed coiled coils []. This entry is represented by Bacteriophage P22, Mnt. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.; PDB: 1QEY_C 1MNT_B.
Probab=20.43 E-value=49 Score=13.27 Aligned_cols=6 Identities=50% Similarity=0.695 Sum_probs=2.9
Q ss_pred HHHHHh
Q psy12414 9 ETAESL 14 (71)
Q Consensus 9 ~~a~~~ 14 (71)
++||++
T Consensus 2 DdAER~ 7 (30)
T PF11423_consen 2 DDAERL 7 (30)
T ss_dssp SHHHHH
T ss_pred cHHHHH
Confidence 455544
No 89
>KOG4748|consensus
Probab=20.41 E-value=58 Score=21.04 Aligned_cols=11 Identities=45% Similarity=0.815 Sum_probs=9.8
Q ss_pred CCceEEEEecC
Q psy12414 19 EDGLFLVREST 29 (71)
Q Consensus 19 ~~G~fliR~s~ 29 (71)
..|+||||.|+
T Consensus 250 naGSfLirns~ 260 (364)
T KOG4748|consen 250 NAGSFLIRNSE 260 (364)
T ss_pred cccceEEecCc
Confidence 66999999987
No 90
>smart00084 NMU Neuromedin U. Neuromedin U (NmU) is a vertebrate peptide which stimulates uterine smooth muscle contraction and causes selective vasoconstriction. Like most other active peptides, it is proteolytically processed from a larger precursor protein. The mature peptides are 8 (NmU-8) to 25 (NmU-25) residues long and C- terminally amidated. The sequence of the C-terminal extremity of NmU is extremely well conserved in mammals, birds and amphibians.
Probab=20.33 E-value=79 Score=12.24 Aligned_cols=10 Identities=40% Similarity=0.720 Sum_probs=7.7
Q ss_pred CCceEEEEec
Q psy12414 19 EDGLFLVRES 28 (71)
Q Consensus 19 ~~G~fliR~s 28 (71)
.-|-||.|..
T Consensus 15 srgyFLfRPR 24 (26)
T smart00084 15 SRGYFLFRPR 24 (26)
T ss_pred cCceEEeccC
Confidence 5688998875
No 91
>PRK15304 putative fimbrial outer membrane usher protein; Provisional
Probab=20.22 E-value=2.7e+02 Score=19.96 Aligned_cols=32 Identities=19% Similarity=0.311 Sum_probs=23.7
Q ss_pred CCceEEEEecCC--CCCce-EEEEe-CCeEEEEEEE
Q psy12414 19 EDGLFLVRESTN--FPQDF-MCVCF-ESKVEHYRVK 50 (71)
Q Consensus 19 ~~G~fliR~s~~--~~~~~-Ls~~~-~~~v~h~~I~ 50 (71)
|+|-|.|.+-.. ..|.. ++|.. ++.+++|.+-
T Consensus 288 ppGPF~I~Dl~~~~~~GdL~V~V~EadG~~~~ftvP 323 (801)
T PRK15304 288 PAGAFTLDDVPVINGNTDLNVTVVETDGSTSHFTVP 323 (801)
T ss_pred CCCCeEeccccCCCCCccEEEEEEEcCCCEEEEEeC
Confidence 889999997643 34677 77776 6778888764
No 92
>PRK15298 fimbrial outer membrane usher protein StiC; Provisional
Probab=20.20 E-value=2.7e+02 Score=20.13 Aligned_cols=32 Identities=19% Similarity=0.284 Sum_probs=24.0
Q ss_pred CCceEEEEecCCC--CCce-EEEEe-CCeEEEEEEE
Q psy12414 19 EDGLFLVRESTNF--PQDF-MCVCF-ESKVEHYRVK 50 (71)
Q Consensus 19 ~~G~fliR~s~~~--~~~~-Ls~~~-~~~v~h~~I~ 50 (71)
|+|-|.|.+-... .|.. ++|.. ++.+++|.+-
T Consensus 311 ppGPF~I~Dl~~~~~~GdL~VtV~EadG~~~~ftvP 346 (848)
T PRK15298 311 SPGEFEINDMFPTGSNGDYDVTVKEADGSEQHFIVP 346 (848)
T ss_pred CCCCeEeccCcCCCCCceEEEEEEEcCCCEEEEEEc
Confidence 8899999876432 4677 87776 6788888774
No 93
>COG3721 HugX Putative heme iron utilization protein [Inorganic ion transport and metabolism]
Probab=20.07 E-value=75 Score=18.14 Aligned_cols=18 Identities=28% Similarity=0.466 Sum_probs=9.7
Q ss_pred CCCHHHHHHhhCCCCCce
Q psy12414 5 KISRETAESLLAPKEDGL 22 (71)
Q Consensus 5 ~i~r~~a~~~L~~~~~G~ 22 (71)
+|++..+.++|..+|+|+
T Consensus 12 ~m~q~~~~~~L~~qPdg~ 29 (176)
T COG3721 12 NMSQVSLAEFLATQPDGT 29 (176)
T ss_pred chhHHHHHHHHHhCCCCc
Confidence 445555555565555553
No 94
>PRK15235 outer membrane fimbrial usher protein SefC; Provisional
Probab=20.00 E-value=2.7e+02 Score=20.06 Aligned_cols=32 Identities=16% Similarity=0.170 Sum_probs=22.3
Q ss_pred CCceEEEEe-----cCCCCCce-EEEEe-CCeEEEEEEE
Q psy12414 19 EDGLFLVRE-----STNFPQDF-MCVCF-ESKVEHYRVK 50 (71)
Q Consensus 19 ~~G~fliR~-----s~~~~~~~-Ls~~~-~~~v~h~~I~ 50 (71)
|+|.|.|.. .....|.. ++|.. ++.+++|.+-
T Consensus 286 ppGPF~I~d~p~~dl~~~~GdL~V~V~EadG~~~~ftvP 324 (814)
T PRK15235 286 PPGQFEIGREQIADLGVGVGVLDVSIYEKNGQVQNYTVP 324 (814)
T ss_pred CCCCeEecCcccccCCCCcceEEEEEEEcCCCEEEEEEc
Confidence 889999973 21223677 77776 6778888774
Done!