Query psy16402
Match_columns 77
No_of_seqs 35 out of 37
Neff 2.1
Searched_HMMs 46136
Date Fri Aug 16 20:25:15 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy16402.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/16402hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3651|consensus 99.9 1.2E-25 2.5E-30 180.0 7.2 59 1-72 114-172 (429)
2 PF06456 Arfaptin: Arfaptin-li 99.2 3.6E-11 7.7E-16 88.1 6.2 59 1-72 15-73 (229)
3 cd07659 BAR_PICK1 The Bin/Amph 99.1 4.2E-10 9E-15 84.7 6.5 42 31-72 1-42 (215)
4 cd00011 BAR_Arfaptin_like The 98.1 7.6E-06 1.6E-10 60.4 6.5 42 31-72 1-42 (203)
5 cd07660 BAR_Arfaptin The Bin/A 97.7 0.00012 2.6E-09 54.2 6.3 40 33-72 3-42 (201)
6 PF05263 DUF722: Protein of un 87.1 2.2 4.8E-05 29.8 5.4 61 6-66 2-97 (130)
7 cd07634 BAR_GAP10-like The Bin 84.0 3.1 6.6E-05 31.1 5.1 39 37-75 7-45 (207)
8 cd07635 BAR_GRAF2 The Bin/Amph 83.3 3.4 7.4E-05 30.8 5.2 38 38-75 8-45 (207)
9 PF04048 Sec8_exocyst: Sec8 ex 83.1 11 0.00024 25.4 7.2 70 4-73 51-123 (142)
10 cd07633 BAR_OPHN1 The Bin/Amph 76.9 7.7 0.00017 29.4 5.3 38 38-75 8-45 (207)
11 PF08360 TetR_C_5: QacR-like p 76.1 16 0.00034 24.7 6.1 52 3-54 17-76 (131)
12 cd07636 BAR_GRAF The Bin/Amphi 76.1 8.9 0.00019 28.6 5.4 37 39-75 9-45 (207)
13 PF10157 DUF2365: Uncharacteri 75.3 12 0.00026 26.7 5.6 55 1-56 82-136 (149)
14 KOG1155|consensus 73.8 8.8 0.00019 33.1 5.4 32 23-54 454-495 (559)
15 cd07602 BAR_RhoGAP_OPHN1-like 71.0 14 0.0003 27.5 5.3 38 38-75 8-45 (207)
16 PF13524 Glyco_trans_1_2: Glyc 70.4 17 0.00036 21.2 4.7 47 27-73 43-91 (92)
17 KOG1626|consensus 67.4 2.4 5.1E-05 33.8 0.7 36 27-62 158-193 (279)
18 cd04733 OYE_like_2_FMN Old yel 66.2 1.4 3.1E-05 32.9 -0.7 18 23-40 320-337 (338)
19 PRK10605 N-ethylmaleimide redu 64.7 1.7 3.8E-05 33.4 -0.5 18 23-40 319-336 (362)
20 PF10393 Matrilin_ccoil: Trime 64.7 7.7 0.00017 23.3 2.4 24 14-44 22-45 (47)
21 PF00724 Oxidored_FMN: NADH:fl 60.8 2.7 5.8E-05 31.6 -0.1 18 23-40 319-336 (341)
22 PLN02411 12-oxophytodienoate r 58.3 2.1 4.7E-05 33.3 -1.0 18 23-40 340-357 (391)
23 cd02933 OYE_like_FMN Old yello 57.3 2.3 5E-05 32.4 -1.0 18 23-40 312-329 (338)
24 PF01170 UPF0020: Putative RNA 54.1 3 6.5E-05 28.7 -0.7 36 26-61 108-143 (179)
25 PRK10415 tRNA-dihydrouridine s 51.8 44 0.00096 25.2 5.1 39 23-61 222-269 (321)
26 KOG0750|consensus 51.5 12 0.00026 30.2 2.2 49 12-60 211-261 (304)
27 cd04747 OYE_like_5_FMN Old yel 51.2 5.1 0.00011 31.2 0.0 18 23-40 326-343 (361)
28 PRK15361 pathogenicity island 51.0 79 0.0017 24.2 6.3 50 11-62 144-193 (195)
29 cd02803 OYE_like_FMN_family Ol 49.7 4.2 9.2E-05 29.4 -0.6 18 23-40 309-326 (327)
30 cd03821 GT1_Bme6_like This fam 45.9 80 0.0017 20.6 5.0 42 32-73 333-374 (375)
31 cd02929 TMADH_HD_FMN Trimethyl 45.6 6.1 0.00013 30.4 -0.3 18 23-40 317-334 (370)
32 cd07639 BAR_ACAP1 The Bin/Amph 45.3 73 0.0016 23.5 5.3 36 39-74 9-44 (200)
33 cd03808 GT1_cap1E_like This fa 44.7 83 0.0018 20.3 4.9 42 32-73 317-358 (359)
34 PF13075 DUF3939: Protein of u 43.0 11 0.00024 27.3 0.7 31 4-34 10-40 (140)
35 PF06112 Herpes_capsid: Gammah 42.5 29 0.00063 25.3 2.8 47 26-73 16-62 (147)
36 COG1902 NemA NADH:flavin oxido 41.8 6.2 0.00013 31.1 -0.8 19 23-41 316-334 (363)
37 cd02930 DCR_FMN 2,4-dienoyl-Co 41.7 11 0.00023 28.5 0.5 19 23-41 304-322 (353)
38 PF02841 GBP_C: Guanylate-bind 41.4 1.5E+02 0.0032 22.0 8.2 40 5-47 6-45 (297)
39 cd02931 ER_like_FMN Enoate red 41.3 8.1 0.00018 29.8 -0.2 18 23-40 333-350 (382)
40 PRK11815 tRNA-dihydrouridine s 41.2 83 0.0018 23.9 5.2 37 23-59 231-275 (333)
41 cd03825 GT1_wcfI_like This fam 40.5 1.1E+02 0.0024 20.7 5.2 33 32-64 318-350 (365)
42 KOG4642|consensus 39.8 74 0.0016 25.6 4.9 67 1-68 1-87 (284)
43 cd02932 OYE_YqiM_FMN Old yello 39.6 9.6 0.00021 28.4 -0.0 17 23-39 318-334 (336)
44 PF07439 DUF1515: Protein of u 39.6 42 0.00092 23.7 3.2 35 24-58 33-69 (112)
45 PRK13523 NADPH dehydrogenase N 38.7 13 0.00028 28.5 0.5 23 23-45 303-325 (337)
46 PF02671 PAH: Paired amphipath 38.0 40 0.00087 18.5 2.4 25 49-73 22-46 (47)
47 cd07307 BAR The Bin/Amphiphysi 36.6 1E+02 0.0023 19.0 4.7 27 45-71 6-32 (194)
48 PF08222 HTH_CodY: CodY helix- 36.1 30 0.00065 22.3 1.8 23 3-40 8-30 (61)
49 cd04946 GT1_AmsK_like This fam 35.9 99 0.0021 23.1 4.8 42 32-73 365-406 (407)
50 PF09454 Vps23_core: Vps23 cor 35.8 87 0.0019 19.3 3.8 43 10-52 21-63 (65)
51 cd04735 OYE_like_4_FMN Old yel 35.7 18 0.00039 27.5 0.9 18 23-40 311-328 (353)
52 PF03904 DUF334: Domain of unk 34.6 1.9E+02 0.0042 22.5 6.3 32 30-61 51-82 (230)
53 PF14599 zinc_ribbon_6: Zinc-r 34.0 11 0.00024 23.4 -0.4 6 27-32 30-35 (61)
54 cd07603 BAR_ACAPs The Bin/Amph 33.5 1.5E+02 0.0032 21.4 5.3 35 39-73 9-43 (200)
55 cd07978 TAF13 The TATA Binding 33.2 1.4E+02 0.003 19.4 5.8 23 2-24 22-44 (92)
56 KOG4204|consensus 32.8 1E+02 0.0022 23.1 4.4 28 49-76 58-85 (231)
57 PF14131 DUF4298: Domain of un 32.6 1.4E+02 0.0029 19.1 5.5 17 36-52 14-30 (90)
58 PF09452 Mvb12: ESCRT-I subuni 32.1 1.4E+02 0.0031 20.3 4.7 36 37-72 29-64 (91)
59 cd02801 DUS_like_FMN Dihydrour 32.0 10 0.00023 25.7 -0.8 18 23-40 211-228 (231)
60 PF11791 Aconitase_B_N: Aconit 30.7 72 0.0016 23.4 3.3 37 19-63 113-149 (154)
61 cd04734 OYE_like_3_FMN Old yel 30.4 14 0.00029 28.1 -0.5 18 23-40 313-330 (343)
62 cd04955 GT1_like_6 This family 30.4 1.7E+02 0.0038 19.8 4.9 41 32-72 318-358 (363)
63 PF14523 Syntaxin_2: Syntaxin- 29.7 1.3E+02 0.0029 18.2 5.8 26 46-71 71-96 (102)
64 PF14782 BBS2_C: Ciliary BBSom 29.1 2.1E+02 0.0046 23.4 6.0 52 23-74 335-386 (431)
65 PF15124 DUF4563: Domain of un 28.3 80 0.0017 23.9 3.2 23 51-73 149-171 (178)
66 cd03800 GT1_Sucrose_synthase T 27.9 2E+02 0.0044 19.8 4.9 41 32-72 356-396 (398)
67 TIGR03627 arch_S9P archaeal ri 27.8 62 0.0013 22.5 2.4 10 21-30 76-85 (130)
68 PF05103 DivIVA: DivIVA protei 27.7 20 0.00042 22.7 -0.1 47 13-59 23-69 (131)
69 TIGR01037 pyrD_sub1_fam dihydr 27.4 22 0.00048 25.7 0.2 17 23-39 261-277 (300)
70 cd00179 SynN Syntaxin N-termin 27.4 1.7E+02 0.0037 18.7 6.2 27 45-71 87-113 (151)
71 PRK10307 putative glycosyl tra 27.0 2.1E+02 0.0045 20.8 5.1 33 32-64 361-393 (412)
72 PF03333 PapB: Adhesin biosynt 26.8 1.8E+02 0.0038 19.4 4.4 42 3-47 36-83 (91)
73 COG2454 Uncharacterized conser 26.6 58 0.0013 25.1 2.3 14 26-39 87-100 (211)
74 PRK11151 DNA-binding transcrip 26.1 1.5E+02 0.0033 20.5 4.2 45 23-69 26-82 (305)
75 cd06878 PX_SNX25 The phosphoin 25.9 51 0.0011 22.0 1.7 22 12-36 100-121 (127)
76 cd03801 GT1_YqgM_like This fam 25.7 1.9E+02 0.0041 18.5 4.9 41 32-72 329-369 (374)
77 KOG3522|consensus 25.7 1.3E+02 0.0027 27.8 4.5 43 6-51 16-63 (925)
78 cd03822 GT1_ecORF704_like This 25.5 2.1E+02 0.0045 19.0 4.5 39 32-71 322-360 (366)
79 PF05866 RusA: Endodeoxyribonu 25.3 30 0.00065 21.5 0.5 24 13-36 73-96 (118)
80 cd03799 GT1_amsK_like This is 25.0 1.6E+02 0.0035 19.8 4.0 37 32-68 315-351 (355)
81 PF06497 DUF1098: Protein of u 24.9 1.9E+02 0.0042 19.3 4.3 31 15-46 22-54 (95)
82 cd03818 GT1_ExpC_like This fam 24.9 2.6E+02 0.0056 20.3 5.3 42 32-73 354-395 (396)
83 KOG3027|consensus 24.9 1.4E+02 0.003 23.8 4.1 25 40-64 227-251 (257)
84 PF02954 HTH_8: Bacterial regu 24.8 46 0.00099 18.1 1.1 13 4-29 23-35 (42)
85 PF15456 Uds1: Up-regulated Du 24.8 2E+02 0.0044 19.7 4.5 29 32-60 91-120 (124)
86 PF07851 TMPIT: TMPIT-like pro 24.6 2.4E+02 0.0053 22.6 5.5 37 31-67 20-56 (330)
87 KOG0698|consensus 24.5 16 0.00035 27.5 -1.0 16 16-31 154-169 (330)
88 cd02810 DHOD_DHPD_FMN Dihydroo 24.0 40 0.00086 24.1 1.0 18 23-40 270-288 (289)
89 cd03807 GT1_WbnK_like This fam 23.9 2.1E+02 0.0046 18.6 4.9 41 32-72 320-360 (365)
90 cd03794 GT1_wbuB_like This fam 23.6 2.2E+02 0.0048 18.6 4.8 41 32-72 353-393 (394)
91 TIGR00737 nifR3_yhdG putative 23.2 63 0.0014 23.9 1.9 18 23-40 220-237 (319)
92 PRK15322 invasion protein OrgB 22.7 2.1E+02 0.0046 22.0 4.7 48 14-63 42-89 (210)
93 PF06169 DUF982: Protein of un 22.6 1.7E+02 0.0038 17.9 3.5 29 46-74 37-65 (76)
94 PF07851 TMPIT: TMPIT-like pro 22.4 3.8E+02 0.0083 21.5 6.2 39 32-70 7-45 (330)
95 PF09763 Sec3_C: Exocyst compl 22.4 4.6E+02 0.0099 21.8 7.0 69 6-74 172-241 (701)
96 TIGR03418 chol_sulf_TF putativ 22.2 2.6E+02 0.0057 19.1 4.7 21 50-70 63-83 (291)
97 PRK00474 rps9p 30S ribosomal p 22.1 91 0.002 21.8 2.4 11 21-31 80-90 (134)
98 cd07626 BAR_SNX9_like The Bin/ 22.0 3.3E+02 0.0071 20.0 6.0 10 20-29 63-72 (199)
99 COG1819 Glycosyl transferases, 21.9 2.2E+02 0.0048 22.2 4.7 38 26-64 363-400 (406)
100 PRK09448 DNA starvation/statio 21.7 2.8E+02 0.0061 19.1 4.9 22 6-28 109-130 (162)
101 PF12583 TPPII_N: Tripeptidyl 21.4 1.5E+02 0.0032 21.6 3.4 49 14-70 73-121 (139)
102 KOG4514|consensus 21.4 3.3E+02 0.0072 21.3 5.5 31 27-57 180-210 (222)
103 cd07601 BAR_APPL The Bin/Amphi 21.3 3.2E+02 0.0069 20.4 5.3 29 45-73 15-43 (215)
104 PRK10896 PTS system sugar tran 21.2 99 0.0021 19.9 2.3 35 15-51 118-152 (154)
105 KOG0134|consensus 21.1 27 0.00058 28.8 -0.4 19 23-41 346-364 (400)
106 PF13865 FoP_duplication: C-te 21.0 72 0.0016 19.8 1.6 14 4-17 40-53 (74)
107 KOG3443|consensus 21.0 3.9E+02 0.0084 20.4 6.0 45 30-74 57-101 (184)
108 PF12551 PHBC_N: Poly-beta-hyd 20.7 1.2E+02 0.0026 18.0 2.4 30 2-31 2-31 (46)
109 cd03795 GT1_like_4 This family 20.7 2.7E+02 0.0058 18.7 4.4 34 32-65 320-353 (357)
110 TIGR00376 DNA helicase, putati 20.6 66 0.0014 26.9 1.7 33 18-57 590-627 (637)
111 PRK13248 phycoerythrobilin:fer 20.4 2.2E+02 0.0047 22.1 4.4 61 6-66 180-240 (253)
112 PTZ00446 vacuolar sorting prot 20.2 2.5E+02 0.0054 20.7 4.5 45 6-51 129-182 (191)
No 1
>KOG3651|consensus
Probab=99.92 E-value=1.2e-25 Score=179.96 Aligned_cols=59 Identities=54% Similarity=0.790 Sum_probs=58.5
Q ss_pred CcchhHHHHhhhHHHHhhhhhcchhHHhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16402 1 MSTTTADALDSLLDDYLQGLNQSLSRAILCNDTLVKKMEELENTEQMYKGLVEHCKKVLKGFLGILRVYKGC 72 (77)
Q Consensus 1 Mss~TADAL~~~~~~~~~~~~~GLSRAILCND~LvkkleeLe~t~~~YkgLv~h~k~~Lk~~~~l~~~~k~f 72 (77)
|||+||||| ||||||||||+||||+||||.|+.||||||+|+++||++||+++|+||+|
T Consensus 114 ~ss~tADaL-------------GLSRAILcND~LvkrleeLE~tae~Ykglveh~~~ml~a~y~lsqt~k~F 172 (429)
T KOG3651|consen 114 VSSDTADAL-------------GLSRAILCNDPLVKRLEELEETAEFYKGLVEHFGDMLQAQYKLSQTQKEF 172 (429)
T ss_pred cccCchhhh-------------cchhhhhcCcHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 799999999 99999999999999999999999999999999999999999999999998
No 2
>PF06456 Arfaptin: Arfaptin-like domain; InterPro: IPR010504 Arfaptin interacts with ARF1, a small GTPase involved in vesicle budding at the Golgi complex and immature secretory granules. The structure of arfaptin shows that upon binding to a small GTPase, arfaptin forms a an elongated, crescent-shaped dimer of three-helix coiled-coils []. The N-terminal region of ICA69 is similar to arfaptin [].; PDB: 1I4D_B 1I4L_B 1I49_B 1I4T_A 4DCN_D.
Probab=99.20 E-value=3.6e-11 Score=88.05 Aligned_cols=59 Identities=27% Similarity=0.384 Sum_probs=43.4
Q ss_pred CcchhHHHHhhhHHHHhhhhhcchhHHhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16402 1 MSTTTADALDSLLDDYLQGLNQSLSRAILCNDTLVKKMEELENTEQMYKGLVEHCKKVLKGFLGILRVYKGC 72 (77)
Q Consensus 1 Mss~TADAL~~~~~~~~~~~~~GLSRAILCND~LvkkleeLe~t~~~YkgLv~h~k~~Lk~~~~l~~~~k~f 72 (77)
|.++++|++ |.||||+||+.|.+|+|.++.+...|++|++|++++++.|+.+++++++|
T Consensus 15 ~~~e~~g~~-------------~~~~~it~D~eL~~kle~l~~~~~~y~~L~~~~~~~~~~l~~l~q~q~~l 73 (229)
T PF06456_consen 15 MVSEKLGKK-------------EDSRAITVDDELDAKLELLRDTQRTYRGLLKHARAYQNRLQALSQTQKEL 73 (229)
T ss_dssp ----------------------------CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHcCcc-------------cccchhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 678899999 99999999999999999999999999999999999999999999999987
No 3
>cd07659 BAR_PICK1 The Bin/Amphiphysin/Rvs (BAR) domain of Protein Interacting with C Kinase 1. The BAR domain of Arfaptin-like proteins, also called the Arfaptin domain, is a dimerization and lipid binding module that can detect and drive membrane curvature. Protein Interacting with C Kinase 1 (PICK1), also called Protein kinase C-alpha-binding protein, is highly expressed in brain and testes. PICK1 plays a key role in the trafficking of AMPA receptors, which are critical for regulating synaptic strength and may be important in cellular processes involved in learning and memory. PICK1 is also critical in the early stages of spermiogenesis. Mice deficient in PICK1 are infertile and show characteristics of the human disease globozoospermia such as round-headed sperm, reduced sperm count, and severely impaired sperm motility. PICK1 may also be involved in the neuropathogenesis of schizophrenia. PICK1 contains an N-terminal PDZ domain and a C-terminal BAR domain. BAR domains form dimers th
Probab=99.06 E-value=4.2e-10 Score=84.72 Aligned_cols=42 Identities=52% Similarity=0.830 Sum_probs=41.5
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16402 31 NDTLVKKMEELENTEQMYKGLVEHCKKVLKGFLGILRVYKGC 72 (77)
Q Consensus 31 ND~LvkkleeLe~t~~~YkgLv~h~k~~Lk~~~~l~~~~k~f 72 (77)
||+|++|||+|++|+++|+++++|+++++++|+++++++|+|
T Consensus 1 nd~l~~qie~L~~t~~~Y~~l~~~~~~l~~~f~~l~qtqk~~ 42 (215)
T cd07659 1 NDGLVKKLEELEQTAELYKGLVEHTKRLLRAFYALSQTHKEF 42 (215)
T ss_pred CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 899999999999999999999999999999999999999997
No 4
>cd00011 BAR_Arfaptin_like The Bin/Amphiphysin/Rvs (BAR) domain of Arfaptin-like proteins, a dimerization module that binds and bends membranes. The BAR domain of Arfaptin-like proteins, also called the Arfaptin domain, is a dimerization, lipid binding and curvature sensing module present in Arfaptins, PICK1, ICA69, and similar proteins. Arfaptins are ubiquitously expressed proteins implicated in mediating cross-talk between Rac, a member of the Rho family GTPases, and Arf (ADP-ribosylation factor) small GTPases. Arfaptins bind to GTP-bound Arf1, Arf5, and Arf6, with strongest binding to GTP-Arf1. Arfaptins also binds to Rac-GTP and Rac-GDP with similar affinities. The Arfs are thought to bind to the same surface as Rac, and their binding is mutually exclusive. Protein Interacting with C Kinase 1 (PICK1) plays a key role in the trafficking of AMPA receptors, which are critical for regulating synaptic strength and may be important in cellular processes involved in learning and memory. Is
Probab=98.15 E-value=7.6e-06 Score=60.44 Aligned_cols=42 Identities=12% Similarity=0.213 Sum_probs=40.9
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16402 31 NDTLVKKMEELENTEQMYKGLVEHCKKVLKGFLGILRVYKGC 72 (77)
Q Consensus 31 ND~LvkkleeLe~t~~~YkgLv~h~k~~Lk~~~~l~~~~k~f 72 (77)
||.|.+|||.|+.+...|++|+.|++++++.|+.+++++++|
T Consensus 1 D~eL~akle~l~~~~~~y~~Ll~~~~~~~~~~~~l~q~q~~l 42 (203)
T cd00011 1 DLELELQLELLRETKRKYESVLQLGRALTAHLYSLSQTQHAL 42 (203)
T ss_pred ChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 789999999999999999999999999999999999999987
No 5
>cd07660 BAR_Arfaptin The Bin/Amphiphysin/Rvs (BAR) domain of Arfaptin. The BAR domain of Arfaptin-like proteins, also called the Arfaptin domain, is a dimerization and lipid binding module that can detect and drive membrane curvature. Arfaptins are ubiquitously expressed proteins implicated in mediating cross-talk between Rac, a member of the Rho family GTPases, and Arf (ADP-ribosylation factor) small GTPases. Arfaptins bind to GTP-bound Arf1, Arf5, and Arf6, with strongest binding to GTP-Arf1. Arfaptins also bind to Rac-GTP and Rac-GDP with similar affinities. The Arfs are thought to bind to the same surface as Rac, and their binding is mutually exclusive. Mammals contain at least two isoforms of Arfaptin. Arfaptin 1 has been shown to inhibit the activation of Arf-dependent phospholipase D (PLD) and the secretion of matrix metalloproteinase-9 (MMP-9), an enzyme implicated in cancer invasiveness and metastasis. Arfaptin 2 regulates the aggregation of the protein huntingtin, which is im
Probab=97.71 E-value=0.00012 Score=54.23 Aligned_cols=40 Identities=20% Similarity=0.390 Sum_probs=38.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16402 33 TLVKKMEELENTEQMYKGLVEHCKKVLKGFLGILRVYKGC 72 (77)
Q Consensus 33 ~LvkkleeLe~t~~~YkgLv~h~k~~Lk~~~~l~~~~k~f 72 (77)
.|=+|+|.|+.+.+.|+++++|++++++.|+.+++++++|
T Consensus 3 eLeaklE~L~~~q~~Y~~ll~~~~~l~~~~~~l~qtq~~L 42 (201)
T cd07660 3 ELEAQIEVLRDTQRKYESVLRLARALASQFYQMLQTQKAL 42 (201)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4668999999999999999999999999999999999987
No 6
>PF05263 DUF722: Protein of unknown function (DUF722); InterPro: IPR007927 This entry is represented by Bacteriophage bIL285, Orf38. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=87.07 E-value=2.2 Score=29.78 Aligned_cols=61 Identities=28% Similarity=0.379 Sum_probs=46.0
Q ss_pred HHHHhhhHHHHhhhh-------------------hcchhHHh---------------hcchHHHHHHHHH-HHHHHHHHH
Q psy16402 6 ADALDSLLDDYLQGL-------------------NQSLSRAI---------------LCNDTLVKKMEEL-ENTEQMYKG 50 (77)
Q Consensus 6 ADAL~~~~~~~~~~~-------------------~~GLSRAI---------------LCND~LvkkleeL-e~t~~~Ykg 50 (77)
||-||++|-||..|- |.|-.||- +=+|.-+.+|... +--+.+|..
T Consensus 2 ADklD~iL~DY~sG~l~~~I~~R~~el~~~~~~DNiGGgra~n~~s~p~e~~li~e~~e~D~~L~~L~~~k~~id~~~~~ 81 (130)
T PF05263_consen 2 ADKLDRILSDYYSGRLDAKIKLRKLELQYRENDDNIGGGRAQNKSSRPEENVLIKERLESDEELQSLKRQKEAIDRWLET 81 (130)
T ss_pred chHHHHHHHHHhcchHHHHHHHHHHHhhcCCCCCCcccccccCCCCcHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHh
Confidence 899999999998642 67777762 2566666666543 456788999
Q ss_pred HHHHHHHHHHHHHHHH
Q psy16402 51 LVEHCKKVLKGFLGIL 66 (77)
Q Consensus 51 Lv~h~k~~Lk~~~~l~ 66 (77)
+.+-.+++++..|..-
T Consensus 82 l~de~k~Ii~lry~~r 97 (130)
T PF05263_consen 82 LIDEEKRIIKLRYDRR 97 (130)
T ss_pred hCHHHHHHHHHHHccc
Confidence 9999999999887654
No 7
>cd07634 BAR_GAP10-like The Bin/Amphiphysin/Rvs (BAR) domain of Rho GTPase activating protein 10-like. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. This group is composed of uncharacterized proteins called Rho GTPase activating protein (GAP) 10-like. GAP10-like may be a GAP with activity towards RhoA and Cdc42. Similar to GRAF and GRAF2, it contains an N-terminal BAR domain, followed by a Pleckstrin homology (PH) domain, a Rho GAP domain, and a C-terminal SH3 domain. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions. The BAR domains of the related proteins GRAF and OPHN1, directly interact with their Rho GAP domains and inhibit theiractivity. The autoinhibited proteins are capable of binding membranes and tubulating liposomes, showing that the membrane-tubulation and GAP-inhibitory functions of the BAR domain
Probab=83.97 E-value=3.1 Score=31.09 Aligned_cols=39 Identities=15% Similarity=0.175 Sum_probs=34.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhC
Q psy16402 37 KMEELENTEQMYKGLVEHCKKVLKGFLGILRVYKGCLAG 75 (77)
Q Consensus 37 kleeLe~t~~~YkgLv~h~k~~Lk~~~~l~~~~k~f~~~ 75 (77)
--.|||+|.+.-+.+|.+|+.++.+.-..+...+.|..|
T Consensus 7 ~e~~l~~t~~~ik~liK~c~~li~A~k~~~~a~~~Fa~s 45 (207)
T cd07634 7 HEIELERTNKFIKELIKDGSLLIGALRNLSMAVQKFSQS 45 (207)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 346999999999999999999999999999998888643
No 8
>cd07635 BAR_GRAF2 The Bin/Amphiphysin/Rvs (BAR) domain of GTPase Regulator Associated with Focal adhesion 2. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. GTPase Regulator Associated with Focal adhesion kinase 2 (GRAF2), also called Rho GTPase activating protein 10 (ARHGAP10) or PS-GAP, is a GAP with activity towards Cdc42 and RhoA which regulates caspase-activated p21-activated protein kinase-2 (PAK-2p34). GRAF2 interacts with PAK-2p34, leading to its stabilization and decrease of cell death. It is highly expressed in skeletal muscle and also interacts with PKNbeta, which is a target of Rho. GRAF2 contains an N-terminal BAR domain, followed by a Pleckstrin homology (PH) domain, a Rho GAP domain, and a C-terminal SH3 domain. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions. The BAR domain of the related prote
Probab=83.34 E-value=3.4 Score=30.79 Aligned_cols=38 Identities=18% Similarity=0.226 Sum_probs=33.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhC
Q psy16402 38 MEELENTEQMYKGLVEHCKKVLKGFLGILRVYKGCLAG 75 (77)
Q Consensus 38 leeLe~t~~~YkgLv~h~k~~Lk~~~~l~~~~k~f~~~ 75 (77)
-.+||+|.+.-+.||.+|+.++.+.-..+...+.|..|
T Consensus 8 e~~le~~~k~i~kLiK~c~~~i~a~k~~~~a~~~Fa~~ 45 (207)
T cd07635 8 EAELERTNRFIKELLKDGKNLIAATKSLSAAQRKFAHS 45 (207)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35899999999999999999999999999888888643
No 9
>PF04048 Sec8_exocyst: Sec8 exocyst complex component specific domain; InterPro: IPR007191 Sec8 is a component of the exocyst complex involved in the docking of exocystic vesicles with a fusion site on the plasma membrane. The exocyst complex is composed of Sec3, Sec5, Sec6, Sec8, Sec10, Sec15, Exo70 and Exo84.; GO: 0006904 vesicle docking involved in exocytosis, 0015031 protein transport, 0000145 exocyst
Probab=83.10 E-value=11 Score=25.45 Aligned_cols=70 Identities=23% Similarity=0.317 Sum_probs=43.2
Q ss_pred hhHHHHhhhHHHHhhhhhcch---hHHhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy16402 4 TTADALDSLLDDYLQGLNQSL---SRAILCNDTLVKKMEELENTEQMYKGLVEHCKKVLKGFLGILRVYKGCL 73 (77)
Q Consensus 4 ~TADAL~~~~~~~~~~~~~GL---SRAILCND~LvkkleeLe~t~~~YkgLv~h~k~~Lk~~~~l~~~~k~f~ 73 (77)
.+..+|+.++++|-|++|..+ |...-.-..--+++.++.+.-..-|.++.--+.-|+....-...|+..+
T Consensus 51 ~~~~~L~~vV~eh~q~Fn~sI~sy~~i~~~i~~sq~~i~~lK~~L~~ak~~L~~~~~eL~~L~~~s~~~~~mi 123 (142)
T PF04048_consen 51 RIEKALQEVVNEHYQGFNSSIGSYSQILSSISESQERIRELKESLQEAKSLLGCRREELKELWQRSQEYKEMI 123 (142)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHH
Confidence 457789999999999998754 2333333444555555655555555555444555666666666666543
No 10
>cd07633 BAR_OPHN1 The Bin/Amphiphysin/Rvs (BAR) domain of Oligophrenin-1. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Oligophrenin-1 (OPHN1) is a GTPase activating protein (GAP) with activity towards RhoA, Rac, and Cdc42, that is expressed in developing spinal cord and in adult brain areas with high plasticity. It plays a role in regulating the actin cystoskeleton as well as morphology changes in axons and dendrites, and may also function in modulating neuronal connectivity. Mutations in the OPHN1 gene causes X-linked mental retardation associated with cerebellar hypoplasia, lateral ventricle enlargement and epilepsy. OPHN1 contains an N-terminal BAR domain, followed by a Pleckstrin homology (PH) domain, and a Rho GAP domain. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=76.92 E-value=7.7 Score=29.38 Aligned_cols=38 Identities=13% Similarity=0.184 Sum_probs=34.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhC
Q psy16402 38 MEELENTEQMYKGLVEHCKKVLKGFLGILRVYKGCLAG 75 (77)
Q Consensus 38 leeLe~t~~~YkgLv~h~k~~Lk~~~~l~~~~k~f~~~ 75 (77)
-.+|+++++.-+.||..|+.++.+.-.++.+.+.|.-|
T Consensus 8 E~ele~~~~~IkkliK~~~~li~a~K~~s~A~r~Fa~~ 45 (207)
T cd07633 8 EQELERTNKFIKDVIKDGNALISAIKEYSSAVQKFSQT 45 (207)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46899999999999999999999999999999988654
No 11
>PF08360 TetR_C_5: QacR-like protein, C-terminal region; InterPro: IPR013571 This entry represents the C-terminal domain found in the multidrug-binding transcription regulator QacR (P23217 from SWISSPROT) from Staphylococcus aureus, which is a member of the TetR (tetracycline-resistance) transcriptional regulator family of proteins. QacR is able to bind various environmental agents, which include a number of cationic lipophilic compounds, and thus regulate the transcription of QacA (P23215 from SWISSPROT), a multidrug efflux pump []. The C-terminal region of QacR contains a multifaceted, expansive drug-binding pocket, which is composed of several separate, but linked, binding sites []. The C-terminal domains of QacR and TetR share a multi-helical, interlocking structure.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0045892 negative regulation of transcription, DNA-dependent; PDB: 2G0E_E 1JUM_A 1RPW_D 1QVT_B 2HQ5_D 1JT0_B 2DTZ_E 1JUP_D 1JT6_D 1JUS_E ....
Probab=76.11 E-value=16 Score=24.67 Aligned_cols=52 Identities=21% Similarity=0.385 Sum_probs=41.3
Q ss_pred chhHHHHhhhHHHHhhhhhcchhHHh-------hcchHHHHHHHHHHH-HHHHHHHHHHH
Q psy16402 3 TTTADALDSLLDDYLQGLNQSLSRAI-------LCNDTLVKKMEELEN-TEQMYKGLVEH 54 (77)
Q Consensus 3 s~TADAL~~~~~~~~~~~~~GLSRAI-------LCND~LvkkleeLe~-t~~~YkgLv~h 54 (77)
++++|-|-.+.+-++..++..++||+ --|+..++|+.++-+ -..+|+.+++.
T Consensus 17 ~t~~eKLy~~a~~~~~~i~~pl~~a~~EF~~~~~~~~ev~~~l~~i~~~~~~~~~~ilee 76 (131)
T PF08360_consen 17 TTATEKLYGMAEHMLDDIQTPLSKAGEEFYSNQSKNPEVLEKLNEIRRKYLEFFQKILEE 76 (131)
T ss_dssp SSHHHHHHHHHHHHHHSSSGGGHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHHhccHHHHHHHHHHHcccCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46788888888999999999999998 467889999987654 45667766654
No 12
>cd07636 BAR_GRAF The Bin/Amphiphysin/Rvs (BAR) domain of GTPase Regulator Associated with Focal adhesion kinase. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. GTPase Regulator Associated with Focal adhesion kinase (GRAF), also called Rho GTPase activating protein 26 (ARHGAP26), is a GAP with activity towards RhoA and Cdc42 and is only weakly active towards Rac1. It influences Rho-mediated cytoskeletal rearrangements and binds focal adhesion kinase (FAK), which is a critical component of integrin signaling. GRAF contains an N-terminal BAR domain, followed by a Pleckstrin homology (PH) domain, a Rho GAP domain, and a C-terminal SH3 domain. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions. The BAR domain of GRAF directly interacts with its Rho GAP domain and inhibits its activity. Autoinhibited GRAF is capable o
Probab=76.05 E-value=8.9 Score=28.60 Aligned_cols=37 Identities=16% Similarity=0.294 Sum_probs=32.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhC
Q psy16402 39 EELENTEQMYKGLVEHCKKVLKGFLGILRVYKGCLAG 75 (77)
Q Consensus 39 eeLe~t~~~YkgLv~h~k~~Lk~~~~l~~~~k~f~~~ 75 (77)
.+||++.+.-++++.+|+.++.+.-..+.+.+.|..|
T Consensus 9 ~~le~~~k~ik~liK~~k~~i~A~k~~~~a~~~Fa~s 45 (207)
T cd07636 9 AELDKTNKFIKELIKDGKSLIAALKNLSSAKRKFADS 45 (207)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5789999999999999999999988888888888643
No 13
>PF10157 DUF2365: Uncharacterized conserved protein (DUF2365); InterPro: IPR019314 This entry is found in a highly conserved family of proteins which have no known function.
Probab=75.25 E-value=12 Score=26.67 Aligned_cols=55 Identities=27% Similarity=0.308 Sum_probs=31.4
Q ss_pred CcchhHHHHhhhHHHHhhhhhcchhHHhhcchHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16402 1 MSTTTADALDSLLDDYLQGLNQSLSRAILCNDTLVKKMEELENTEQMYKGLVEHCK 56 (77)
Q Consensus 1 Mss~TADAL~~~~~~~~~~~~~GLSRAILCND~LvkkleeLe~t~~~YkgLv~h~k 56 (77)
||+.|.|.+ ....|-...+-..+=.+|=++-+|+.|.|||.+-.+--..|-...|
T Consensus 82 mS~~Tv~~~-~~y~~sv~~~cdsvD~sik~~y~liakceELn~~M~~v~~La~qIK 136 (149)
T PF10157_consen 82 MSAITVEHM-ETYKDSVDKLCDSVDASIKSMYTLIAKCEELNESMKPVYKLAQQIK 136 (149)
T ss_pred HHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344454444 2223333333334445666778899999999887766555544443
No 14
>KOG1155|consensus
Probab=73.78 E-value=8.8 Score=33.14 Aligned_cols=32 Identities=38% Similarity=0.576 Sum_probs=28.1
Q ss_pred chhHHhhcchH----------HHHHHHHHHHHHHHHHHHHHH
Q psy16402 23 SLSRAILCNDT----------LVKKMEELENTEQMYKGLVEH 54 (77)
Q Consensus 23 GLSRAILCND~----------LvkkleeLe~t~~~YkgLv~h 54 (77)
..-|||+|||+ |-++|+++++..++|..-|+-
T Consensus 454 Cykrai~~~dte~~~l~~LakLye~l~d~~eAa~~yek~v~~ 495 (559)
T KOG1155|consen 454 CYKRAILLGDTEGSALVRLAKLYEELKDLNEAAQYYEKYVEV 495 (559)
T ss_pred HHHHHHhccccchHHHHHHHHHHHHHHhHHHHHHHHHHHHHH
Confidence 56799999998 678999999999999988873
No 15
>cd07602 BAR_RhoGAP_OPHN1-like The Bin/Amphiphysin/Rvs (BAR) domain of Oligophrenin1-like Rho GTPase Activating Proteins. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. This subfamily is composed of Rho and Rac GTPase activating proteins (GAPs) with similarity to oligophrenin1 (OPHN1). Members contain an N-terminal BAR domain, followed by a Pleckstrin homology (PH) domain, and a Rho GAP domain. Some members contain a C-terminal SH3 domain. Vertebrates harbor at least three Rho GAPs in this subfamily including OPHN1, GTPase Regulator Associated with Focal adhesion kinase (GRAF), GRAF2, and an uncharacterized protein called GAP10-like. OPHN1, GRAF and GRAF2 show GAP activity towards RhoA and Cdc42. In addition, OPHN1 is active towards Rac. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions. The BAR domains of OPHN1
Probab=70.99 E-value=14 Score=27.47 Aligned_cols=38 Identities=21% Similarity=0.374 Sum_probs=33.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhC
Q psy16402 38 MEELENTEQMYKGLVEHCKKVLKGFLGILRVYKGCLAG 75 (77)
Q Consensus 38 leeLe~t~~~YkgLv~h~k~~Lk~~~~l~~~~k~f~~~ 75 (77)
-.+++++++--+.||..|+.++.+--..+.+.+.|..|
T Consensus 8 E~ele~l~~~ikkLiK~ck~~i~a~k~~~~a~~~F~~~ 45 (207)
T cd07602 8 EAELERTNKAIKELIKECKNLISATKNLSKAQRSFAQT 45 (207)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35788999999999999999999999999988888643
No 16
>PF13524 Glyco_trans_1_2: Glycosyl transferases group 1
Probab=70.40 E-value=17 Score=21.25 Aligned_cols=47 Identities=15% Similarity=0.119 Sum_probs=39.0
Q ss_pred Hhhcc--hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy16402 27 AILCN--DTLVKKMEELENTEQMYKGLVEHCKKVLKGFLGILRVYKGCL 73 (77)
Q Consensus 27 AILCN--D~LvkkleeLe~t~~~YkgLv~h~k~~Lk~~~~l~~~~k~f~ 73 (77)
.|.++ |.++.+++.+.+....++.+.+.+.+..+..+...+.-+.|+
T Consensus 43 ~~~~~~~~el~~~i~~ll~~~~~~~~ia~~a~~~v~~~~t~~~~~~~il 91 (92)
T PF13524_consen 43 IITYNDPEELAEKIEYLLENPEERRRIAKNARERVLKRHTWEHRAEQIL 91 (92)
T ss_pred EEEECCHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHH
Confidence 34454 589999999999999999999999998888887777777665
No 17
>KOG1626|consensus
Probab=67.41 E-value=2.4 Score=33.75 Aligned_cols=36 Identities=28% Similarity=0.632 Sum_probs=32.1
Q ss_pred HhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16402 27 AILCNDTLVKKMEELENTEQMYKGLVEHCKKVLKGF 62 (77)
Q Consensus 27 AILCND~LvkkleeLe~t~~~YkgLv~h~k~~Lk~~ 62 (77)
||-.||++.+++..+|..++.|-|+.+.+++-++-|
T Consensus 158 AIdvnDP~A~~~ndi~DV~~~~Pg~L~~tr~wFr~Y 193 (279)
T KOG1626|consen 158 AIDVNDPLASEYNDIEDVEKLFPGLLEATRRWFRDY 193 (279)
T ss_pred EEECCCcchhhhccHHHHHHhCcchHHHHHHHHHHc
Confidence 788999999999999999999999999888766543
No 18
>cd04733 OYE_like_2_FMN Old yellow enzyme (OYE)-related FMN binding domain, group 2. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as electron acceptors in the catalytic reaction. Other members of OYE family include trimethylamine dehydrogenase, 2,4-dienoyl-CoA reductase, enoate reductase, pentaerythriol tetranitrate reductase, xenobiotic reductase, and morphinone reductase.
Probab=66.18 E-value=1.4 Score=32.86 Aligned_cols=18 Identities=22% Similarity=0.316 Sum_probs=16.4
Q ss_pred chhHHhhcchHHHHHHHH
Q psy16402 23 SLSRAILCNDTLVKKMEE 40 (77)
Q Consensus 23 GLSRAILCND~Lvkklee 40 (77)
++.|+.++|..+++|+.+
T Consensus 320 ~lgR~~iadP~~~~k~~~ 337 (338)
T cd04733 320 GLARPLALEPDLPNKLLA 337 (338)
T ss_pred eeChHhhhCccHHHHHhc
Confidence 899999999999999864
No 19
>PRK10605 N-ethylmaleimide reductase; Provisional
Probab=64.74 E-value=1.7 Score=33.38 Aligned_cols=18 Identities=22% Similarity=0.523 Sum_probs=17.0
Q ss_pred chhHHhhcchHHHHHHHH
Q psy16402 23 SLSRAILCNDTLVKKMEE 40 (77)
Q Consensus 23 GLSRAILCND~Lvkklee 40 (77)
|+.|+.++|..+++|+.+
T Consensus 319 ~~gR~~iadPd~~~k~~~ 336 (362)
T PRK10605 319 AFGRDYIANPDLVARLQR 336 (362)
T ss_pred EECHHhhhCccHHHHHhc
Confidence 899999999999999976
No 20
>PF10393 Matrilin_ccoil: Trimeric coiled-coil oligomerisation domain of matrilin; InterPro: IPR019466 This entry represents a short domain found the matrilin (cartilage matrix) proteins. It forms a coiled coil structure and contains a single cysteine residue at its start which is likely to form a di-sulphide bridge with a corresponding cysteine in an upstream EGF domain (IPR006209 from INTERPRO), thereby spanning the VWA domain of the protein (IPR002035 from INTERPRO).This domain is likely to be responsible for protein trimerisation []. ; PDB: 1AQ5_C.
Probab=64.72 E-value=7.7 Score=23.28 Aligned_cols=24 Identities=46% Similarity=0.643 Sum_probs=17.9
Q ss_pred HHHhhhhhcchhHHhhcchHHHHHHHHHHHH
Q psy16402 14 DDYLQGLNQSLSRAILCNDTLVKKMEELENT 44 (77)
Q Consensus 14 ~~~~~~~~~GLSRAILCND~LvkkleeLe~t 44 (77)
..+||.|++-| |.+-+||+.||+.
T Consensus 22 ~~~lq~Lt~kL-------~~vs~RLe~LEn~ 45 (47)
T PF10393_consen 22 TSALQSLTQKL-------DAVSKRLEALENR 45 (47)
T ss_dssp HHHHHHHHHHH-------HHHHHHHHHHHHH
T ss_pred HHHHHHHHHHH-------HHHHHHHHHHHhc
Confidence 45667666643 7889999999984
No 21
>PF00724 Oxidored_FMN: NADH:flavin oxidoreductase / NADH oxidase family; InterPro: IPR001155 The TIM-barrel fold is a closed barrel structure composed of an eight-fold repeat of beta-alpha units, where the eight parallel beta strands on the inside are covered by the eight alpha helices on the outside []. It is a widely distributed fold which has been found in many enzyme families that catalyse completely unrelated reactions []. The active site is always found at the C-terminal end of this domain. Proteins in this entry are a variety of NADH:flavin oxidoreductase/NADH oxidase enzymes, found mostly in bacteria or fungi, that contain a TIM-barrel fold. They commonly use FMN/FAD as cofactor and include: dimethylamine dehydrogenase trimethylamine dehydrogenase 12-oxophytodienoate reductase NADPH dehydrogenase NADH oxidase ; GO: 0010181 FMN binding, 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 3GKA_B 3P67_A 3F03_K 2ABA_A 1VYR_A 1GVO_A 3KFT_B 3P8I_A 1GVQ_A 3P74_A ....
Probab=60.80 E-value=2.7 Score=31.63 Aligned_cols=18 Identities=28% Similarity=0.512 Sum_probs=15.8
Q ss_pred chhHHhhcchHHHHHHHH
Q psy16402 23 SLSRAILCNDTLVKKMEE 40 (77)
Q Consensus 23 GLSRAILCND~Lvkklee 40 (77)
++.|+.|+|..+++|+.+
T Consensus 319 ~~gR~~ladPd~~~k~~~ 336 (341)
T PF00724_consen 319 AMGRPLLADPDLPNKARE 336 (341)
T ss_dssp EESHHHHH-TTHHHHHHH
T ss_pred eccHHHHhCchHHHHHHc
Confidence 899999999999999875
No 22
>PLN02411 12-oxophytodienoate reductase
Probab=58.28 E-value=2.1 Score=33.30 Aligned_cols=18 Identities=28% Similarity=0.392 Sum_probs=17.0
Q ss_pred chhHHhhcchHHHHHHHH
Q psy16402 23 SLSRAILCNDTLVKKMEE 40 (77)
Q Consensus 23 GLSRAILCND~Lvkklee 40 (77)
++.|+.++|..+++|+.+
T Consensus 340 ~~gR~~iadPdl~~k~~~ 357 (391)
T PLN02411 340 SYGRLFISNPDLVLRFKL 357 (391)
T ss_pred EECHHHHhCccHHHHHhc
Confidence 899999999999999876
No 23
>cd02933 OYE_like_FMN Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as electron acceptors in the catalytic reaction. Members of OYE family include 12-oxophytodienoate reductase, pentaerythritol tetranitrate reductase, morphinone reductase, and related enzymes.
Probab=57.30 E-value=2.3 Score=32.37 Aligned_cols=18 Identities=22% Similarity=0.595 Sum_probs=16.7
Q ss_pred chhHHhhcchHHHHHHHH
Q psy16402 23 SLSRAILCNDTLVKKMEE 40 (77)
Q Consensus 23 GLSRAILCND~Lvkklee 40 (77)
+++|+.++|..+++|+.+
T Consensus 312 ~~gR~~ladP~~~~k~~~ 329 (338)
T cd02933 312 AFGRPFIANPDLVERLKN 329 (338)
T ss_pred EeCHhhhhCcCHHHHHhc
Confidence 899999999999999865
No 24
>PF01170 UPF0020: Putative RNA methylase family UPF0020; InterPro: IPR000241 This domain is probably a methylase. It is associated with the THUMP domain that also occurs with RNA modification domains [].; PDB: 3LDU_A 3LDG_A 3K0B_A 3V8V_B 3V97_A 3TLJ_A 3TM5_B 3TM4_A 3TMA_A.
Probab=54.06 E-value=3 Score=28.70 Aligned_cols=36 Identities=25% Similarity=0.467 Sum_probs=30.4
Q ss_pred HHhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16402 26 RAILCNDTLVKKMEELENTEQMYKGLVEHCKKVLKG 61 (77)
Q Consensus 26 RAILCND~LvkkleeLe~t~~~YkgLv~h~k~~Lk~ 61 (77)
-+|+||.+-=+|+..-+..+.+|+.+.+.++++++.
T Consensus 108 d~IvtnPPyG~r~~~~~~~~~ly~~~~~~~~~~l~~ 143 (179)
T PF01170_consen 108 DAIVTNPPYGRRLGSKKDLEKLYRQFLRELKRVLKP 143 (179)
T ss_dssp CEEEEE--STTSHCHHHHHHHHHHHHHHHHHCHSTT
T ss_pred CEEEECcchhhhccCHHHHHHHHHHHHHHHHHHCCC
Confidence 489999999999998888899999999999998765
No 25
>PRK10415 tRNA-dihydrouridine synthase B; Provisional
Probab=51.82 E-value=44 Score=25.21 Aligned_cols=39 Identities=10% Similarity=0.162 Sum_probs=27.3
Q ss_pred chhHHhhcchHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHH
Q psy16402 23 SLSRAILCNDTLVKKMEELEN---------TEQMYKGLVEHCKKVLKG 61 (77)
Q Consensus 23 GLSRAILCND~LvkkleeLe~---------t~~~YkgLv~h~k~~Lk~ 61 (77)
.+.||++.|+-+.+++.+.-. .++..+-+.+|++.+...
T Consensus 222 miGR~~l~nP~if~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 269 (321)
T PRK10415 222 MIGRAAQGRPWIFREIQHYLDTGELLPPLPLAEVKRLLCAHVRELHDF 269 (321)
T ss_pred EEChHhhcCChHHHHHHHHHhCCCCCCCCCHHHHHHHHHHHHHHHHHH
Confidence 689999999999999876422 245556666666655543
No 26
>KOG0750|consensus
Probab=51.50 E-value=12 Score=30.18 Aligned_cols=49 Identities=29% Similarity=0.554 Sum_probs=42.5
Q ss_pred hHHHHhhhhhcchhHHhhcc--hHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16402 12 LLDDYLQGLNQSLSRAILCN--DTLVKKMEELENTEQMYKGLVEHCKKVLK 60 (77)
Q Consensus 12 ~~~~~~~~~~~GLSRAILCN--D~LvkkleeLe~t~~~YkgLv~h~k~~Lk 60 (77)
....|+.|+..|-+-||.+| |-.--|++-+..+|..|+|..+-.+++||
T Consensus 211 F~~sF~agl~~gs~sa~~vtPlDVvKTRiQ~~~~ned~~~gi~d~~~~~lk 261 (304)
T KOG0750|consen 211 FYQSFLAGLVAGSASAIVVTPLDVVKTRIQTLGDNEDNYKGIFDCVKNTLK 261 (304)
T ss_pred hHHHHHHHHHhhhhhhhhcccHHHHHHHHhhcccCccccccHHHHHHHHHH
Confidence 34567889999999999999 66666899999999999999999999987
No 27
>cd04747 OYE_like_5_FMN Old yellow enzyme (OYE)-related FMN binding domain, group 5. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as electron acceptors in the catalytic reaction. Other members of OYE family include trimethylamine dehydrogenase, 2,4-dienoyl-CoA reductase, enoate reductase, pentaerythriol tetranitrate reductase, xenobiotic reductase, and morphinone reductase.
Probab=51.16 E-value=5.1 Score=31.21 Aligned_cols=18 Identities=33% Similarity=0.565 Sum_probs=16.4
Q ss_pred chhHHhhcchHHHHHHHH
Q psy16402 23 SLSRAILCNDTLVKKMEE 40 (77)
Q Consensus 23 GLSRAILCND~Lvkklee 40 (77)
++.|+.++|..+++|+.+
T Consensus 326 ~~gR~~iadP~~~~k~~~ 343 (361)
T cd04747 326 AVGRALLSDPAWVAKVRE 343 (361)
T ss_pred hhhHHHHhCcHHHHHHHc
Confidence 799999999999999854
No 28
>PRK15361 pathogenicity island 2 effector protein SseD; Provisional
Probab=51.03 E-value=79 Score=24.16 Aligned_cols=50 Identities=18% Similarity=0.254 Sum_probs=42.8
Q ss_pred hhHHHHhhhhhcchhHHhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16402 11 SLLDDYLQGLNQSLSRAILCNDTLVKKMEELENTEQMYKGLVEHCKKVLKGF 62 (77)
Q Consensus 11 ~~~~~~~~~~~~GLSRAILCND~LvkkleeLe~t~~~YkgLv~h~k~~Lk~~ 62 (77)
..+-||-+.-.|..+..| ||.+=|-.|..++...|-+.||++..++|++.
T Consensus 144 k~~sdlQ~~~AqsY~K~i--~e~~dKA~ei~qqm~~~~~~lv~~~~qIl~~l 193 (195)
T PRK15361 144 KAIADLQQNGAQSYNKSL--TEIMEKATEIMQQIIGVGSSLVTVLAEILRAL 193 (195)
T ss_pred HHHHHHHhccHHHHHhhH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 667888888888877776 78888888889999999999999999998874
No 29
>cd02803 OYE_like_FMN_family Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as electron acceptors in the catalytic reaction. Members of OYE family include trimethylamine dehydrogenase, 2,4-dienoyl-CoA reductase, enoate reductase, pentaerythriol tetranitrate reductase, xenobiotic reductase, and morphinone reductase.
Probab=49.74 E-value=4.2 Score=29.41 Aligned_cols=18 Identities=39% Similarity=0.573 Sum_probs=16.1
Q ss_pred chhHHhhcchHHHHHHHH
Q psy16402 23 SLSRAILCNDTLVKKMEE 40 (77)
Q Consensus 23 GLSRAILCND~Lvkklee 40 (77)
++.|+.+.|+.+++|+.+
T Consensus 309 ~igR~~ladP~l~~k~~~ 326 (327)
T cd02803 309 ALGRALLADPDLPNKARE 326 (327)
T ss_pred eecHHHHhCccHHHHHhc
Confidence 889999999999999763
No 30
>cd03821 GT1_Bme6_like This family is most closely related to the GT1 family of glycosyltransferases. Bme6 in Brucella melitensis has been shown to be involved in the biosynthesis of a polysaccharide.
Probab=45.90 E-value=80 Score=20.64 Aligned_cols=42 Identities=14% Similarity=0.161 Sum_probs=34.4
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy16402 32 DTLVKKMEELENTEQMYKGLVEHCKKVLKGFLGILRVYKGCL 73 (77)
Q Consensus 32 D~LvkkleeLe~t~~~YkgLv~h~k~~Lk~~~~l~~~~k~f~ 73 (77)
+.++++++++-+..+.++.+.+.+++.....|.....-+.++
T Consensus 333 ~~~~~~i~~l~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~ 374 (375)
T cd03821 333 DALAAALRRALELPQRLKAMGENGRALVEERFSWTAIAQQLL 374 (375)
T ss_pred HHHHHHHHHHHhCHHHHHHHHHHHHHHHHHhcCHHHHHHHhh
Confidence 679999999988888999999999988777777776666553
No 31
>cd02929 TMADH_HD_FMN Trimethylamine dehydrogenase (TMADH) and histamine dehydrogenase (HD) FMN-binding domain. TMADH is an iron-sulfur flavoprotein that catalyzes the oxidative demethylation of trimethylamine to form dimethylamine and formaldehyde. The protein forms a symetrical dimer with each subunit containing one 4Fe-4S cluster and one FMN cofactor. It contains a unique flavin, in the form of a 6-S-cysteinyl FMN which is bent by ~25 degrees along the N5-N10 axis of the flavin isoalloxazine ring. This modification of the conformation of the flavin is thought to facilitate catalysis.The closely related histamine dehydrogenase catalyzes oxidative deamination of histamine.
Probab=45.57 E-value=6.1 Score=30.35 Aligned_cols=18 Identities=28% Similarity=0.394 Sum_probs=16.8
Q ss_pred chhHHhhcchHHHHHHHH
Q psy16402 23 SLSRAILCNDTLVKKMEE 40 (77)
Q Consensus 23 GLSRAILCND~Lvkklee 40 (77)
++.|+.|.|+.+++|+.+
T Consensus 317 ~~gR~~ladP~l~~k~~~ 334 (370)
T cd02929 317 GAARPSIADPFLPKKIRE 334 (370)
T ss_pred eechHhhhCchHHHHHHc
Confidence 899999999999999975
No 32
>cd07639 BAR_ACAP1 The Bin/Amphiphysin/Rvs (BAR) domain of ArfGAP with Coiled-coil, ANK repeat and PH domain containing protein 1. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. ACAP1 (ArfGAP with Coiled-coil, ANK repeat and PH domain containing protein 1), also called centaurin beta-1, is an Arf6-specific GTPase activating protein (GAP) which mediates Arf6 signaling. Arf6 is involved in the regulation of endocytosis, phagocytosis, cell adhesion and migration. ACAP1 also participates in the cargo sorting and recycling of the transferrin receptor and integrin beta1. It may also play a role in innate immune responses. ACAP1 contains an N-terminal BAR domain, followed by a Pleckstrin homology (PH) domain, an Arf GAP domain, and C-terminal ankyrin (ANK) repeats. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=45.33 E-value=73 Score=23.53 Aligned_cols=36 Identities=17% Similarity=0.139 Sum_probs=28.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy16402 39 EELENTEQMYKGLVEHCKKVLKGFLGILRVYKGCLA 74 (77)
Q Consensus 39 eeLe~t~~~YkgLv~h~k~~Lk~~~~l~~~~k~f~~ 74 (77)
.++++.+.--+.|+.+|+.++.+.-..+...+.|..
T Consensus 9 ~~~~~le~~l~kl~K~~k~~~~agk~~~~a~~~F~~ 44 (200)
T cd07639 9 AEVSELETRLEKLVKLGSGMLEGGRHYCAASRAFVD 44 (200)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 356667777888899999999888888888888754
No 33
>cd03808 GT1_cap1E_like This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides.
Probab=44.67 E-value=83 Score=20.34 Aligned_cols=42 Identities=17% Similarity=0.146 Sum_probs=33.3
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy16402 32 DTLVKKMEELENTEQMYKGLVEHCKKVLKGFLGILRVYKGCL 73 (77)
Q Consensus 32 D~LvkkleeLe~t~~~YkgLv~h~k~~Lk~~~~l~~~~k~f~ 73 (77)
+.+++.++++-+..+.++.+.+.+.+.....|......+.+.
T Consensus 317 ~~~~~~i~~l~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~ 358 (359)
T cd03808 317 EALADAIERLIEDPELRARMGQAARKRAEEEFDEEIVVKKLL 358 (359)
T ss_pred HHHHHHHHHHHhCHHHHHHHHHHHHHHHHHhcCHHHHHHHhh
Confidence 568999999888888899888888888777777776666553
No 34
>PF13075 DUF3939: Protein of unknown function (DUF3939)
Probab=43.02 E-value=11 Score=27.32 Aligned_cols=31 Identities=26% Similarity=0.455 Sum_probs=26.4
Q ss_pred hhHHHHhhhHHHHhhhhhcchhHHhhcchHH
Q psy16402 4 TTADALDSLLDDYLQGLNQSLSRAILCNDTL 34 (77)
Q Consensus 4 ~TADAL~~~~~~~~~~~~~GLSRAILCND~L 34 (77)
-|-|-+.....+|.+.+++|..|-||.||..
T Consensus 10 vTldevr~Av~~f~~~lp~gi~rt~lv~~d~ 40 (140)
T PF13075_consen 10 VTLDEVRRAVHQFEEDLPKGINRTILVNDDQ 40 (140)
T ss_pred ccHHHHHHHHHHHHHhCccCCceEEEEcCCc
Confidence 4667777788899999999999999999754
No 35
>PF06112 Herpes_capsid: Gammaherpesvirus capsid protein; InterPro: IPR009299 This family consists of several Gammaherpesvirus capsid proteins. The exact function of this family is unknown.; GO: 0019028 viral capsid
Probab=42.51 E-value=29 Score=25.33 Aligned_cols=47 Identities=21% Similarity=0.187 Sum_probs=33.1
Q ss_pred HHhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy16402 26 RAILCNDTLVKKMEELENTEQMYKGLVEHCKKVLKGFLGILRVYKGCL 73 (77)
Q Consensus 26 RAILCND~LvkkleeLe~t~~~YkgLv~h~k~~Lk~~~~l~~~~k~f~ 73 (77)
-++--|+.||++|++|++.-..+..-++ +++--=.|+--..+|..|+
T Consensus 16 E~d~p~~plv~~~~~L~q~Nms~~~y~~-a~r~YLVFL~Aq~~Yd~yv 62 (147)
T PF06112_consen 16 EADYPNHPLVAKLQALPQNNMSDAEYRE-AQRNYLVFLIAQHCYDQYV 62 (147)
T ss_pred cccCCCCHHHHHHHhhccCCCCHHHHHH-hhhchhhhhhHHHHHHHHH
Confidence 3556789999999999998777765544 3443345666666777765
No 36
>COG1902 NemA NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]
Probab=41.76 E-value=6.2 Score=31.06 Aligned_cols=19 Identities=32% Similarity=0.410 Sum_probs=17.4
Q ss_pred chhHHhhcchHHHHHHHHH
Q psy16402 23 SLSRAILCNDTLVKKMEEL 41 (77)
Q Consensus 23 GLSRAILCND~LvkkleeL 41 (77)
|++|+.|.|+.+++|+.+=
T Consensus 316 a~gR~~ladP~~~~k~~~g 334 (363)
T COG1902 316 AMGRPFLADPDLVLKAAEG 334 (363)
T ss_pred EechhhhcCccHHHHHHcC
Confidence 8999999999999999763
No 37
>cd02930 DCR_FMN 2,4-dienoyl-CoA reductase (DCR) FMN-binding domain. DCR in E. coli is an iron-sulfur flavoenzyme which contains FMN, FAD, and a 4Fe-4S cluster. It is also a monomer, unlike that of its eukaryotic counterparts which form homotetramers and lack the flavin and iron-sulfur cofactors. Metabolism of unsaturated fatty acids requires auxiliary enzymes in addition to those used in b-oxidation. After a given number of cycles through the b-oxidation pathway, those unsaturated fatty acyl-CoAs with double bonds at even-numbered carbon positions contain 2-trans, 4-cis double bonds that can not be modified by enoyl-CoA hydratase. DCR utilizes NADPH to remove the C4-C5 double bond. DCR can catalyze the reduction of both natural fatty acids with cis double bonds, as well as substrates containing trans double bonds. The reaction is initiated by hybrid transfer from NADPH to FAD, which in turn transfers electrons, one at a time, to FMN via the 4Fe-4S cluster. The fully reduced FMN provi
Probab=41.74 E-value=11 Score=28.52 Aligned_cols=19 Identities=26% Similarity=0.373 Sum_probs=17.1
Q ss_pred chhHHhhcchHHHHHHHHH
Q psy16402 23 SLSRAILCNDTLVKKMEEL 41 (77)
Q Consensus 23 GLSRAILCND~LvkkleeL 41 (77)
++.|+.++|..+++|+.+=
T Consensus 304 ~~gR~~l~dP~~~~k~~~g 322 (353)
T cd02930 304 SMARPFLADPDFVAKAAAG 322 (353)
T ss_pred HhhHHHHHCccHHHHHHhC
Confidence 8999999999999998753
No 38
>PF02841 GBP_C: Guanylate-binding protein, C-terminal domain; InterPro: IPR003191 Guanylate-binding protein is a GTPase that is induced by interferon (IFN)-gamma. GTPases induced by IFN-gamma are key to the protective immunity against microbial and viral pathogens. These GTPases are classified into three groups: the small 47-kd GTPases, the Mx proteins, and the large 65- to 67-kd GTPases. Guanylate-binding proteins (GBP) fall into the last class. In humans, there are seven GBPs (hGBP1-7) []. Structurally, hGBP1 consists of two domains: a compact globular N-terminal domain harbouring the GTPase function (IPR015894 from INTERPRO), and an alpha-helical finger-like C-terminal domain. Human GBP1 is secreted from cells without the need of a leader peptide, and has been shown to exhibit antiviral activity against Vesicular stomatitis virus and Encephalomyocarditis virus, as well as being able to regulate the inhibition of proliferation and invasion of endothelial cells in response to IFN-gamma [].; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 1DG3_A 2D4H_A 2B8W_B 2B92_A 2BC9_A 1F5N_A.
Probab=41.36 E-value=1.5e+02 Score=22.03 Aligned_cols=40 Identities=23% Similarity=0.461 Sum_probs=31.3
Q ss_pred hHHHHhhhHHHHhhhhhcchhHHhhcchHHHHHHHHHHHHHHH
Q psy16402 5 TADALDSLLDDYLQGLNQSLSRAILCNDTLVKKMEELENTEQM 47 (77)
Q Consensus 5 TADAL~~~~~~~~~~~~~GLSRAILCND~LvkkleeLe~t~~~ 47 (77)
|.-.|-+|+.-|+..+|.| +|-|=.+.+.-+.+.|+..-+
T Consensus 6 tG~~L~~L~~~Yv~aIn~G---~vP~iesa~~~~~e~e~~~A~ 45 (297)
T PF02841_consen 6 TGPMLAELVKSYVDAINSG---SVPCIESAWQAVAEAENRAAV 45 (297)
T ss_dssp BHHHHHHHHHHHHHHHHTT---S--BHHHHHHHHHHHHHHHHH
T ss_pred ccHHHHHHHHHHHHHHhCC---CCCCchHHHHHHHHHHHHHHH
Confidence 5667889999999999998 688888889888888776543
No 39
>cd02931 ER_like_FMN Enoate reductase (ER)-like FMN-binding domain. Enoate reductase catalyzes the NADH-dependent reduction of carbon-carbon double bonds of several molecules, including nonactivated 2-enoates, alpha,beta-unsaturated aldehydes, cyclic ketones, and methylketones. ERs are similar to 2,4-dienoyl-CoA reductase from E. coli and to the old yellow enzyme from Saccharomyces cerevisiae.
Probab=41.27 E-value=8.1 Score=29.84 Aligned_cols=18 Identities=33% Similarity=0.610 Sum_probs=16.9
Q ss_pred chhHHhhcchHHHHHHHH
Q psy16402 23 SLSRAILCNDTLVKKMEE 40 (77)
Q Consensus 23 GLSRAILCND~Lvkklee 40 (77)
|+.|+.+.|..+++|+.+
T Consensus 333 ~~gR~~ladP~l~~k~~~ 350 (382)
T cd02931 333 SLGRPLLADPDVVNKIRR 350 (382)
T ss_pred eechHhHhCccHHHHHHc
Confidence 899999999999999966
No 40
>PRK11815 tRNA-dihydrouridine synthase A; Provisional
Probab=41.24 E-value=83 Score=23.88 Aligned_cols=37 Identities=14% Similarity=0.239 Sum_probs=24.9
Q ss_pred chhHHhhcchHHHHHHHHHH--------HHHHHHHHHHHHHHHHH
Q psy16402 23 SLSRAILCNDTLVKKMEELE--------NTEQMYKGLVEHCKKVL 59 (77)
Q Consensus 23 GLSRAILCND~LvkkleeLe--------~t~~~YkgLv~h~k~~L 59 (77)
.+.||+++|..+++++.+.- .-.+..+-+++|++...
T Consensus 231 mIGRa~l~nP~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 275 (333)
T PRK11815 231 MIGRAAYHNPYLLAEVDRELFGEPAPPLSRSEVLEAMLPYIERHL 275 (333)
T ss_pred EEcHHHHhCCHHHHHHHHHhcCCCCCCCCHHHHHHHHHHHHHHHH
Confidence 67899999999999986532 12244455566665554
No 41
>cd03825 GT1_wcfI_like This family is most closely related to the GT1 family of glycosyltransferases. wcfI in Bacteroides fragilis has been shown to be involved in the capsular polysaccharide biosynthesis.
Probab=40.54 E-value=1.1e+02 Score=20.68 Aligned_cols=33 Identities=15% Similarity=0.153 Sum_probs=25.8
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16402 32 DTLVKKMEELENTEQMYKGLVEHCKKVLKGFLG 64 (77)
Q Consensus 32 D~LvkkleeLe~t~~~YkgLv~h~k~~Lk~~~~ 64 (77)
+.+.+.+.++-+..+.++.+.+.+++..+..+.
T Consensus 318 ~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~s 350 (365)
T cd03825 318 EDLAEGIEWLLADPDEREELGEAARELAENEFD 350 (365)
T ss_pred HHHHHHHHHHHhCHHHHHHHHHHHHHHHHHhcC
Confidence 568888888888888888888888877665554
No 42
>KOG4642|consensus
Probab=39.81 E-value=74 Score=25.57 Aligned_cols=67 Identities=18% Similarity=0.201 Sum_probs=43.5
Q ss_pred CcchhHHHHhhhHHH----------HhhhhhcchhHHhhcchHHHH----------HHHHHHHHHHHHHHHHHHHHHHHH
Q psy16402 1 MSTTTADALDSLLDD----------YLQGLNQSLSRAILCNDTLVK----------KMEELENTEQMYKGLVEHCKKVLK 60 (77)
Q Consensus 1 Mss~TADAL~~~~~~----------~~~~~~~GLSRAILCND~Lvk----------kleeLe~t~~~YkgLv~h~k~~Lk 60 (77)
|-++++|++.+-++. |=..++ .+||||..|++-.. |++..+.+++-.+.-.+-.-.+.|
T Consensus 1 ~~~~~~s~~a~qlkE~gnk~f~~k~y~~ai~-~y~raI~~nP~~~~Y~tnralchlk~~~~~~v~~dcrralql~~N~vk 79 (284)
T KOG4642|consen 1 GGSPEMSESAEQLKEQGNKCFIPKRYDDAID-CYSRAICINPTVASYYTNRALCHLKLKHWEPVEEDCRRALQLDPNLVK 79 (284)
T ss_pred CCCcccchHHHHHHhccccccchhhhchHHH-HHHHHHhcCCCcchhhhhHHHHHHHhhhhhhhhhhHHHHHhcChHHHH
Confidence 345566666555542 334455 89999999976521 377777777777777766666777
Q ss_pred HHHHHHHH
Q psy16402 61 GFLGILRV 68 (77)
Q Consensus 61 ~~~~l~~~ 68 (77)
+.|.+-++
T Consensus 80 ~h~flg~~ 87 (284)
T KOG4642|consen 80 AHYFLGQW 87 (284)
T ss_pred HHHHHHHH
Confidence 77665544
No 43
>cd02932 OYE_YqiM_FMN Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing agent. The YqjM enzyme exists as a homotetramer that is assembled as a dimer of catalytically dependent dimers, while other OYE members exist only as monomers or dimers. Moreover, the protein displays a shared active site architecture where an arginine finger at the COOH terminus of one monomer extends into the active site of the adjacent monomer and is directly involved in substrate recognition. Another remarkable difference in the binding of the ligand in YqjM is represented by the contribution of the NH2-terminal tyrosine instead of a COOH-terminal tyrosine in OYE and its homologs.
Probab=39.61 E-value=9.6 Score=28.37 Aligned_cols=17 Identities=24% Similarity=0.223 Sum_probs=15.5
Q ss_pred chhHHhhcchHHHHHHH
Q psy16402 23 SLSRAILCNDTLVKKME 39 (77)
Q Consensus 23 GLSRAILCND~Lvkkle 39 (77)
++.|+.++|..+++|+.
T Consensus 318 ~~gR~~i~dP~~~~k~~ 334 (336)
T cd02932 318 ALGRELLRNPYWPLHAA 334 (336)
T ss_pred hhhHHHHhCccHHHHHh
Confidence 89999999999999875
No 44
>PF07439 DUF1515: Protein of unknown function (DUF1515); InterPro: IPR010889 This family consists of several hypothetical bacterial proteins of around 130 residues in length. Members of this family seem to be found exclusively in Rhizobium species. The function of this family is unknown.
Probab=39.58 E-value=42 Score=23.69 Aligned_cols=35 Identities=34% Similarity=0.400 Sum_probs=28.8
Q ss_pred hhHHhhcc--hHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16402 24 LSRAILCN--DTLVKKMEELENTEQMYKGLVEHCKKV 58 (77)
Q Consensus 24 LSRAILCN--D~LvkkleeLe~t~~~YkgLv~h~k~~ 58 (77)
-|||-..+ |.||+++-.||......+.-|...|.|
T Consensus 33 ~SRa~mhrRlDElV~Rv~~lEs~~~~lk~dVsemKpV 69 (112)
T PF07439_consen 33 ASRASMHRRLDELVERVTTLESSVSTLKADVSEMKPV 69 (112)
T ss_pred hhhHHHHHhHHHHHHHHHHHHHHHHHHHhhHHhccch
Confidence 47888877 999999999998888888877776654
No 45
>PRK13523 NADPH dehydrogenase NamA; Provisional
Probab=38.66 E-value=13 Score=28.50 Aligned_cols=23 Identities=17% Similarity=0.124 Sum_probs=19.3
Q ss_pred chhHHhhcchHHHHHHHHHHHHH
Q psy16402 23 SLSRAILCNDTLVKKMEELENTE 45 (77)
Q Consensus 23 GLSRAILCND~LvkkleeLe~t~ 45 (77)
++.|+.+.|..+++|+.+.-..+
T Consensus 303 ~~gR~~iadP~~~~k~~~~~~~~ 325 (337)
T PRK13523 303 FIGRELLRNPYFPRIAAKELGFE 325 (337)
T ss_pred HhhHHHHhCccHHHHHHHHcCCC
Confidence 89999999999999987765443
No 46
>PF02671 PAH: Paired amphipathic helix repeat; InterPro: IPR003822 This family contains the paired amphipathic helix (PAH) repeat. The family contains the eukaryotic Sin3 proteins, which have at least three PAH domains (PAH1, PAH2, and PAH3). Sin3 proteins are components of a co-repressor complex that silences transcription, playing important roles in the transition between proliferation and differentiation. Sin3 proteins are recruited to the DNA by various DNA-binding transcription factors such as the Mad family of repressors, Mnt/Rox, PLZF, MeCP2, p53, REST/NRSF, MNFbeta, Sp1, TGIF and Ume6 []. Sin3 acts as a scaffold protein that in turn recruits histone-binding proteins RbAp46/RbAp48 and histone deacetylases HDAC1/HDAC2, which deacetylate the core histones resulting in a repressed state of the chromatin []. The PAH domains are protein-protein interaction domains through which Sin3 fulfils its role as a scaffold. The PAH2 domain of Sin3 can interact with a wide range of unrelated and structurally diverse transcription factors that bind using different interaction motifs. For example, the Sin3 PAH2 domain can interact with the unrelated Mad and HBP1 factors using alternative interaction motifs that involve binding in opposite helical orientations [].; GO: 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 1S5Q_B 2L9S_B 1G1E_B 1S5R_B 2CR7_A 2CZY_A 2LD7_B 2RMR_A 2RMS_A 1PD7_A ....
Probab=38.05 E-value=40 Score=18.51 Aligned_cols=25 Identities=20% Similarity=0.477 Sum_probs=19.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHh
Q psy16402 49 KGLVEHCKKVLKGFLGILRVYKGCL 73 (77)
Q Consensus 49 kgLv~h~k~~Lk~~~~l~~~~k~f~ 73 (77)
..+++.++.+++.+-+++.-++.|+
T Consensus 22 ~~v~~~v~~Ll~~hpdLl~~F~~Fl 46 (47)
T PF02671_consen 22 SEVIEEVSELLRGHPDLLEEFNRFL 46 (47)
T ss_dssp HHHHHHHHHHTTT-HHHHHHHHHHS
T ss_pred HHHHHHHHHHHccCHHHHHHHHhhC
Confidence 3577778889999999999888886
No 47
>cd07307 BAR The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions including organelle biogenesis, membrane trafficking or remodeling, and cell division and migration. Mutations in BAR containing proteins have been linked to diseases and their inactivation in cells leads to altered membrane dynamics. A BAR domain with an additional N-terminal amphipathic helix (an N-BAR) can drive membrane curvature. These N-BAR domains are found in amphiphysins and endophilins, among others. BAR domains are also frequently found alongside domains that determine lipid specificity, such as the Pleckstrin Homology (PH) and Phox Homology (PX) domains which are present in beta centaurins (ACAPs and ASAPs) and sorting nexins, respectively. A FES-CIP4 Homology (FCH) domain together with a coiled coil region is called the F-
Probab=36.58 E-value=1e+02 Score=18.99 Aligned_cols=27 Identities=22% Similarity=0.351 Sum_probs=12.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16402 45 EQMYKGLVEHCKKVLKGFLGILRVYKG 71 (77)
Q Consensus 45 ~~~YkgLv~h~k~~Lk~~~~l~~~~k~ 71 (77)
+.-++.++..++++..+..++.+....
T Consensus 6 ~~~~~kl~k~~~~~~~~~~~~~~~~~~ 32 (194)
T cd07307 6 EKLLKKLIKDTKKLLDSLKELPAAAEK 32 (194)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333555555555555544444444333
No 48
>PF08222 HTH_CodY: CodY helix-turn-helix domain; InterPro: IPR013198 This family consists of the C-terminal helix-turn-helix domain found in several bacterial GTP-sensing transcriptional pleiotropic repressor CodY proteins. CodY has been found to repress the dipeptide transport operon (dpp) of Bacillus subtilis in nutrient-rich conditions []. The CodY protein also has a repressor effect on many genes in Lactococcus lactis during growth in milk [].; PDB: 2B0L_C.
Probab=36.15 E-value=30 Score=22.30 Aligned_cols=23 Identities=26% Similarity=0.631 Sum_probs=16.6
Q ss_pred chhHHHHhhhHHHHhhhhhcchhHHhhcchHHHHHHHH
Q psy16402 3 TTTADALDSLLDDYLQGLNQSLSRAILCNDTLVKKMEE 40 (77)
Q Consensus 3 s~TADAL~~~~~~~~~~~~~GLSRAILCND~Lvkklee 40 (77)
|.-||-. |+.|.+.+|. ++|||.
T Consensus 8 s~iAd~~-------------GiTRSvIVNA--LRKleS 30 (61)
T PF08222_consen 8 SKIADRV-------------GITRSVIVNA--LRKLES 30 (61)
T ss_dssp HHHHHHH-------------T--HHHHHHH--HHHHHH
T ss_pred HHHHHHh-------------CccHHHHHHH--HHHHHh
Confidence 4567777 9999999998 777764
No 49
>cd04946 GT1_AmsK_like This family is most closely related to the GT1 family of glycosyltransferases. AmsK is involved in the biosynthesis of amylovoran, which functions as a virulence factor. It functions as a glycosyl transferase which transfers galactose from UDP-galactose to a lipid-linked amylovoran-subunit precursor. The members of this family are found mainly in bacteria and Archaea.
Probab=35.88 E-value=99 Score=23.12 Aligned_cols=42 Identities=14% Similarity=0.314 Sum_probs=37.8
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy16402 32 DTLVKKMEELENTEQMYKGLVEHCKKVLKGFLGILRVYKGCL 73 (77)
Q Consensus 32 D~LvkkleeLe~t~~~YkgLv~h~k~~Lk~~~~l~~~~k~f~ 73 (77)
+.+.+.|+++-+..+.++.+-+.+++....-|.....|+.|.
T Consensus 365 ~~la~~I~~ll~~~~~~~~m~~~ar~~~~~~f~~~~~~~~~~ 406 (407)
T cd04946 365 NELVSSLSKFIDNEEEYQTMREKAREKWEENFNASKNYREFA 406 (407)
T ss_pred HHHHHHHHHHHhCHHHHHHHHHHHHHHHHHHcCHHHhHHHhc
Confidence 569999999988889999999999999999999999998875
No 50
>PF09454 Vps23_core: Vps23 core domain; InterPro: IPR017916 The Endosomal Sorting Complex Required for Transport (ESCRT) complexes form the machinery driving protein sorting from endosomes to lysosomes. ESCRT complexes are central to receptor down-regulation, lysosome biogenesis, and budding of HIV. Yeast ESCRT-I consists of three protein subunits, VPS23, VPS28, and VPS37. In humans, ESCRT-I comprises TSG101, VPS28, and one of four potential human VPS37 homologues. The main role of ESCRT-I is to recognise ubiquitinated cargo via the UEV domain of the VPS23/TSG101 subunit. The assembly of the ESCRT-I complex is directed by the C-terminal steadiness box (SB) of VPS23, the N-terminal half of VPS28, and the C-terminal half of VPS37. The structure is primarily composed of three long, parallel helical hairpins, each corresponding to a different subunit. The additional domains and motifs extending beyond the core serve as gripping tools for ESCRT-I critical functions [, ]. This entry represents the Steadiness box domain.; PDB: 2CAZ_A 2F66_D 2F6M_A 2P22_A.
Probab=35.81 E-value=87 Score=19.26 Aligned_cols=43 Identities=23% Similarity=0.419 Sum_probs=30.3
Q ss_pred hhhHHHHhhhhhcchhHHhhcchHHHHHHHHHHHHHHHHHHHH
Q psy16402 10 DSLLDDYLQGLNQSLSRAILCNDTLVKKMEELENTEQMYKGLV 52 (77)
Q Consensus 10 ~~~~~~~~~~~~~GLSRAILCND~LvkkleeLe~t~~~YkgLv 52 (77)
|.-++|-+..|.++|.+-.+-=|..+|....|-+..=+.|-++
T Consensus 21 d~AieDtiy~L~~al~~g~I~~d~~lK~vR~LaReQF~~Ral~ 63 (65)
T PF09454_consen 21 DHAIEDTIYYLDRALQRGSIDLDTFLKQVRSLAREQFLKRALI 63 (65)
T ss_dssp HHHHHHHHHHHHHHHHTTSS-HHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHh
Confidence 4556777788888887777766888888888877655555444
No 51
>cd04735 OYE_like_4_FMN Old yellow enzyme (OYE)-related FMN binding domain, group 4. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as electron acceptors in the catalytic reaction. Other members of OYE family include trimethylamine dehydrogenase, 2,4-dienoyl-CoA reductase, enoate reductase, pentaerythriol tetranitrate reductase, xenobiotic reductase, and morphinone reductase.
Probab=35.68 E-value=18 Score=27.45 Aligned_cols=18 Identities=28% Similarity=0.597 Sum_probs=16.6
Q ss_pred chhHHhhcchHHHHHHHH
Q psy16402 23 SLSRAILCNDTLVKKMEE 40 (77)
Q Consensus 23 GLSRAILCND~Lvkklee 40 (77)
++.|++++|+.+++|+.+
T Consensus 311 ~~gR~liadPdl~~k~~~ 328 (353)
T cd04735 311 AIGRGLLVDPDWVEKIKE 328 (353)
T ss_pred HHhHHHHhCccHHHHHHc
Confidence 899999999999999865
No 52
>PF03904 DUF334: Domain of unknown function (DUF334); InterPro: IPR005602 This is a family of proteins found in Staphylococcus aureus plasmid with no characterised function.
Probab=34.64 E-value=1.9e+02 Score=22.48 Aligned_cols=32 Identities=19% Similarity=0.324 Sum_probs=27.2
Q ss_pred cchHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16402 30 CNDTLVKKMEELENTEQMYKGLVEHCKKVLKG 61 (77)
Q Consensus 30 CND~LvkkleeLe~t~~~YkgLv~h~k~~Lk~ 61 (77)
=||-++|.|+|+++....+..=.++.+.-|+.
T Consensus 51 qnkli~K~l~ei~~~qd~reK~~~~I~ssL~e 82 (230)
T PF03904_consen 51 QNKLIIKYLSEIEEKQDIREKNLKEIKSSLEE 82 (230)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 47889999999999999998888888776654
No 53
>PF14599 zinc_ribbon_6: Zinc-ribbon; PDB: 2K2D_A.
Probab=33.97 E-value=11 Score=23.38 Aligned_cols=6 Identities=83% Similarity=1.353 Sum_probs=5.0
Q ss_pred Hhhcch
Q psy16402 27 AILCND 32 (77)
Q Consensus 27 AILCND 32 (77)
-|||||
T Consensus 30 ~IlCND 35 (61)
T PF14599_consen 30 WILCND 35 (61)
T ss_dssp EEEESS
T ss_pred EEECCC
Confidence 489998
No 54
>cd07603 BAR_ACAPs The Bin/Amphiphysin/Rvs (BAR) domain of ArfGAP with Coiled-coil, ANK repeat and PH domain containing proteins. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. This subfamily is composed of ACAPs (ArfGAP with Coiled-coil, ANK repeat and PH domain containing proteins), which are Arf GTPase activating proteins (GAPs) containing an N-terminal BAR domain, followed by a Pleckstrin homology (PH) domain, an Arf GAP domain, and C-terminal ankyrin (ANK) repeats. Vertebrates contain at least three members, ACAP1, ACAP2, and ACAP3. ACAP1 and ACAP2 are Arf6-specific GAPs, involved in the regulation of endocytosis, phagocytosis, cell adhesion and migration, by mediating Arf6 signaling. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=33.46 E-value=1.5e+02 Score=21.43 Aligned_cols=35 Identities=9% Similarity=0.148 Sum_probs=26.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy16402 39 EELENTEQMYKGLVEHCKKVLKGFLGILRVYKGCL 73 (77)
Q Consensus 39 eeLe~t~~~YkgLv~h~k~~Lk~~~~l~~~~k~f~ 73 (77)
.+++.+++--+.++.+|+.++.+--..+...+.|.
T Consensus 9 ~~~~~l~~~l~kl~K~~~~~~~ag~~~~~a~~~F~ 43 (200)
T cd07603 9 ADVSELETRLEKLLKLCNGMVDSGKTYVNANSLFV 43 (200)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45667777778888888888887777777666664
No 55
>cd07978 TAF13 The TATA Binding Protein (TBP) Associated Factor 13 (TAF13) is one of several TAFs that bind TBP and is involved in forming Transcription Factor IID (TFIID) complex. The TATA Binding Protein (TBP) Associated Factor 13 (TAF13) is one of several TAFs that bind TBP and is involved in forming the Transcription Factor IID (TFIID) complex. TFIID is one of seven General Transcription Factors (GTF) (TFIIA, TFIIB, TFIID, TFIIE, TFIIF, and TFIID) that are involved in accurate initiation of transcription by RNA polymerase II in eukaryotes. TFIID plays an important role in the recognition of promoter DNA and assembly of the pre-initiation complex. TFIID complex is composed of the TBP and at least 13 TAFs. TAFs from various species were originally named by their predicted molecular weight or their electrophoretic mobility in polyacrylamide gels. A new, unified nomenclature for the pol II TAFs has been suggested to show the relationship between TAFs orthologs and paralogs. Several hy
Probab=33.17 E-value=1.4e+02 Score=19.41 Aligned_cols=23 Identities=22% Similarity=0.375 Sum_probs=18.5
Q ss_pred cchhHHHHhhhHHHHhhhhhcch
Q psy16402 2 STTTADALDSLLDDYLQGLNQSL 24 (77)
Q Consensus 2 ss~TADAL~~~~~~~~~~~~~GL 24 (77)
.+.|++.++.++-+|+.++-.--
T Consensus 22 ~~eTv~llE~iv~~~i~~l~~~a 44 (92)
T cd07978 22 LPETVDLLEDIVVEYIIELCHKA 44 (92)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHH
Confidence 35799999999999999876433
No 56
>KOG4204|consensus
Probab=32.83 E-value=1e+02 Score=23.08 Aligned_cols=28 Identities=29% Similarity=0.522 Sum_probs=24.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhCC
Q psy16402 49 KGLVEHCKKVLKGFLGILRVYKGCLAGG 76 (77)
Q Consensus 49 kgLv~h~k~~Lk~~~~l~~~~k~f~~~~ 76 (77)
-|.++..+.++|++-+++..+-.||.-|
T Consensus 58 ~~vi~rv~eLfK~h~~Ll~gfN~fLP~~ 85 (231)
T KOG4204|consen 58 PGVIARVKELLKGHPDLLLGFNTFLPPG 85 (231)
T ss_pred HHHHHHHHHHHccCHHHHHHHHhhCccc
Confidence 3788899999999999999999998643
No 57
>PF14131 DUF4298: Domain of unknown function (DUF4298)
Probab=32.61 E-value=1.4e+02 Score=19.11 Aligned_cols=17 Identities=24% Similarity=0.350 Sum_probs=6.6
Q ss_pred HHHHHHHHHHHHHHHHH
Q psy16402 36 KKMEELENTEQMYKGLV 52 (77)
Q Consensus 36 kkleeLe~t~~~YkgLv 52 (77)
+.+++||+.-+-++...
T Consensus 14 ~~l~~le~~l~~~~~~~ 30 (90)
T PF14131_consen 14 ELLEELEEALEKWQEAQ 30 (90)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 33344444333333333
No 58
>PF09452 Mvb12: ESCRT-I subunit Mvb12; InterPro: IPR019014 The endosomal sorting complex required for transport (ESCRT) complexes play a critical role in receptor down-regulation and retroviral budding. A new component of the ESCRT-I complex was identified [], multivesicular body sorting factor of 12 kDa (Mvb12), which binds to the coiled-coil domain of the ESCRT-I subunit vacuolar protein sorting 23 (Vps23) []. ; PDB: 2P22_D.
Probab=32.14 E-value=1.4e+02 Score=20.29 Aligned_cols=36 Identities=19% Similarity=0.347 Sum_probs=24.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16402 37 KMEELENTEQMYKGLVEHCKKVLKGFLGILRVYKGC 72 (77)
Q Consensus 37 kleeLe~t~~~YkgLv~h~k~~Lk~~~~l~~~~k~f 72 (77)
++..+.-|++|+..-.+.|..++++....-..-++|
T Consensus 29 ~l~~~~~t~em~~~W~~ECd~i~~~~~~hd~~~k~F 64 (91)
T PF09452_consen 29 KLPPLQPTKEMFQPWYEECDQIVESCEQHDKSSKEF 64 (91)
T ss_dssp -----HHHHHHHHHHHHHHHHHHHHHHHHHTHHHHH
T ss_pred cCCCCCChHHHHHHHHHHHHHHHHHHHHHHHhcchH
Confidence 577888999999999999999998865554444444
No 59
>cd02801 DUS_like_FMN Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also in some archaea. Most dihydrouridines are found in the D loop of t-RNAs. The role of dihydrouridine in tRNA is currently unknown, but may increase conformational flexibility of the tRNA. It is likely that different family members have different substrate specificities, which may overlap. 1VHN, a putative flavin oxidoreductase, has high sequence similarity to DUS. The enzymatic mechanism of 1VHN is not known at the present.
Probab=32.03 E-value=10 Score=25.68 Aligned_cols=18 Identities=28% Similarity=0.429 Sum_probs=16.0
Q ss_pred chhHHhhcchHHHHHHHH
Q psy16402 23 SLSRAILCNDTLVKKMEE 40 (77)
Q Consensus 23 GLSRAILCND~Lvkklee 40 (77)
.+.|+++.|..+++|+.+
T Consensus 211 ~igr~~l~~P~~~~~~~~ 228 (231)
T cd02801 211 MIGRGALGNPWLFREIKE 228 (231)
T ss_pred EEcHHhHhCCHHHHhhhh
Confidence 789999999999998765
No 60
>PF11791 Aconitase_B_N: Aconitate B N-terminal domain; InterPro: IPR015933 Aconitase (aconitate hydratase; 4.2.1.3 from EC) is an iron-sulphur protein that contains a [4Fe-4S]-cluster and catalyses the interconversion of isocitrate and citrate via a cis-aconitate intermediate. Aconitase functions in both the TCA and glyoxylate cycles, however unlike the majority of iron-sulphur proteins that function as electron carriers, the [4Fe-4S]-cluster of aconitase reacts directly with an enzyme substrate. In eukaryotes there is a cytosolic form (cAcn) and a mitochondrial form (mAcn) of the enzyme. In bacteria there are also 2 forms, aconitase A (AcnA) and B (AcnB). Several aconitases are known to be multi-functional enzymes with a second non-catalytic, but essential function that arises when the cellular environment changes, such as when iron levels drop [, ]. Eukaryotic cAcn and mAcn, and bacterial AcnA have the same domain organisation, consisting of three N-terminal alpha/beta/alpha domains, a linker region, followed by a C-terminal 'swivel' domain with a beta/beta/alpha structure (1-2-3-linker-4), although mAcn is small than cAcn. However, bacterial AcnB has a different organisation: it contains an N-terminal HEAT-like domain, followed by the 'swivel' domain, then the three alpha/beta/alpha domains (HEAT-4-1-2-3) []. Below is a description of some of the multi-functional activities associated with different aconitases. Eukaryotic mAcn catalyses the second step of the mitochondrial TCA cycle, which is important for energy production, providing high energy electrons in the form of NADH and FADH2 to the mitochondrial oxidative phosphorylation pathway []. The TCA cycle also provides precursors for haem and amino acid production. This enzyme has a second, non-catalytic but essential role in mitochondrial DNA (mtDNA) maintenance: mAcn acts to stabilise mtDNA, forming part of mtDNA protein-DNA complexes known as nucleoids. mAcn is thought to reversibly model nucleoids to directly influence mitochondrial gene expression in response to changes in the cellular environment. Therefore, mAcn can influence the expression of components of the oxidative phosphorylation pathway encoded in mtDNA. Eukaryotic cAcn enzyme balances the amount of citrate and isocitrate in the cytoplasm, which in turn creates a balance between the amount of NADPH generated from isocitrate by isocitrate dehydrogenase with the amount of acetyl-CoA generated from citrate by citrate lyase. Fatty acid synthesis requires both NADPH and acetyl-CoA, as do other metabolic processes, including the need for NADPH to combat oxidative stress. The enzymatic form of cAcn predominates when iron levels are normal, but if they drop sufficiently to cause the disassembly of the [4Fe-4S]-cluster, then cAcn undergoes a conformational change from a compact enzyme to a more open L-shaped protein known as iron regulatory protein 1 (IRP1; or IRE-binding protein 1, IREBP1) [, ]. As IRP1, the catalytic site and the [4Fe-4S]-cluster are lost, and two new RNA-binding sites appear. IRP1 functions in the post-transcriptional regulation of genes involved in iron metabolism - it binds to mRNA iron-responsive elements (IRE), 30-nucleotide stem-loop structures at the 3' or 5' end of specific transcripts. Transcripts containing an IRE include ferritin L and H subunits (iron storage), transferrin (iron plasma chaperone), transferrin receptor (iron uptake into cells), ferroportin (iron exporter), mAcn, succinate dehydrogenase, erythroid aminolevulinic acid synthetase (tetrapyrrole biosynthesis), among others. If the IRE is in the 5'-UTR of the transcript (e.g. in ferritin mRNA), then IRP1-binding prevents its translation by blocking the transcript from binding to the ribosome. If the IRE is in the 3'-UTR of the transcript (e.g. transferrin receptor), then IRP1-binding protects it from endonuclease degradation, thereby prolonging the half-life of the transcript and enabling it to be translated []. IRP2 is another IRE-binding protein that binds to the same transcripts as IRP1. However, since IRP1 is predominantly in the enzymatic cAcn form, it is IRP2 that acts as the major metabolic regulator that maintains iron homeostasis []. Although IRP2 is homologous to IRP1, IRP2 lacks aconitase activity, and is known only to have a single function in the post-transcriptional regulation of iron metabolism genes []. In iron-replete cells, IRP2 activity is regulated primarily by iron-dependent degradation through the ubiquitin-proteasomal system. Bacterial AcnB is also known to be multi-functional. In addition to its role in the TCA cycle, AcnB was shown to be a post-transcriptional regulator of gene expression in Escherichia coli and Salmonella enterica [, ]. In S. enterica, AcnB initiates a regulatory cascade controlling flagella biosynthesis through an interaction with the ftsH transcript, an alternative RNA polymerase sigma factor. This binding lowers the intracellular concentration of FtsH protease, which in turn enhances the amount of RNA polymerase sigma32 factor (normally degraded by FtsH protease), and sigma32 then increases the synthesis of chaperone DnaK, which in turn promotes the synthesis of the flagellar protein FliC. AcnB regulates the synthesis of other proteins as well, such as superoxide dismutase (SodA) and other enzymes involved in oxidative stress. This entry represents the N-terminal HEAT-like domain, which is present in bacterial aconitase (AcnB), but not in AcnA or eukaryotic cAcn/IRP2 or mAcn. This domain is multi-helical, forming two curved layers in a right-handed alpha-alpha superhelix. HEAT-like domains are usually implicated in protein-protein interactions. The HEAT-like domain and the 'swivel' domain that follows it were shown to be sufficient for dimerisation and for AcnB binding to mRNA. An iron-mediated dimerisation mechanism may be responsible for switching AcnB between its catalytic and regulatory roles, as dimerisation requires iron while mRNA binding is inhibited by iron. More information about these proteins can be found at Protein of the Month: Aconitase [].; GO: 0003994 aconitate hydratase activity, 0006099 tricarboxylic acid cycle; PDB: 1L5J_B.
Probab=30.71 E-value=72 Score=23.37 Aligned_cols=37 Identities=22% Similarity=0.363 Sum_probs=23.1
Q ss_pred hhhcchhHHhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16402 19 GLNQSLSRAILCNDTLVKKMEELENTEQMYKGLVEHCKKVLKGFL 63 (77)
Q Consensus 19 ~~~~GLSRAILCND~LvkkleeLe~t~~~YkgLv~h~k~~Lk~~~ 63 (77)
.-.+.||.-+|.-|. ...+.++-++ -.+++.||++|-
T Consensus 113 ~Aa~aLk~TlLvyDa-f~dv~~~ak~-------N~~Ak~VleSWA 149 (154)
T PF11791_consen 113 EAAEALKNTLLVYDA-FNDVAELAKA-------NAYAKEVLESWA 149 (154)
T ss_dssp HHHHHHHT--TTCCH-HHHHHHHHHT--------HHHHHHHHHHH
T ss_pred HHHHHHHhhHHHHhh-HHHHHHHHHc-------CHHHHHHHHHHh
Confidence 334578889999987 5555555444 456888888874
No 61
>cd04734 OYE_like_3_FMN Old yellow enzyme (OYE)-related FMN binding domain, group 3. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as electron acceptors in the catalytic reaction. Other members of OYE family include trimethylamine dehydrogenase, 2,4-dienoyl-CoA reductase, enoate reductase, pentaerythriol tetranitrate reductase, xenobiotic reductase, and morphinone reductase. One member of this subgroup, the Sinorhizobium meliloti stachydrine utilization protein stcD, has been idenified as a putative N-methylproline demethylase.
Probab=30.38 E-value=14 Score=28.13 Aligned_cols=18 Identities=33% Similarity=0.512 Sum_probs=16.5
Q ss_pred chhHHhhcchHHHHHHHH
Q psy16402 23 SLSRAILCNDTLVKKMEE 40 (77)
Q Consensus 23 GLSRAILCND~Lvkklee 40 (77)
++.|+.++|..+++|+.+
T Consensus 313 ~~gR~~ladP~l~~k~~~ 330 (343)
T cd04734 313 GMTRAHIADPHLVAKARE 330 (343)
T ss_pred eecHHhHhCccHHHHHHc
Confidence 899999999999999865
No 62
>cd04955 GT1_like_6 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate residue. This group of glycosyltransferases is most closely related to the previously defined glycosyltransferase family 1 (GT1). The members of this family may transfer UDP, ADP, GDP, or CMP linked sugars. The diverse enzymatic activities among members of this family reflect a wide range of biological functions. The protein structure available for this family has the GTB topology, one of the two protein topologies observed for nucleotide-sugar-dependent glycosyltransferases. GTB proteins have distinct N- and C- terminal domains each containing a typical Rossmann fold. The two domains have high structural homology despite minimal sequence homolog
Probab=30.35 E-value=1.7e+02 Score=19.77 Aligned_cols=41 Identities=15% Similarity=0.220 Sum_probs=29.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16402 32 DTLVKKMEELENTEQMYKGLVEHCKKVLKGFLGILRVYKGC 72 (77)
Q Consensus 32 D~LvkkleeLe~t~~~YkgLv~h~k~~Lk~~~~l~~~~k~f 72 (77)
|.+.+.+++|-+....+..+.+.+++..+..|....+-+.+
T Consensus 318 ~~l~~~i~~l~~~~~~~~~~~~~~~~~~~~~fs~~~~~~~~ 358 (363)
T cd04955 318 DDLASLLEELEADPEEVSAMAKAARERIREKYTWEKIADQY 358 (363)
T ss_pred hHHHHHHHHHHhCHHHHHHHHHHHHHHHHHhCCHHHHHHHH
Confidence 33888899988888888888888887776655555544444
No 63
>PF14523 Syntaxin_2: Syntaxin-like protein; PDB: 2DNX_A.
Probab=29.70 E-value=1.3e+02 Score=18.15 Aligned_cols=26 Identities=23% Similarity=0.247 Sum_probs=18.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16402 46 QMYKGLVEHCKKVLKGFLGILRVYKG 71 (77)
Q Consensus 46 ~~YkgLv~h~k~~Lk~~~~l~~~~k~ 71 (77)
-....|...++.+++.|..+.+.|.+
T Consensus 71 ~~~~KL~~df~~~l~~fq~~q~~~~~ 96 (102)
T PF14523_consen 71 LQREKLSRDFKEALQEFQKAQRRYAE 96 (102)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44556777788888888888777654
No 64
>PF14782 BBS2_C: Ciliary BBSome complex subunit 2, C-terminal
Probab=29.09 E-value=2.1e+02 Score=23.41 Aligned_cols=52 Identities=13% Similarity=0.234 Sum_probs=37.7
Q ss_pred chhHHhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy16402 23 SLSRAILCNDTLVKKMEELENTEQMYKGLVEHCKKVLKGFLGILRVYKGCLA 74 (77)
Q Consensus 23 GLSRAILCND~LvkkleeLe~t~~~YkgLv~h~k~~Lk~~~~l~~~~k~f~~ 74 (77)
.+-|.+|.--.=-.=|.++.+..++|..|.+-=+.+++.+...+.-|.++++
T Consensus 335 ~~ik~llvrAEDaRl~~d~~~m~k~y~~l~~~n~~l~~~~~~R~~N~~~l~~ 386 (431)
T PF14782_consen 335 NLIKSLLVRAEDARLMGDMKNMRKYYAELYDLNRDLINEYKIRCNNHEELLS 386 (431)
T ss_pred HHHHHHHhHhhhHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHH
Confidence 4445555443334446778888889999988888899888888888877764
No 65
>PF15124 DUF4563: Domain of unknown function (DUF4563)
Probab=28.27 E-value=80 Score=23.93 Aligned_cols=23 Identities=30% Similarity=0.680 Sum_probs=20.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHh
Q psy16402 51 LVEHCKKVLKGFLGILRVYKGCL 73 (77)
Q Consensus 51 Lv~h~k~~Lk~~~~l~~~~k~f~ 73 (77)
.+.-||.||++.+-+-.+||.|-
T Consensus 149 ~~~mCkqmLRsILLLYA~YKKCt 171 (178)
T PF15124_consen 149 AMAMCKQMLRSILLLYATYKKCT 171 (178)
T ss_pred HHHHHHHHHHHHHHHHHHHhhhh
Confidence 46779999999999999999873
No 66
>cd03800 GT1_Sucrose_synthase This family is most closely related to the GT1 family of glycosyltransferases. The sucrose-phosphate synthases in this family may be unique to plants and photosynthetic bacteria. This enzyme catalyzes the synthesis of sucrose 6-phosphate from fructose 6-phosphate and uridine 5'-diphosphate-glucose, a key regulatory step of sucrose metabolism. The activity of this enzyme is regulated by phosphorylation and moderated by the concentration of various metabolites and light.
Probab=27.87 E-value=2e+02 Score=19.82 Aligned_cols=41 Identities=12% Similarity=0.077 Sum_probs=31.8
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16402 32 DTLVKKMEELENTEQMYKGLVEHCKKVLKGFLGILRVYKGC 72 (77)
Q Consensus 32 D~LvkkleeLe~t~~~YkgLv~h~k~~Lk~~~~l~~~~k~f 72 (77)
+.+++.++++-+..+.++.+...+++..+..|......+.+
T Consensus 356 ~~l~~~i~~l~~~~~~~~~~~~~a~~~~~~~~s~~~~~~~~ 396 (398)
T cd03800 356 EALAAALRRLLTDPALRRRLSRAGLRRARARYTWERVAARL 396 (398)
T ss_pred HHHHHHHHHHHhCHHHHHHHHHHHHHHHHHhCCHHHHHHHH
Confidence 57889999988888889999998888776666666555554
No 67
>TIGR03627 arch_S9P archaeal ribosomal protein S9P. This model describes exclusively the archaeal ribosomal protein S9P. Homologous eukaryotic and bacterial ribosomal proteins are excluded from this model.
Probab=27.81 E-value=62 Score=22.51 Aligned_cols=10 Identities=10% Similarity=0.404 Sum_probs=8.4
Q ss_pred hcchhHHhhc
Q psy16402 21 NQSLSRAILC 30 (77)
Q Consensus 21 ~~GLSRAILC 30 (77)
-+|+|||++.
T Consensus 76 r~aIaraL~~ 85 (130)
T TIGR03627 76 RTAIARGLVE 85 (130)
T ss_pred HHHHHHHHHH
Confidence 4599999987
No 68
>PF05103 DivIVA: DivIVA protein; InterPro: IPR007793 The Bacillus subtilis divIVA1 mutation causes misplacement of the septum during cell division, resulting in the formation of small, circular, anucleate minicells []. Inactivation of divIVA produces a minicell phenotype, whereas overproduction of DivIVA results in a filamentation phenotype []. These proteins appear to contain coiled-coils.; PDB: 2WUK_C 2WUJ_A.
Probab=27.65 E-value=20 Score=22.71 Aligned_cols=47 Identities=28% Similarity=0.385 Sum_probs=26.4
Q ss_pred HHHHhhhhhcchhHHhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16402 13 LDDYLQGLNQSLSRAILCNDTLVKKMEELENTEQMYKGLVEHCKKVL 59 (77)
Q Consensus 13 ~~~~~~~~~~GLSRAILCND~LvkkleeLe~t~~~YkgLv~h~k~~L 59 (77)
+|+||.-+..-+.+..==|+.|-+++++|+..-.-|+.....+++.|
T Consensus 23 VD~fl~~l~~~~~~l~~e~~~L~~~~~~l~~~l~~~~~~~~~l~~~l 69 (131)
T PF05103_consen 23 VDDFLDELAEELERLQRENAELKEEIEELQAQLEELREEEESLQRAL 69 (131)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCT---------------
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhHHHHHHHhh
Confidence 57888888888888888888888888888887777777766666655
No 69
>TIGR01037 pyrD_sub1_fam dihydroorotate dehydrogenase (subfamily 1) family protein. This family includes subfamily 1 dihydroorotate dehydrogenases while excluding the closely related subfamily 2 (TIGR01036). This family also includes a number of uncharacterized proteins and a domain of dihydropyrimidine dehydrogenase. The uncharacterized proteins might all be dihydroorotate dehydrogenase.
Probab=27.42 E-value=22 Score=25.72 Aligned_cols=17 Identities=18% Similarity=0.208 Sum_probs=14.4
Q ss_pred chhHHhhcchHHHHHHH
Q psy16402 23 SLSRAILCNDTLVKKME 39 (77)
Q Consensus 23 GLSRAILCND~Lvkkle 39 (77)
.+.|+++.|..+++|+.
T Consensus 261 ~igr~~l~~p~~~~~i~ 277 (300)
T TIGR01037 261 QVGTAVYYRGFAFKKII 277 (300)
T ss_pred eecHHHhcCchHHHHHH
Confidence 68999999998887764
No 70
>cd00179 SynN Syntaxin N-terminus domain; syntaxins are nervous system-specific proteins implicated in the docking of synaptic vesicles with the presynaptic plasma membrane; they are a family of receptors for intracellular transport vesicles; each target membrane may be identified by a specific member of the syntaxin family; syntaxins contain a moderately well conserved amino-terminal domain, called Habc, whose structure is an antiparallel three-helix bundle; a linker of about 30 amino acids connects this to the carboxy-terminal region, designated H3 (t_SNARE), of the syntaxin cytoplasmic domain; the highly conserved H3 region forms a single, long alpha-helix when it is part of the core SNARE complex and anchors the protein on the cytoplasmic surface of cellular membranes; H3 is not included in defining this domain
Probab=27.40 E-value=1.7e+02 Score=18.66 Aligned_cols=27 Identities=22% Similarity=0.333 Sum_probs=22.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16402 45 EQMYKGLVEHCKKVLKGFLGILRVYKG 71 (77)
Q Consensus 45 ~~~YkgLv~h~k~~Lk~~~~l~~~~k~ 71 (77)
...+..|....+.+|+.|..+-+-|+.
T Consensus 87 ~~q~~~L~~~f~~~m~~fq~~Q~~~~~ 113 (151)
T cd00179 87 KTQHSGLSKKFVEVMTEFNKAQRKYRE 113 (151)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 467788888899999999988887764
No 71
>PRK10307 putative glycosyl transferase; Provisional
Probab=27.02 E-value=2.1e+02 Score=20.84 Aligned_cols=33 Identities=15% Similarity=0.176 Sum_probs=24.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16402 32 DTLVKKMEELENTEQMYKGLVEHCKKVLKGFLG 64 (77)
Q Consensus 32 D~LvkkleeLe~t~~~YkgLv~h~k~~Lk~~~~ 64 (77)
+.|.+++++|-+..+....+-+++++..+..|.
T Consensus 361 ~~la~~i~~l~~~~~~~~~~~~~a~~~~~~~fs 393 (412)
T PRK10307 361 EALVAAIAALARQALLRPKLGTVAREYAERTLD 393 (412)
T ss_pred HHHHHHHHHHHhCHHHHHHHHHHHHHHHHHHcC
Confidence 468888888877777777888887776654443
No 72
>PF03333 PapB: Adhesin biosynthesis transcription regulatory protein; InterPro: IPR004356 P pili, or fimbriae, are ~68A in diameter and 1 micron in length, the bulk of which is a fibre composed of the main structural protein PapA []. At its tip, the pilus is terminated by a fibrillum consisting of repeating units of the PapE protein. This, in turn, is topped by the adhesins, PapF and PapG, both of which are needed for receptor binding. The tip fibrillum is anchored to the main PapA fibre by the PapK pilus-adaptor protein. PapH, an outer membrane protein, then anchors the entire rod in the bacterial envelope []. A cytoplasmic chaperone (PapD) assists in assembling the monomers of the macromolecule in the membrane. All of the functional pap genes are arranged in a cluster (operon) on the Escherichia coli genome. It is believed that selective pressure exerted by the host's urinal and intestinal tract isoreceptors forced the spread of this operon to other strains via lateral transfer []. PapB, encoded within the cluster, acts as a transcriptional regulator of the functional pap genes and is located in the bacterial cytoplasm []. Its mechanism involves differential binding to separate sites in the cluster, suggesting that this protein is both an activator and repressor of pilus-adhesion transcription. The protein shares similarity with other E. coli fimbrial- adhesion transcription regulators, such as AfaA, DaaA and FanB. ; GO: 0006355 regulation of transcription, DNA-dependent; PDB: 3M8J_A.
Probab=26.80 E-value=1.8e+02 Score=19.38 Aligned_cols=42 Identities=24% Similarity=0.460 Sum_probs=22.2
Q ss_pred chhHHHHhhhHHHHhhhhhcchhHHhhcc------hHHHHHHHHHHHHHHH
Q psy16402 3 TTTADALDSLLDDYLQGLNQSLSRAILCN------DTLVKKMEELENTEQM 47 (77)
Q Consensus 3 s~TADAL~~~~~~~~~~~~~GLSRAILCN------D~LvkkleeLe~t~~~ 47 (77)
+-+.+..-.-|.|||.. |.||--.|+ --+--+|..|++..+.
T Consensus 36 ~IrS~kiI~AL~dyLV~---G~srkeac~~~gV~~syfs~~L~rL~~v~~~ 83 (91)
T PF03333_consen 36 SIRSEKIIAALRDYLVD---GLSRKEACERHGVNQSYFSRALNRLNRVSQI 83 (91)
T ss_dssp ----HHHHHHHHHHHTT------HHHHHHHTT--HHHHHHHHHHHHHHHHH
T ss_pred CCCcHHHHHHHHHHHHc---CCcHHHHHHHhCCCHHHHHHHHHHHHHHHHH
Confidence 33444555556788765 999999996 3344566666666544
No 73
>COG2454 Uncharacterized conserved protein [Function unknown]
Probab=26.62 E-value=58 Score=25.10 Aligned_cols=14 Identities=29% Similarity=0.916 Sum_probs=12.2
Q ss_pred HHhhcchHHHHHHH
Q psy16402 26 RAILCNDTLVKKME 39 (77)
Q Consensus 26 RAILCND~Lvkkle 39 (77)
-|++|+|+.+.-+.
T Consensus 87 ~~vlcdDg~iRDl~ 100 (211)
T COG2454 87 EAVLCDDGVIRDLR 100 (211)
T ss_pred cEEEecCchhhhhh
Confidence 79999999988766
No 74
>PRK11151 DNA-binding transcriptional regulator OxyR; Provisional
Probab=26.10 E-value=1.5e+02 Score=20.52 Aligned_cols=45 Identities=18% Similarity=0.277 Sum_probs=26.7
Q ss_pred chhHHhhcchHHHHHHHHHHHHHHHHH------------HHHHHHHHHHHHHHHHHHHH
Q psy16402 23 SLSRAILCNDTLVKKMEELENTEQMYK------------GLVEHCKKVLKGFLGILRVY 69 (77)
Q Consensus 23 GLSRAILCND~LvkkleeLe~t~~~Yk------------gLv~h~k~~Lk~~~~l~~~~ 69 (77)
++|..-+-+- +|+||+.-...-+.| .+.++++.++...-.+.+..
T Consensus 26 ~itQpavS~~--i~~LE~~lg~~LF~R~~r~~~lT~~G~~l~~~a~~~l~~~~~~~~~~ 82 (305)
T PRK11151 26 HVSQPTLSGQ--IRKLEDELGVMLLERTSRKVLFTQAGLLLVDQARTVLREVKVLKEMA 82 (305)
T ss_pred CCCchHHHHH--HHHHHHHhCchheeeCCCceeECccHHHHHHHHHHHHHHHHHHHHHH
Confidence 5555444433 566666555554443 37778888887776665443
No 75
>cd06878 PX_SNX25 The phosphoinositide binding Phox Homology domain of Sorting Nexin 25. The PX domain is a phosphoinositide (PI) binding module present in many proteins with diverse functions. Sorting nexins (SNXs) make up the largest group among PX domain containing proteins. They are involved in regulating membrane traffic and protein sorting in the endosomal system. The PX domain of SNXs binds PIs and targets the protein to PI-enriched membranes. SNXs differ from each other in PI-binding specificity and affinity, and the presence of other protein-protein interaction domains, which help determine subcellular localization and specific function in the endocytic pathway. The function of SNX25 is not yet known. It has been found in exosomes from human malignant pleural effusions. SNX25 shows the same domain architecture as SNX13 and SNX14, containing an N-terminal PXA domain, a regulator of G protein signaling (RGS) domain, a PX domain, and a C-terminal domain that is conserved in some S
Probab=25.88 E-value=51 Score=21.99 Aligned_cols=22 Identities=27% Similarity=0.437 Sum_probs=16.2
Q ss_pred hHHHHhhhhhcchhHHhhcchHHHH
Q psy16402 12 LLDDYLQGLNQSLSRAILCNDTLVK 36 (77)
Q Consensus 12 ~~~~~~~~~~~GLSRAILCND~Lvk 36 (77)
.|++|||.|-+ ...+|+...+.
T Consensus 100 ~Le~YLq~ll~---~~~l~~s~~l~ 121 (127)
T cd06878 100 QLQKYLQFILE---DETLCQSEALY 121 (127)
T ss_pred HHHHHHHHHhC---ChhhcCCHHHH
Confidence 78999999854 55777776554
No 76
>cd03801 GT1_YqgM_like This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate residue. This group of glycosyltransferases is most closely related to the previously defined glycosyltransferase family 1 (GT1). The members of this family may transfer UDP, ADP, GDP, or CMP linked sugars. The diverse enzymatic activities among members of this family reflect a wide range of biological functions. The protein structure available for this family has the GTB topology, one of the two protein topologies observed for nucleotide-sugar-dependent glycosyltransferases. GTB proteins have distinct N- and C- terminal domains each containing a typical Rossmann fold.
Probab=25.68 E-value=1.9e+02 Score=18.50 Aligned_cols=41 Identities=15% Similarity=0.161 Sum_probs=29.8
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16402 32 DTLVKKMEELENTEQMYKGLVEHCKKVLKGFLGILRVYKGC 72 (77)
Q Consensus 32 D~LvkkleeLe~t~~~YkgLv~h~k~~Lk~~~~l~~~~k~f 72 (77)
+.+++.++++-+..+.++.+...+++.....+......+.+
T Consensus 329 ~~l~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 369 (374)
T cd03801 329 EALAEAILRLLDDPELRRRLGEAARERVAERFSWDRVAART 369 (374)
T ss_pred HHHHHHHHHHHcChHHHHHHHHHHHHHHHHhcCHHHHHHHH
Confidence 56888888887777888888888886666666665555544
No 77
>KOG3522|consensus
Probab=25.67 E-value=1.3e+02 Score=27.81 Aligned_cols=43 Identities=30% Similarity=0.463 Sum_probs=32.3
Q ss_pred HHHHhhhHHHHhhhhhcchhHHhhcchHHHHHH-----HHHHHHHHHHHHH
Q psy16402 6 ADALDSLLDDYLQGLNQSLSRAILCNDTLVKKM-----EELENTEQMYKGL 51 (77)
Q Consensus 6 ADAL~~~~~~~~~~~~~GLSRAILCND~Lvkkl-----eeLe~t~~~YkgL 51 (77)
-+||..++|.|.|-|.+ |+.||....|+.+ |.||--|.+|.-+
T Consensus 16 v~sL~t~vd~y~qpL~~---~~~l~~~~~~~eif~~i~ell~~he~fl~~l 63 (925)
T KOG3522|consen 16 VESLHTGVDRYVQPLKE---RKVLIDPRDVDEIFQNIPELLEIHEDFLEQL 63 (925)
T ss_pred HHHHHHHHHHhhccccc---cccccCCchHHHHHHhhHHHHHHHHHHHHHH
Confidence 47899999999999999 9999995555443 4556666666544
No 78
>cd03822 GT1_ecORF704_like This family is most closely related to the GT1 family of glycosyltransferases. ORF704 in E. coli has been shown to be involved in the biosynthesis of O-specific mannose homopolysaccharides.
Probab=25.47 E-value=2.1e+02 Score=19.01 Aligned_cols=39 Identities=13% Similarity=0.222 Sum_probs=27.4
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16402 32 DTLVKKMEELENTEQMYKGLVEHCKKVLKGFLGILRVYKG 71 (77)
Q Consensus 32 D~LvkkleeLe~t~~~YkgLv~h~k~~Lk~~~~l~~~~k~ 71 (77)
+.+++.++++-+..+.++.+.+.+++..+. +.....-+.
T Consensus 322 ~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~-~s~~~~~~~ 360 (366)
T cd03822 322 AALAEAIRRLLADPELAQALRARAREYARA-MSWERVAER 360 (366)
T ss_pred HHHHHHHHHHHcChHHHHHHHHHHHHHHhh-CCHHHHHHH
Confidence 458888888887777888888888777666 544444443
No 79
>PF05866 RusA: Endodeoxyribonuclease RusA; InterPro: IPR008822 This family consists of several bacterial and phage Holliday junction resolvase (RusA) like proteins. The RusA protein of Escherichia coli is an endonuclease that can resolve Holliday intermediates and correct the defects in genetic recombination and DNA repair associated with inactivation of RuvAB or RuvC [].; GO: 0000287 magnesium ion binding, 0006281 DNA repair, 0006310 DNA recombination; PDB: 1Q8R_A 2H8C_A 2H8E_A.
Probab=25.32 E-value=30 Score=21.48 Aligned_cols=24 Identities=25% Similarity=0.441 Sum_probs=16.9
Q ss_pred HHHHhhhhhcchhHHhhcchHHHH
Q psy16402 13 LDDYLQGLNQSLSRAILCNDTLVK 36 (77)
Q Consensus 13 ~~~~~~~~~~GLSRAILCND~Lvk 36 (77)
+|.++..+..||.-|+.-||..|-
T Consensus 73 ~DN~~K~i~Dal~~~v~~DD~~i~ 96 (118)
T PF05866_consen 73 LDNLLKAILDALTGAVWKDDRQIV 96 (118)
T ss_dssp HHHHHHHHHHHHHHTSBS-GGGEE
T ss_pred chhHHHHHHHHHhCcEEcCCccEE
Confidence 456677777788888888997653
No 80
>cd03799 GT1_amsK_like This is a family of GT1 glycosyltransferases found specifically in certain bacteria. amsK in Erwinia amylovora, has been reported to be involved in the biosynthesis of amylovoran, a exopolysaccharide acting as a virulence factor.
Probab=25.03 E-value=1.6e+02 Score=19.76 Aligned_cols=37 Identities=14% Similarity=0.232 Sum_probs=27.9
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16402 32 DTLVKKMEELENTEQMYKGLVEHCKKVLKGFLGILRV 68 (77)
Q Consensus 32 D~LvkkleeLe~t~~~YkgLv~h~k~~Lk~~~~l~~~ 68 (77)
|.+++.|+++-+....++.+.+.+++..+..|.....
T Consensus 315 ~~l~~~i~~~~~~~~~~~~~~~~a~~~~~~~~s~~~~ 351 (355)
T cd03799 315 EALADAIERLLDDPELRREMGEAGRARVEEEFDIRKQ 351 (355)
T ss_pred HHHHHHHHHHHhCHHHHHHHHHHHHHHHHHhcCHHHH
Confidence 4688888888777777888888888877766655443
No 81
>PF06497 DUF1098: Protein of unknown function (DUF1098); InterPro: IPR009477 This entry is represented by Autographa californica nuclear polyhedrosis virus (AcMNPV), Orf102; it is a family of uncharacterised viral proteins.
Probab=24.92 E-value=1.9e+02 Score=19.31 Aligned_cols=31 Identities=39% Similarity=0.499 Sum_probs=21.0
Q ss_pred HHhhhhhc--chhHHhhcchHHHHHHHHHHHHHH
Q psy16402 15 DYLQGLNQ--SLSRAILCNDTLVKKMEELENTEQ 46 (77)
Q Consensus 15 ~~~~~~~~--GLSRAILCND~LvkkleeLe~t~~ 46 (77)
+.||.||. +.-+-| -||+=..|.+-|+.-+.
T Consensus 22 ~lL~~Ln~~~tva~~I-lnD~S~~K~~sl~~Ls~ 54 (95)
T PF06497_consen 22 DLLQSLNENQTVARLI-LNDTSENKRNSLKRLSP 54 (95)
T ss_pred HHHHHHHhcccHHHHH-HcCCCHhHHHHHHHHhH
Confidence 55777775 555555 58888888877765544
No 82
>cd03818 GT1_ExpC_like This family is most closely related to the GT1 family of glycosyltransferases. ExpC in Rhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucan (exopolysaccharide II).
Probab=24.88 E-value=2.6e+02 Score=20.28 Aligned_cols=42 Identities=14% Similarity=0.062 Sum_probs=33.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy16402 32 DTLVKKMEELENTEQMYKGLVEHCKKVLKGFLGILRVYKGCL 73 (77)
Q Consensus 32 D~LvkkleeLe~t~~~YkgLv~h~k~~Lk~~~~l~~~~k~f~ 73 (77)
+.+.+++.++-+..+..+.+-+.+++-.+..|....+-+.++
T Consensus 354 ~~la~~i~~ll~~~~~~~~l~~~ar~~~~~~fs~~~~~~~~~ 395 (396)
T cd03818 354 DALAAAVIELLDDPARRARLRRAARRTALRYDLLSVCLPRQL 395 (396)
T ss_pred HHHHHHHHHHHhCHHHHHHHHHHHHHHHHHhccHHHHHHHHh
Confidence 568888888888788888898999888888777777666654
No 83
>KOG3027|consensus
Probab=24.86 E-value=1.4e+02 Score=23.78 Aligned_cols=25 Identities=28% Similarity=0.659 Sum_probs=20.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16402 40 ELENTEQMYKGLVEHCKKVLKGFLG 64 (77)
Q Consensus 40 eLe~t~~~YkgLv~h~k~~Lk~~~~ 64 (77)
+|-++-+-|..|++||+++=+.||+
T Consensus 227 ela~~lkkys~LlefcrrIeq~yF~ 251 (257)
T KOG3027|consen 227 ELANILKKYSNLLEFCRRIEQQYFK 251 (257)
T ss_pred HHHHHHHHhHHHHHHHHHHHHHHHH
Confidence 4556667799999999999887775
No 84
>PF02954 HTH_8: Bacterial regulatory protein, Fis family; InterPro: IPR002197 The Factor for Inversion Stimulation (FIS) protein is a regulator of bacterial functions, and binds specifically to weakly related DNA sequences [,]. It activates ribosomal RNA transcription, and is involved in upstream activation of rRNA promoters. The protein has been shown to play a role in the regulation of virulence factors in both Salmonella typhimurium and Escherichia coli []. Some of its functions include inhibition of the initiation of DNA replication from the OriC site, and promotion of Hin-mediated DNA inversion. In its C-terminal extremity, FIS encodes a helix-turn-helix (HTH) DNA- binding motif, which shares a high degree of similarity with other HTH motifs of more primitive bacterial transcriptional regulators, such as the nitrogen assimilation regulatory proteins (NtrC) from species like Azobacter, Rhodobacter and Rhizobium. This has led to speculation that both evolved from a single common ancestor []. The 3-dimensional structure of the E. coli FIS DNA-binding protein has been determined by means of X-ray diffraction to 2.0A resolution [,]. FIS is composed of four alpha-helices tightly intertwined to form a globular dimer with two protruding HTH motifs. The 24 N-terminal amino acids are poorly defined, indicating that they might act as `feelers' suitable for DNA or protein (invertase) recognition []. Other proteins belonging to this subfamily include: E. coli: atoC, hydG, ntrC, fhlA, tyrR, Rhizobium spp.: ntrC, nifA, dctD ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1NTC_A 3JRH_A 3JRB_A 3IV5_A 3JRI_A 1ETQ_A 1ETW_B 1ETY_A 3JRF_A 3JRA_A ....
Probab=24.76 E-value=46 Score=18.13 Aligned_cols=13 Identities=38% Similarity=0.475 Sum_probs=8.8
Q ss_pred hhHHHHhhhHHHHhhhhhcchhHHhh
Q psy16402 4 TTADALDSLLDDYLQGLNQSLSRAIL 29 (77)
Q Consensus 4 ~TADAL~~~~~~~~~~~~~GLSRAIL 29 (77)
.+|..| |+||.-|
T Consensus 23 ~aA~~L-------------gisr~tL 35 (42)
T PF02954_consen 23 KAARLL-------------GISRRTL 35 (42)
T ss_dssp HHHHHH-------------TS-HHHH
T ss_pred HHHHHH-------------CCCHHHH
Confidence 577888 9998644
No 85
>PF15456 Uds1: Up-regulated During Septation
Probab=24.75 E-value=2e+02 Score=19.71 Aligned_cols=29 Identities=31% Similarity=0.522 Sum_probs=20.9
Q ss_pred hHHHHHHHHHHHH-HHHHHHHHHHHHHHHH
Q psy16402 32 DTLVKKMEELENT-EQMYKGLVEHCKKVLK 60 (77)
Q Consensus 32 D~LvkkleeLe~t-~~~YkgLv~h~k~~Lk 60 (77)
|.++.+|..+|+- ....+.|.+|+-.+|.
T Consensus 91 ee~~~eL~~le~R~~~~~~rLLeH~AavL~ 120 (124)
T PF15456_consen 91 EELAQELWKLENRLAEVRQRLLEHTAAVLQ 120 (124)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 6677777777764 4567778888887774
No 86
>PF07851 TMPIT: TMPIT-like protein; InterPro: IPR012926 A number of members of this family are annotated as being transmembrane proteins induced by tumour necrosis factor alpha, but no literature was found to support this. ; GO: 0016021 integral to membrane
Probab=24.65 E-value=2.4e+02 Score=22.61 Aligned_cols=37 Identities=27% Similarity=0.358 Sum_probs=23.3
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16402 31 NDTLVKKMEELENTEQMYKGLVEHCKKVLKGFLGILR 67 (77)
Q Consensus 31 ND~LvkkleeLe~t~~~YkgLv~h~k~~Lk~~~~l~~ 67 (77)
+....+|+||+++.......-+.|-++-|+.....++
T Consensus 20 hr~Y~qKleel~~lQ~~C~ssI~~QkkrLk~L~~sLk 56 (330)
T PF07851_consen 20 HRSYKQKLEELSKLQDKCSSSISHQKKRLKELKKSLK 56 (330)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445667777777777777777776666665554443
No 87
>KOG0698|consensus
Probab=24.51 E-value=16 Score=27.49 Aligned_cols=16 Identities=38% Similarity=0.235 Sum_probs=14.2
Q ss_pred HhhhhhcchhHHhhcc
Q psy16402 16 YLQGLNQSLSRAILCN 31 (77)
Q Consensus 16 ~~~~~~~GLSRAILCN 31 (77)
.|--.|-|-||||||.
T Consensus 154 ~l~vaN~GDSRaVl~~ 169 (330)
T KOG0698|consen 154 KLYVANVGDSRAVLSR 169 (330)
T ss_pred EEEEEEcCCCcEEEec
Confidence 7777899999999995
No 88
>cd02810 DHOD_DHPD_FMN Dihydroorotate dehydrogenase (DHOD) and Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires FMN as co-factor. DHOD divides into class 1 and class 2 based on their amino acid sequences and cellular location. Members of class 1 are cytosolic enzymes and multimers while class 2 enzymes are membrane associated and monomeric. The class 1 enzymes can be further divided into subtypes 1A and 1B which are homodimers and heterotetrameric proteins, respectively. DHPD catalyzes the first step in pyrimidine degradation: the NADPH-dependent reduction of uracil and thymine to the corresponding 5,6-dihydropyrimidines. DHPD contains two FAD, two FMN and eight [4Fe-4S] clusters, arranged in two electron transfer chains that pass its homodimeric interface twice. Two of
Probab=24.01 E-value=40 Score=24.06 Aligned_cols=18 Identities=11% Similarity=0.503 Sum_probs=15.5
Q ss_pred chhHHhhcc-hHHHHHHHH
Q psy16402 23 SLSRAILCN-DTLVKKMEE 40 (77)
Q Consensus 23 GLSRAILCN-D~Lvkklee 40 (77)
++.||++.| ..+++|+.+
T Consensus 270 ~vg~a~~~~GP~~~~~i~~ 288 (289)
T cd02810 270 QVATALMWDGPDVIRKIKK 288 (289)
T ss_pred eEcHHHHhcCccHHHHHhc
Confidence 889999999 989988753
No 89
>cd03807 GT1_WbnK_like This family is most closely related to the GT1 family of glycosyltransferases. WbnK in Shigella dysenteriae has been shown to be involved in the type 7 O-antigen biosynthesis.
Probab=23.91 E-value=2.1e+02 Score=18.56 Aligned_cols=41 Identities=15% Similarity=0.231 Sum_probs=30.2
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16402 32 DTLVKKMEELENTEQMYKGLVEHCKKVLKGFLGILRVYKGC 72 (77)
Q Consensus 32 D~LvkkleeLe~t~~~YkgLv~h~k~~Lk~~~~l~~~~k~f 72 (77)
+.+.+.+.++-+..+.++.+.+.+++..+..|......+.+
T Consensus 320 ~~l~~~i~~l~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~ 360 (365)
T cd03807 320 EALAEAIEALLADPALRQALGEAARERIEENFSIEAMVEAY 360 (365)
T ss_pred HHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHH
Confidence 46788888887777788888888888877766666555544
No 90
>cd03794 GT1_wbuB_like This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase.
Probab=23.60 E-value=2.2e+02 Score=18.58 Aligned_cols=41 Identities=10% Similarity=0.110 Sum_probs=29.2
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16402 32 DTLVKKMEELENTEQMYKGLVEHCKKVLKGFLGILRVYKGC 72 (77)
Q Consensus 32 D~LvkkleeLe~t~~~YkgLv~h~k~~Lk~~~~l~~~~k~f 72 (77)
+.+++.+.++-.....++.+-+.+++..+..+.....-+.+
T Consensus 353 ~~l~~~i~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~ 393 (394)
T cd03794 353 EALAAAILELLDDPEERAEMGENGRRYVEEKFSREKLAERL 393 (394)
T ss_pred HHHHHHHHHHHhChHHHHHHHHHHHHHHHHhhcHHHHHHhc
Confidence 46788888887777778888888887777666655554443
No 91
>TIGR00737 nifR3_yhdG putative TIM-barrel protein, nifR3 family. Members of this family show a distant relationship to alpha/beta (TIM) barrel enzymes such as dihydroorotate dehydrogenase and glycolate oxidase.
Probab=23.18 E-value=63 Score=23.90 Aligned_cols=18 Identities=28% Similarity=0.444 Sum_probs=15.6
Q ss_pred chhHHhhcchHHHHHHHH
Q psy16402 23 SLSRAILCNDTLVKKMEE 40 (77)
Q Consensus 23 GLSRAILCND~Lvkklee 40 (77)
.+.|+++.|+.+++++.+
T Consensus 220 migR~~l~~P~l~~~~~~ 237 (319)
T TIGR00737 220 MIGRGALGNPWLFRQIEQ 237 (319)
T ss_pred EEChhhhhCChHHHHHHH
Confidence 678999999999988754
No 92
>PRK15322 invasion protein OrgB; Provisional
Probab=22.74 E-value=2.1e+02 Score=22.03 Aligned_cols=48 Identities=8% Similarity=0.151 Sum_probs=25.5
Q ss_pred HHHhhhhhcchhHHhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16402 14 DDYLQGLNQSLSRAILCNDTLVKKMEELENTEQMYKGLVEHCKKVLKGFL 63 (77)
Q Consensus 14 ~~~~~~~~~GLSRAILCND~LvkkleeLe~t~~~YkgLv~h~k~~Lk~~~ 63 (77)
.-|-+|..+|+-.|+--=+.-+..-+.|.. +.++.+++|++.+|...+
T Consensus 42 ~A~~~GYq~Gl~qa~~~la~~~a~~~~l~~--~l~~~ie~~~r~lls~~L 89 (210)
T PRK15322 42 YAYQEGYEQGMIDALQQVAAYLTDNQTMAW--KWMEKIQIYARELFSAAV 89 (210)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHc
Confidence 457788888887776332222222222222 455566666666555443
No 93
>PF06169 DUF982: Protein of unknown function (DUF982); InterPro: IPR010385 This family consists of several hypothetical proteins from Rhizobium meliloti (Sinorhizobium meliloti), Rhizobium loti (Mesorhizobium loti) and Agrobacterium tumefaciens. The function of this family is unknown.; PDB: 2KPQ_A.
Probab=22.61 E-value=1.7e+02 Score=17.88 Aligned_cols=29 Identities=17% Similarity=0.330 Sum_probs=17.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy16402 46 QMYKGLVEHCKKVLKGFLGILRVYKGCLA 74 (77)
Q Consensus 46 ~~YkgLv~h~k~~Lk~~~~l~~~~k~f~~ 74 (77)
..|..-+..|...+.+....-...+.|.+
T Consensus 37 ~~y~~A~~aC~~Al~g~~~~e~AR~AFi~ 65 (76)
T PF06169_consen 37 PAYRAALRACRAALDGRKPPEDARRAFIA 65 (76)
T ss_dssp HHHHHHHHHHHHHHTT-S-HHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHcCCCCHHHHHHHHHH
Confidence 34666667777777776666666666653
No 94
>PF07851 TMPIT: TMPIT-like protein; InterPro: IPR012926 A number of members of this family are annotated as being transmembrane proteins induced by tumour necrosis factor alpha, but no literature was found to support this. ; GO: 0016021 integral to membrane
Probab=22.41 E-value=3.8e+02 Score=21.51 Aligned_cols=39 Identities=26% Similarity=0.334 Sum_probs=29.4
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16402 32 DTLVKKMEELENTEQMYKGLVEHCKKVLKGFLGILRVYK 70 (77)
Q Consensus 32 D~LvkkleeLe~t~~~YkgLv~h~k~~Lk~~~~l~~~~k 70 (77)
+.|.+.-++||++...|+.-.+...++.+........+|
T Consensus 7 ~eL~~efq~Lqethr~Y~qKleel~~lQ~~C~ssI~~Qk 45 (330)
T PF07851_consen 7 EELQKEFQELQETHRSYKQKLEELSKLQDKCSSSISHQK 45 (330)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 467788888999999999888888877776665554443
No 95
>PF09763 Sec3_C: Exocyst complex component Sec3; InterPro: IPR019160 The exocyst complex is composed of 8 subunits: Exoc1, Exoc2, Exoc3, Exoc4, Exoc5, Exoc6, Exoc7 and Exoc8. This entry represents the subunit Exoc1 (Sec3). Sec3 binds to the C-terminal cytoplasmic domain of GLYT1 (glycine transporter protein 1). Sec3 is the exocyst component that is closest to the plasma membrane docking site and it serves as a spatial landmark in the plasma membrane for incoming secretory vesicles. Sec3 is recruited to the sites of polarised membrane growth through its interaction with Rho1p, a small GTP-binding protein.
Probab=22.36 E-value=4.6e+02 Score=21.78 Aligned_cols=69 Identities=16% Similarity=0.294 Sum_probs=0.0
Q ss_pred HHHHhhhHHHHhhhhhcchhHHhhcchHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHhh
Q psy16402 6 ADALDSLLDDYLQGLNQSLSRAILCNDTLVKKMEELENTEQMYKGLVEHCKKV-LKGFLGILRVYKGCLA 74 (77)
Q Consensus 6 ADAL~~~~~~~~~~~~~GLSRAILCND~LvkkleeLe~t~~~YkgLv~h~k~~-Lk~~~~l~~~~k~f~~ 74 (77)
.+-|...+..+...+..-.++.--.++.-.....++.+.-..|.+|+.++|.+ -..|..+++.|.....
T Consensus 172 ~~~l~~~F~~~~~~~~~~~~~~~~~~~~~~~~h~~~~~~L~~ys~Li~~lK~~d~~~y~~L~~~Y~~~~~ 241 (701)
T PF09763_consen 172 SRFLNNMFKNLVDELLSDKDSFSQSGKLSLPKHSSLHNELLPYSGLILWLKEVDPESYQALIKAYNSSMS 241 (701)
T ss_pred HHHHHHHHHHHHHHHHhhhccccccccCChHHHHHHHHHHHhHHHHHHHHHHcCHHHHHHHHHHHHHHHH
No 96
>TIGR03418 chol_sulf_TF putative choline sulfate-utilization transcription factor. Members of this protein family are transcription factors of the LysR family. Their genes typically are divergently transcribed from choline-sulfatase genes. That enzyme makes choline, a precursor to the osmoprotectant glycine-betaine, available by hydrolysis of choline sulfate.
Probab=22.17 E-value=2.6e+02 Score=19.09 Aligned_cols=21 Identities=14% Similarity=-0.007 Sum_probs=13.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q psy16402 50 GLVEHCKKVLKGFLGILRVYK 70 (77)
Q Consensus 50 gLv~h~k~~Lk~~~~l~~~~k 70 (77)
-+.+++++++..+-++.+..+
T Consensus 63 ~l~~~a~~il~~~~~~~~~~~ 83 (291)
T TIGR03418 63 RLFEAVRAGLDTIDLATAQLR 83 (291)
T ss_pred HHHHHHHHHHHHHHHHHHHHh
Confidence 467788888777666655443
No 97
>PRK00474 rps9p 30S ribosomal protein S9P; Reviewed
Probab=22.09 E-value=91 Score=21.77 Aligned_cols=11 Identities=9% Similarity=0.259 Sum_probs=8.8
Q ss_pred hcchhHHhhcc
Q psy16402 21 NQSLSRAILCN 31 (77)
Q Consensus 21 ~~GLSRAILCN 31 (77)
-+|++||++.=
T Consensus 80 r~aIaraL~~~ 90 (134)
T PRK00474 80 RTAIARGLVEW 90 (134)
T ss_pred HHHHHHHHHHh
Confidence 56999999873
No 98
>cd07626 BAR_SNX9_like The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 9 and Similar Proteins. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. This subfamily consists of SNX9, SNX18, SNX33, and similar proteins. SNX9 is localized to plasma membrane endocytic sites and acts primarily in clathrin-mediated endocytosis, while SNX18 is localized to peripheral endosomal structures, and acts in a trafficking pathway that is clathrin-independent but relies on AP-1 and PACS1. BAR domains for
Probab=21.97 E-value=3.3e+02 Score=19.96 Aligned_cols=10 Identities=30% Similarity=0.328 Sum_probs=5.3
Q ss_pred hhcchhHHhh
Q psy16402 20 LNQSLSRAIL 29 (77)
Q Consensus 20 ~~~GLSRAIL 29 (77)
.|.+||||+-
T Consensus 63 ~~t~Ls~Al~ 72 (199)
T cd07626 63 TSVPLTQAIK 72 (199)
T ss_pred cchHHHHHHH
Confidence 3445666653
No 99
>COG1819 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]
Probab=21.90 E-value=2.2e+02 Score=22.17 Aligned_cols=38 Identities=18% Similarity=0.309 Sum_probs=31.3
Q ss_pred HHhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16402 26 RAILCNDTLVKKMEELENTEQMYKGLVEHCKKVLKGFLG 64 (77)
Q Consensus 26 RAILCND~LvkkleeLe~t~~~YkgLv~h~k~~Lk~~~~ 64 (77)
+.||+|+..-++.+++.+-..-+.| ..++.++|..+..
T Consensus 363 ~~vL~~~~~~~~~~~~~~~~~~~~g-~~~~a~~le~~~~ 400 (406)
T COG1819 363 NEVLADDSYRRAAERLAEEFKEEDG-PAKAADLLEEFAR 400 (406)
T ss_pred HHHhcCHHHHHHHHHHHHHhhhccc-HHHHHHHHHHHHh
Confidence 6789999999999999888888888 7777777776643
No 100
>PRK09448 DNA starvation/stationary phase protection protein Dps; Provisional
Probab=21.71 E-value=2.8e+02 Score=19.12 Aligned_cols=22 Identities=32% Similarity=0.501 Sum_probs=17.8
Q ss_pred HHHHhhhHHHHhhhhhcchhHHh
Q psy16402 6 ADALDSLLDDYLQGLNQSLSRAI 28 (77)
Q Consensus 6 ADAL~~~~~~~~~~~~~GLSRAI 28 (77)
-+.|..+++|| +.++..+.|||
T Consensus 109 ~~~l~~l~~d~-~~~~~~~r~~i 130 (162)
T PRK09448 109 QDHLKALADRY-AIVANDVRKAI 130 (162)
T ss_pred HHHHHHHHHHH-HHHHHHHHHHH
Confidence 46777788887 77888899999
No 101
>PF12583 TPPII_N: Tripeptidyl peptidase II N terminal; InterPro: IPR022232 This entry represents a region of approximately 190 amino acids in length and is found in association with PF00082 from PFAM. The members are serine peptidases belonging to MEROPS peptidase family S8A, tripeptidyl peptidase II (TPPII), clan SB. They are a crucial component of the proteolytic cascade acting downstream of the 26S proteasome in the ubiquitin-proteasome pathway. It is an amino peptidase belonging to the subtilase family removing tripeptides from the free N terminus of oligopeptides. ; PDB: 3LXU_X.
Probab=21.37 E-value=1.5e+02 Score=21.65 Aligned_cols=49 Identities=33% Similarity=0.577 Sum_probs=32.4
Q ss_pred HHHhhhhhcchhHHhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16402 14 DDYLQGLNQSLSRAILCNDTLVKKMEELENTEQMYKGLVEHCKKVLKGFLGILRVYK 70 (77)
Q Consensus 14 ~~~~~~~~~GLSRAILCND~LvkkleeLe~t~~~YkgLv~h~k~~Lk~~~~l~~~~k 70 (77)
|||-.+| |=.=|+= +-|||- |+.+++|..|++---.-|-++..+++...
T Consensus 73 DeY~EaL-----RDfq~~~--iaKle~-e~Ae~vY~el~~~~P~HLpaHla~i~~lD 121 (139)
T PF12583_consen 73 DEYSEAL-----RDFQCSW--IAKLEP-ENAEQVYEELLEAHPDHLPAHLAMIQNLD 121 (139)
T ss_dssp HHHHHHH-----HHHHHHH--HTTS-H-HHHHHHHHHHHHH-TT-THHHHHHHHHHH
T ss_pred HHHHHHH-----HHHHHHH--HHhhCH-HHHHHHHHHHHHHCcchHHHHHHHHHccC
Confidence 5665554 4444543 566766 88899999999887777778888777643
No 102
>KOG4514|consensus
Probab=21.35 E-value=3.3e+02 Score=21.26 Aligned_cols=31 Identities=23% Similarity=0.403 Sum_probs=22.3
Q ss_pred HhhcchHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16402 27 AILCNDTLVKKMEELENTEQMYKGLVEHCKK 57 (77)
Q Consensus 27 AILCND~LvkkleeLe~t~~~YkgLv~h~k~ 57 (77)
-|=|-=.|+.|-||+++..+--++|-.+.+.
T Consensus 180 nIK~~Y~lLAk~EEi~ksm~pv~~La~qir~ 210 (222)
T KOG4514|consen 180 NIKCQYQLLAKAEEITKSMKPVEQLAQQIRQ 210 (222)
T ss_pred hhHHHHHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence 3556667888888888888777777655544
No 103
>cd07601 BAR_APPL The Bin/Amphiphysin/Rvs (BAR) domain of Adaptor protein, Phosphotyrosine interaction, PH domain and Leucine zipper containing proteins. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Adaptor protein, Phosphotyrosine interaction, PH domain and Leucine zipper containing (APPL) proteins are effectors of the small GTPase Rab5 that function in endosome-mediated signaling. They contain BAR, pleckstrin homology (PH) and phosphotyrosine binding (PTB) domains. They form homo- and hetero-oligomers that are mediated by their BAR domains, and are localized to cytoplasmic membranes. Vertebrates contain two APPL proteins, APPL1 and APPL2. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=21.32 E-value=3.2e+02 Score=20.36 Aligned_cols=29 Identities=14% Similarity=0.220 Sum_probs=18.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy16402 45 EQMYKGLVEHCKKVLKGFLGILRVYKGCL 73 (77)
Q Consensus 45 ~~~YkgLv~h~k~~Lk~~~~l~~~~k~f~ 73 (77)
+.--+.|+..|++++.+.-.++.+.+.|.
T Consensus 15 ~~~~~kL~K~c~~~~~a~~~~~~A~~~F~ 43 (215)
T cd07601 15 SSYMNQLLQACKRVYDAQNELKSATQALS 43 (215)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34455667777777777666666666664
No 104
>PRK10896 PTS system sugar transporter subunit IIA; Provisional
Probab=21.15 E-value=99 Score=19.87 Aligned_cols=35 Identities=14% Similarity=0.423 Sum_probs=23.8
Q ss_pred HHhhhhhcchhHHhhcchHHHHHHHHHHHHHHHHHHH
Q psy16402 15 DYLQGLNQSLSRAILCNDTLVKKMEELENTEQMYKGL 51 (77)
Q Consensus 15 ~~~~~~~~GLSRAILCND~LvkkleeLe~t~~~YkgL 51 (77)
.+++-| +-|++.+- |+..+++|.+.++.+++|+-+
T Consensus 118 ~hl~~L-~~l~~~l~-d~~~~~~L~~~~~~~ei~~~l 152 (154)
T PRK10896 118 THLHTL-SLVAKRLA-DKTICRRLRAAQSDEELYQII 152 (154)
T ss_pred HHHHHH-HHHHHHHc-CHHHHHHHHhCCCHHHHHHHH
Confidence 345544 45777554 888999998887777776543
No 105
>KOG0134|consensus
Probab=21.09 E-value=27 Score=28.81 Aligned_cols=19 Identities=26% Similarity=0.335 Sum_probs=16.4
Q ss_pred chhHHhhcchHHHHHHHHH
Q psy16402 23 SLSRAILCNDTLVKKMEEL 41 (77)
Q Consensus 23 GLSRAILCND~LvkkleeL 41 (77)
|+-|.++.|..|++|+.+=
T Consensus 346 g~GR~f~anPDLp~rl~~~ 364 (400)
T KOG0134|consen 346 GYGRPFLANPDLPKRLLNG 364 (400)
T ss_pred EecchhccCCchhHHHHhC
Confidence 5669999999999999763
No 106
>PF13865 FoP_duplication: C-terminal duplication domain of Friend of PRMT1
Probab=20.98 E-value=72 Score=19.82 Aligned_cols=14 Identities=50% Similarity=0.802 Sum_probs=11.0
Q ss_pred hhHHHHhhhHHHHh
Q psy16402 4 TTADALDSLLDDYL 17 (77)
Q Consensus 4 ~TADAL~~~~~~~~ 17 (77)
-||+-||.=||+|.
T Consensus 40 kT~EeLDaELD~Ym 53 (74)
T PF13865_consen 40 KTAEELDAELDAYM 53 (74)
T ss_pred CCHHHHHHHHHHHH
Confidence 47788888888887
No 107
>KOG3443|consensus
Probab=20.96 E-value=3.9e+02 Score=20.41 Aligned_cols=45 Identities=22% Similarity=0.191 Sum_probs=22.6
Q ss_pred cchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy16402 30 CNDTLVKKMEELENTEQMYKGLVEHCKKVLKGFLGILRVYKGCLA 74 (77)
Q Consensus 30 CND~LvkkleeLe~t~~~YkgLv~h~k~~Lk~~~~l~~~~k~f~~ 74 (77)
||-.+++|++....-.--+..-+-..|.=|...+.-+++.|+.++
T Consensus 57 c~~l~~~rl~~as~r~l~H~~tL~emk~DlD~ifrkir~vkg~l~ 101 (184)
T KOG3443|consen 57 CNKLSVKRLDLASERFLQHLITLTEMKLDLDVIFRKIRAVKGKLV 101 (184)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHH
Confidence 667777776654333222222222223335666666666666553
No 108
>PF12551 PHBC_N: Poly-beta-hydroxybutyrate polymerase N terminal; InterPro: IPR022211 This domain family is found in bacteria and eukaryotes, and is approximately 50 amino acids in length. The family is found in association with PF07167 from PFAM, PF00561 from PFAM. There is a single completely conserved residue W that may be functionally important. PHBC is the third enzyme of the poly-beta-hydroxybutyrate biosynthetic pathway.
Probab=20.73 E-value=1.2e+02 Score=18.03 Aligned_cols=30 Identities=37% Similarity=0.352 Sum_probs=24.4
Q ss_pred cchhHHHHhhhHHHHhhhhhcchhHHhhcc
Q psy16402 2 STTTADALDSLLDDYLQGLNQSLSRAILCN 31 (77)
Q Consensus 2 ss~TADAL~~~~~~~~~~~~~GLSRAILCN 31 (77)
++...++||..+.--+-.+..|||-|-+..
T Consensus 2 ~~~~~~~lDr~~~A~lA~~T~GlSPaal~l 31 (46)
T PF12551_consen 2 PTSPFEALDRALHAALARLTGGLSPAALAL 31 (46)
T ss_pred CccHHHHHhHHHHHHHHHHccCcCHHHHHH
Confidence 356678899999999999999999887643
No 109
>cd03795 GT1_like_4 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate residue. This group of glycosyltransferases is most closely related to the previously defined glycosyltransferase family 1 (GT1). The members of this family may transfer UDP, ADP, GDP, or CMP-linked sugars. The diverse enzymatic activities among members of this family reflect a wide range of biological functions. The protein structure available for this family has the GTB topology, one of the two protein topologies observed for nucleotide-sugar-dependent glycosyltransferases. GTB proteins have distinct N- and C- terminal domains each containing a typical Rossmann fold. The two domains have high structural homology despite minimal sequence homolog
Probab=20.69 E-value=2.7e+02 Score=18.73 Aligned_cols=34 Identities=12% Similarity=0.142 Sum_probs=27.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16402 32 DTLVKKMEELENTEQMYKGLVEHCKKVLKGFLGI 65 (77)
Q Consensus 32 D~LvkkleeLe~t~~~YkgLv~h~k~~Lk~~~~l 65 (77)
|.+++.+.++-+..+.++.+-..+.+..+.+|..
T Consensus 320 ~~~~~~i~~l~~~~~~~~~~~~~~~~~~~~~~s~ 353 (357)
T cd03795 320 AALAEAIRRLLEDPELRERLGEAARERAEEEFTA 353 (357)
T ss_pred HHHHHHHHHHHHCHHHHHHHHHHHHHHHHHhcch
Confidence 4589999999888888888888888887776654
No 110
>TIGR00376 DNA helicase, putative. The gene product may represent a DNA helicase. Eukaryotic members of this family have been characterized as binding certain single-stranded G-rich DNA sequences (GGGGT and GGGCT). A number of related proteins are characterized as helicases.
Probab=20.61 E-value=66 Score=26.88 Aligned_cols=33 Identities=33% Similarity=0.683 Sum_probs=25.5
Q ss_pred hhhhcchhHH-----hhcchHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16402 18 QGLNQSLSRA-----ILCNDTLVKKMEELENTEQMYKGLVEHCKK 57 (77)
Q Consensus 18 ~~~~~GLSRA-----ILCND~LvkkleeLe~t~~~YkgLv~h~k~ 57 (77)
.-||-++||| |++|...+. ...+|+.+++|++.
T Consensus 590 rRLNVAlTRAK~~LiIvGn~~~l~-------~~~~~~~li~~~~~ 627 (637)
T TIGR00376 590 RRLNVALTRARRKLIVIGDSRTLS-------NHKFYKRLIEWCKQ 627 (637)
T ss_pred ceeeeehhhhhCceEEEECHHHhc-------cChHHHHHHHHHHH
Confidence 4589999998 677877654 34578999999875
No 111
>PRK13248 phycoerythrobilin:ferredoxin oxidoreductase; Provisional
Probab=20.41 E-value=2.2e+02 Score=22.09 Aligned_cols=61 Identities=18% Similarity=0.177 Sum_probs=49.8
Q ss_pred HHHHhhhHHHHhhhhhcchhHHhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy16402 6 ADALDSLLDDYLQGLNQSLSRAILCNDTLVKKMEELENTEQMYKGLVEHCKKVLKGFLGIL 66 (77)
Q Consensus 6 ADAL~~~~~~~~~~~~~GLSRAILCND~LvkkleeLe~t~~~YkgLv~h~k~~Lk~~~~l~ 66 (77)
.+.+-+..++||+-.-+-+..|--.++.-..++.+.++.=-.|+.-=+-++.||+.+|+-.
T Consensus 180 e~~~~~af~~YL~~y~~l~~~a~~~~~~~~~~i~~~Q~~Y~~yqaenDpar~vL~k~FG~e 240 (253)
T PRK13248 180 ENQLYTSFKEYLDLYLEILFESKEVNIGLQKELINGQNNYLNYRRDNDPARPMLSSLFGKE 240 (253)
T ss_pred HHHHHHHHHHHHHHHHHHHHhCCCCCcccHHHHHHHHHHHHHHHHHcCcHHHHHHHHcChH
Confidence 3566677889999988888888888887777777778877888888888999999998754
No 112
>PTZ00446 vacuolar sorting protein SNF7-like; Provisional
Probab=20.24 E-value=2.5e+02 Score=20.74 Aligned_cols=45 Identities=27% Similarity=0.457 Sum_probs=28.3
Q ss_pred HHHHhhhHHH------HhhhhhcchhHHhhcc---hHHHHHHHHHHHHHHHHHHH
Q psy16402 6 ADALDSLLDD------YLQGLNQSLSRAILCN---DTLVKKMEELENTEQMYKGL 51 (77)
Q Consensus 6 ADAL~~~~~~------~~~~~~~GLSRAILCN---D~LvkkleeLe~t~~~YkgL 51 (77)
.|-.|.+.|| |-..+++-||+.++.+ |.|-..|++||+ +.+=..|
T Consensus 129 idkVd~lmDei~E~~e~~~EIseaLs~~~~~~~DEdELe~ELe~Le~-e~l~~~l 182 (191)
T PTZ00446 129 TQKVEKIIDTIQENKDIQEEINQALSFNLLNNVDDDEIDKELDLLKE-QTMEEKL 182 (191)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCCHHHHHHHHHHHHH-HHHHHHH
Confidence 3445555554 4455666777665433 788899999987 5544444
Done!