Query psy17900
Match_columns 157
No_of_seqs 103 out of 105
Neff 6.1
Searched_HMMs 46136
Date Fri Aug 16 17:01:09 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy17900.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/17900hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2297|consensus 100.0 2E-56 4.3E-61 376.1 13.2 156 1-157 216-371 (412)
2 KOG1461|consensus 99.7 1.4E-16 2.9E-21 144.3 13.1 121 35-157 505-628 (673)
3 smart00515 eIF5C Domain at the 99.2 6.2E-11 1.3E-15 82.4 5.4 47 110-157 1-47 (83)
4 PF02020 W2: eIF4-gamma/eIF5/e 98.6 6.7E-08 1.5E-12 67.4 4.8 36 122-157 2-37 (84)
5 KOG2767|consensus 97.4 0.002 4.3E-08 56.1 10.0 59 99-157 290-349 (400)
6 PF09090 MIF4G_like_2: MIF4G l 94.9 0.35 7.6E-06 39.9 9.9 94 41-141 12-110 (253)
7 KOG1104|consensus 87.4 3.6 7.7E-05 39.3 8.5 93 42-140 502-595 (759)
8 PF02847 MA3: MA3 domain; Int 66.0 42 0.00092 23.3 10.8 48 38-88 1-48 (113)
9 KOG3831|consensus 64.6 30 0.00065 27.3 6.3 73 6-87 28-101 (196)
10 PRK07668 hypothetical protein; 56.4 95 0.0021 26.0 8.4 76 7-89 3-86 (254)
11 smart00544 MA3 Domain in DAP-5 56.2 66 0.0014 22.4 8.4 80 39-134 2-81 (113)
12 smart00509 TFS2N Domain in the 55.4 61 0.0013 21.8 7.4 70 41-114 3-74 (75)
13 PF07842 GCFC: GC-rich sequenc 52.1 68 0.0015 26.4 6.9 110 13-137 14-143 (276)
14 PHA03074 late transcription fa 51.3 1.4E+02 0.003 24.6 8.3 82 54-139 63-146 (225)
15 KOG0886|consensus 50.2 19 0.00041 28.0 3.0 61 5-65 90-159 (167)
16 COG4709 Predicted membrane pro 49.2 13 0.00028 30.1 2.0 24 2-25 15-40 (195)
17 KOG3709|consensus 49.1 18 0.00039 33.8 3.2 27 126-152 406-443 (778)
18 PF04233 Phage_Mu_F: Phage Mu 47.2 32 0.0007 23.9 3.7 27 41-67 2-28 (112)
19 COG5103 CDC39 Cell division co 47.1 56 0.0012 33.8 6.3 56 34-89 597-652 (2005)
20 PF08651 DASH_Duo1: DASH compl 46.5 54 0.0012 22.5 4.6 50 99-149 3-52 (78)
21 TIGR01806 CM_mono2 chorismate 46.1 96 0.0021 22.6 6.2 64 22-89 5-72 (114)
22 PF00286 Flexi_CP: Viral coat 44.4 97 0.0021 23.7 6.1 65 53-118 3-80 (140)
23 PF02583 Trns_repr_metal: Meta 44.2 93 0.002 21.4 5.6 66 44-109 19-85 (85)
24 KOG0898|consensus 41.6 39 0.00084 26.1 3.5 83 8-94 16-107 (152)
25 PRK15039 transcriptional repre 41.4 1.3E+02 0.0027 21.3 6.6 66 44-109 23-88 (90)
26 PRK11352 regulator protein Frm 39.9 1.3E+02 0.0029 21.1 6.7 67 44-110 23-90 (91)
27 cd01046 Rubrerythrin_like rubr 37.3 1.6E+02 0.0034 21.3 10.0 96 12-116 21-122 (123)
28 PF08102 Antimicrobial_7: Scor 34.9 81 0.0018 19.4 3.5 30 81-110 3-35 (43)
29 PF08656 DASH_Dad3: DASH compl 33.6 1.6E+02 0.0035 20.3 5.6 58 37-94 17-75 (78)
30 TIGR03147 cyt_nit_nrfF cytochr 32.8 84 0.0018 23.7 4.1 34 37-70 57-90 (126)
31 PRK10304 ferritin; Provisional 32.3 2.3E+02 0.0051 21.8 8.8 41 13-54 26-66 (165)
32 COG4396 Mu-like prophage host- 31.4 33 0.00072 26.6 1.8 29 107-139 50-78 (170)
33 PF07739 TipAS: TipAS antibiot 31.3 1.1E+02 0.0025 21.1 4.5 42 100-145 57-98 (118)
34 PF03732 Retrotrans_gag: Retro 30.8 1.5E+02 0.0033 19.2 4.9 34 52-85 59-94 (96)
35 PRK10144 formate-dependent nit 30.6 95 0.0021 23.4 4.1 34 37-70 57-90 (126)
36 PHA03056 putative myristoylate 28.3 1.6E+02 0.0034 22.7 4.9 42 46-90 70-111 (165)
37 PF08318 COG4: COG4 transport 28.2 3.8E+02 0.0082 22.8 8.4 38 99-138 88-125 (331)
38 KOG1992|consensus 28.1 1E+02 0.0022 30.4 4.7 64 31-95 351-424 (960)
39 PF00816 Histone_HNS: H-NS his 28.0 1.5E+02 0.0033 20.2 4.6 36 40-77 8-43 (93)
40 PF09424 YqeY: Yqey-like prote 27.9 2.7E+02 0.0058 21.1 7.7 71 41-111 3-88 (143)
41 PF06109 HlyE: Haemolysin E (H 27.8 1.9E+02 0.0042 23.9 5.7 73 59-131 40-116 (299)
42 KOG0310|consensus 27.5 3E+02 0.0064 25.4 7.3 78 77-156 361-442 (487)
43 PF11220 DUF3015: Protein of u 27.4 1.3E+02 0.0027 23.2 4.4 49 21-69 84-135 (144)
44 TIGR01641 phageSPP1_gp7 phage 27.4 86 0.0019 21.9 3.3 26 42-67 1-26 (108)
45 PF13625 Helicase_C_3: Helicas 26.8 1.3E+02 0.0027 21.9 4.2 32 42-74 43-74 (129)
46 PF08542 Rep_fac_C: Replicatio 26.7 1.9E+02 0.0042 19.1 10.7 33 55-88 19-51 (89)
47 PF12554 MOZART1: Mitotic-spin 26.6 1.5E+02 0.0032 18.6 3.8 28 40-67 21-48 (48)
48 KOG1916|consensus 26.0 5.4E+02 0.012 26.2 9.1 12 126-137 1055-1066(1283)
49 KOG3303|consensus 26.0 3.6E+02 0.0077 21.8 7.1 30 91-120 95-131 (192)
50 PF04121 Nup84_Nup100: Nuclear 24.6 1.8E+02 0.004 27.5 5.8 72 13-88 379-450 (697)
51 TIGR01385 TFSII transcription 24.3 4.1E+02 0.009 22.7 7.4 67 43-116 8-78 (299)
52 PF02881 SRP54_N: SRP54-type p 24.2 1.2E+02 0.0025 19.7 3.3 48 36-83 24-73 (75)
53 PF03271 EB1: EB1-like C-termi 23.9 1.4E+02 0.003 18.1 3.3 28 127-154 12-43 (43)
54 PF03918 CcmH: Cytochrome C bi 23.7 1.3E+02 0.0028 23.0 3.8 39 38-76 58-96 (148)
55 PF09832 DUF2059: Uncharacteri 23.5 1.4E+02 0.003 18.8 3.5 28 12-39 11-38 (64)
56 KOG3952|consensus 23.0 1.6E+02 0.0035 24.9 4.5 52 104-155 221-277 (304)
57 PF15508 NAAA-beta: beta subun 22.6 1.8E+02 0.0038 20.2 4.1 26 55-80 64-89 (95)
58 cd07316 terB_like_DjlA N-termi 21.9 2.6E+02 0.0057 18.9 8.2 57 39-95 38-94 (106)
59 PF08747 DUF1788: Domain of un 21.7 3.4E+02 0.0074 20.1 6.2 67 12-88 8-80 (126)
60 KOG1900|consensus 21.3 6.4E+02 0.014 26.3 8.8 93 25-120 1071-1188(1311)
61 PLN03025 replication factor C 21.2 4.9E+02 0.011 21.7 7.8 33 54-87 238-270 (319)
62 PF13324 GCIP: Grap2 and cycli 20.9 2.6E+02 0.0057 23.1 5.5 88 21-111 45-147 (275)
63 PF00745 GlutR_dimer: Glutamyl 20.9 1.2E+02 0.0025 20.7 2.9 36 13-48 13-48 (101)
64 smart00762 Cog4 COG4 transport 20.7 5.3E+02 0.012 21.9 9.2 39 99-139 88-126 (324)
65 PF01320 Colicin_Pyocin: Colic 20.3 3.2E+02 0.0069 19.2 6.3 57 53-110 9-75 (85)
66 TIGR03092 SASP_sspI small, aci 20.2 1.7E+02 0.0036 19.7 3.3 43 8-50 12-64 (65)
No 1
>KOG2297|consensus
Probab=100.00 E-value=2e-56 Score=376.14 Aligned_cols=156 Identities=51% Similarity=0.919 Sum_probs=154.7
Q ss_pred CCCCCCCCCCHHHHHHHHhhcCchhHHHHHHHHhHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHhhcCCChHHHHHH
Q psy17900 1 MEFVPPNKRSDEYFRTVFEEKGLADIVKLHMAQASQEAKKELQEQLEEQISEGASIKDIVADIREIANKHCIPDQELIVL 80 (157)
Q Consensus 1 ~~ffP~~kR~~~~~~~~f~~~gL~~l~~~~~~~~~~~~~kel~~~L~~~i~~~~~~~~ii~~ik~~~~~~~~~~~e~i~~ 80 (157)
|+||||||||.|||.+||.++||.+|++|+++|++++.+||+|+.|++++++|.|.++||..||+.++.+++|+++||++
T Consensus 216 meffPpnkrs~E~Fak~Ft~agL~elvey~~~q~~~~a~kElq~~L~~q~s~e~p~~evi~~VKee~k~~nlPe~eVi~i 295 (412)
T KOG2297|consen 216 MEFFPPNKRSVEHFAKYFTDAGLKELVEYHRNQQSEGARKELQKELQEQVSEEDPVKEVILYVKEEMKRNNLPETEVIGI 295 (412)
T ss_pred HHhcCCcchhHHHHHHHHhHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhcCCCCceEEee
Confidence 68999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHhhhhccchHhHHHHHHHHHHhhHhhHHHHhcCCCcHHHHHHHHHHHHHhhhcchhhHHHHHHHHHHhhcCC
Q psy17900 81 IWSTVMAQVEWNKKEELVAEQALKHLKQFTPLFGAFTDTAPRAELALMLKVQEFCYENMNLMRVFQKIILLFYKRGL 157 (157)
Q Consensus 81 iw~~lm~~v~ws~k~~~~~e~a~~~lkk~~pLL~~F~~~~~~~ql~LL~kvQ~~Cye~~~~mk~F~kil~~LY~~DV 157 (157)
||+++|+.|+||++++++++||+||+|+|+|||++||+++ ++|++||+|||+|||||++|||+||+||++||+.||
T Consensus 296 vWs~iMsaveWnKkeelva~qalrhlK~yaPLL~af~s~g-~sEL~Ll~KvQe~CYen~~fMKaFqkiV~lfYk~dV 371 (412)
T KOG2297|consen 296 VWSGIMSAVEWNKKEELVAEQALRHLKQYAPLLAAFCSQG-QSELELLLKVQEYCYENIHFMKAFQKIVVLFYKADV 371 (412)
T ss_pred eHhhhhHHHhhchHHHHHHHHHHHHHHhhhHHHHHHhcCC-hHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHh
Confidence 9999999999999999999999999999999999999999 999999999999999999999999999999999997
No 2
>KOG1461|consensus
Probab=99.71 E-value=1.4e-16 Score=144.30 Aligned_cols=121 Identities=19% Similarity=0.383 Sum_probs=111.5
Q ss_pred HHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHhhcCCChHHHHHHHHHHHHhhhh---ccchHhHHHHHHHHHHhhHhh
Q psy17900 35 SQEAKKELQEQLEEQISEGASIKDIVADIREIANKHCIPDQELIVLIWSTVMAQVE---WNKKEELVAEQALKHLKQFTP 111 (157)
Q Consensus 35 ~~~~~kel~~~L~~~i~~~~~~~~ii~~ik~~~~~~~~~~~e~i~~iw~~lm~~v~---ws~k~~~~~e~a~~~lkk~~p 111 (157)
...|++|+.++|+|++++++..+.++.+||+++.++|++.+||+++++.++|+.+. .|+-.+ ...++++.+++|+|
T Consensus 505 ~~~F~~Ev~~s~~ra~Een~~~D~~vlEINslRla~N~s~~ev~~av~~all~~~~~~~~~~~~~-~~~~~~~~~~~w~~ 583 (673)
T KOG1461|consen 505 TKDFEKEVLGSLQRAFEENSDMDNLVLEINSLRLAYNVSLKEVAGAVFMALLKLILHQDHSSMNE-VKRAALKVFTQWGP 583 (673)
T ss_pred hHHHHHHHHHHHHHHHHhccchHHHHHHHhhhHHhhcCCHHHHHHHHHHHHHHHHhcCCCccchh-HHHHHHHHHHHhhH
Confidence 35688899999999999999999999999999999999999999999999999984 333333 67799999999999
Q ss_pred HHHHhcCCCcHHHHHHHHHHHHHhhhcchhhHHHHHHHHHHhhcCC
Q psy17900 112 LFGAFTDTAPRAELALMLKVQEFCYENMNLMRVFQKIILLFYKRGL 157 (157)
Q Consensus 112 LL~~F~~~~~~~ql~LL~kvQ~~Cye~~~~mk~F~kil~~LY~~DV 157 (157)
|++.+..+. +.|+++|.+++++|.++..+.+.|.++++.||+.|+
T Consensus 584 l~~~y~ks~-deqid~l~~led~~~e~~~~~~~~~~~v~~lY~~di 628 (673)
T KOG1461|consen 584 LLGNYIKSE-DEQIDLLLALEDKCVESEELGPKAAKLVHYLYDYDI 628 (673)
T ss_pred HhhhhhhhH-HHHHHHHHHHHHHHHhcccchHHHHHHHHHHHHHhH
Confidence 999999999 999999999999999998889999999999999874
No 3
>smart00515 eIF5C Domain at the C-termini of GCD6, eIF-2B epsilon, eIF-4 gamma and eIF-5.
Probab=99.15 E-value=6.2e-11 Score=82.41 Aligned_cols=47 Identities=23% Similarity=0.565 Sum_probs=45.1
Q ss_pred hhHHHHhcCCCcHHHHHHHHHHHHHhhhcchhhHHHHHHHHHHhhcCC
Q psy17900 110 TPLFGAFTDTAPRAELALMLKVQEFCYENMNLMRVFQKIILLFYKRGL 157 (157)
Q Consensus 110 ~pLL~~F~~~~~~~ql~LL~kvQ~~Cye~~~~mk~F~kil~~LY~~DV 157 (157)
+|||++|+++. +.|+++|+++|.||+++..+.+.|++|++.|||.||
T Consensus 1 ~~ll~~~~~~~-~~q~~~L~ale~~~~~~~~~~~~~~~il~~LYd~di 47 (83)
T smart00515 1 GPLLKFLAKDE-EEQIDLLYAIEEFCVELEKLIKLLPKILKSLYDADI 47 (83)
T ss_pred ChHHHHHHCCh-HHHHHHHHHHHHHHHHcchHHHHHHHHHHHHhhhcc
Confidence 58999999999 999999999999999988899999999999999997
No 4
>PF02020 W2: eIF4-gamma/eIF5/eIF2-epsilon; InterPro: IPR003307 This entry represents the W2 domain (two invariant tryptophans) and is a region of ~165 amino acids which is found in the C terminus of the following eIFs [, , , ]: Eukaryotic translation initiation factor 2B epsilon (eIF-2B-epsilon) Eukaryotic translation initiation factor 4 gamma (eIF-4-gamma) Eukaryotic translation initiation factor 5 (eIF-5), a GTPase-activating protein (GAP) specific for eIF2 Translation initiation is a sophisticated, well regulated and highly coordinated cellular process in eukaryotes, in which at least 11 eukayrotic initiation factors (eIFs) are included []. The W2 domain has a globular fold and is exclusively composed out of alpha-helices [, , ]. The structure can be divided into a structural C-terminal core onto which the two N-terminal helices are attached. The core contains two aromatic/acidic residue-rich regions (AA boxes), which are important for mediating protein-protein interactions. For example, the W2 domain of H. sapiens eIF5 binds eIF2-beta, eIF3 and eIF1 [], and therefore plays an important role in multifactor complex assembly. The entry covers the entire W2 domain.; GO: 0005488 binding; PDB: 3D3M_A 3L6A_A 1PAQ_A 2FUL_D 2IU1_A 1UG3_B 3JUI_A.
Probab=98.60 E-value=6.7e-08 Score=67.41 Aligned_cols=36 Identities=36% Similarity=0.691 Sum_probs=34.7
Q ss_pred HHHHHHHHHHHHHhhhcchhhHHHHHHHHHHhhcCC
Q psy17900 122 RAELALMLKVQEFCYENMNLMRVFQKIILLFYKRGL 157 (157)
Q Consensus 122 ~~ql~LL~kvQ~~Cye~~~~mk~F~kil~~LY~~DV 157 (157)
+.|+++|.++|.||+++.++++.|+.|++.|||.||
T Consensus 2 ~~Q~~~L~ale~~~~~~~~~~~~~~~il~~LYd~Di 37 (84)
T PF02020_consen 2 DDQVDLLNALEEFCAENPNLMPLFPKILQQLYDEDI 37 (84)
T ss_dssp HHHHHHHHHHHHHHHHTCGHGGHHHHHHHHHHHTTS
T ss_pred HHHHHHHHHHHHHHHhCccHHHHHHHHHHHHhhhhh
Confidence 689999999999999999999999999999999997
No 5
>KOG2767|consensus
Probab=97.35 E-value=0.002 Score=56.08 Aligned_cols=59 Identities=17% Similarity=0.305 Sum_probs=53.2
Q ss_pred HHHHHHHHhhHhhHHHHhcCCCcHHHHHHHHHHHHHhhhc-chhhHHHHHHHHHHhhcCC
Q psy17900 99 AEQALKHLKQFTPLFGAFTDTAPRAELALMLKVQEFCYEN-MNLMRVFQKIILLFYKRGL 157 (157)
Q Consensus 99 ~e~a~~~lkk~~pLL~~F~~~~~~~ql~LL~kvQ~~Cye~-~~~mk~F~kil~~LY~~DV 157 (157)
.+...+.|.++.++|.+||+.+++.|..||.-|+.+|.-. ..+++.-+.||+.|||.|+
T Consensus 290 ~e~ivkei~k~~~~l~k~~~~~~k~qr~LLggiE~~~~~~~~el~~kva~ilk~lYd~DI 349 (400)
T KOG2767|consen 290 DEKIVKEILKHRALLLKFCTNNEKAQRYLLGGIERFVEKHEAELISKVAGILKELYDEDI 349 (400)
T ss_pred hhHHHHHHHHHHHHHHHHHhccHHHHHHHHhHHHHHHHhhHHHHHHHHHHHHHHHHhhhh
Confidence 5567799999999999999997799999999999999985 4568999999999999986
No 6
>PF09090 MIF4G_like_2: MIF4G like; InterPro: IPR015174 This entry represents an MIF4G-like domain. MIF4G domains share a common structure but can differ in sequence. This entry is designated "type 2", and is found in nuclear cap-binding proteins and eIF4G. The MIF4G domain is a structural motif with an ARM (Armadillo) repeat-type fold, consisting of a 2-layer alpha/alpha right-handed superhelix. Proteins usually contain two or more structurally similar MIF4G domains connected by unstructured linkers. MIF4G domains are found in several proteins involved in RNA metabolism, including eIF4G (eukaryotic initiation factor 4-gamma), eIF-2b (translation initiation factor), UPF2 (regulator of nonsense transcripts 2), and nuclear cap-binding proteins (CBP80, CBC1, NCBP1), although the sequence identity between them may be low []. The nuclear cap-binding complex (CBC) is a heterodimer. Human CBC consists of a large CBP80 subunit and a small CBP20 subunit, the latter being critical for cap binding. CBP80 contains three MIF4G domains connected with long linkers, while CBP20 has an RNP (ribonucleoprotein)-type domain that associates with domains 2 and 3 of CBP80 []. The complex binds to 5'-cap of eukaryotic RNA polymerase II transcripts, such as mRNA and U snRNA. The binding is important for several mRNA nuclear maturation steps and for nonsense-mediated decay. It is also essential for nuclear export of U snRNAs in metazoans []. Eukaryotic translation initiation factor 4 gamma (eIF4G) plays a critical role in protein expression, and is at the centre of a complex regulatory network. Together with the cap-binding protein eIF4E, it recruits the small ribosomal subunit to the 5'-end of mRNA and promotes the assembly of a functional translation initiation complex, which scans along the mRNA to the translation start codon. The activity of eIF4G in translation initiation could be regulated through intra- and inter-protein interactions involving the ARM repeats []. In eIF4G, the MIF4G domain binds eIF4A, eIF3, RNA and DNA.; GO: 0016070 RNA metabolic process; PDB: 3FEY_A 3FEX_A 1H6K_C 1H2V_C 1H2U_A 1H2T_C 1N54_A 1N52_A.
Probab=94.86 E-value=0.35 Score=39.90 Aligned_cols=94 Identities=17% Similarity=0.226 Sum_probs=67.1
Q ss_pred HHHHHHHHHHHcCCCHHHHHHHHHHHHhhcCCC----hHHHHHHHHHHHHhhhhccchHhHHHHHHHHHHhhHhhHHHHh
Q psy17900 41 ELQEQLEEQISEGASIKDIVADIREIANKHCIP----DQELIVLIWSTVMAQVEWNKKEELVAEQALKHLKQFTPLFGAF 116 (157)
Q Consensus 41 el~~~L~~~i~~~~~~~~ii~~ik~~~~~~~~~----~~e~i~~iw~~lm~~v~ws~k~~~~~e~a~~~lkk~~pLL~~F 116 (157)
++.+.|.+.+....+++++..++++.....+-+ +.-.+.++++|++... +| . ---+...|.+|.+.|..+
T Consensus 12 ~~a~~l~~~ir~k~~~eei~~~l~~i~~~~~~~~~~~~~~~i~v~~q~ll~~G---Sk--S-~SH~~~~lery~~~Lk~l 85 (253)
T PF09090_consen 12 ALAQKLLDLIRKKAPPEEISELLEEIEEPAEEHGSDFDKFVIDVFVQCLLHIG---SK--S-FSHVLSALERYKEVLKEL 85 (253)
T ss_dssp HHHHHHHHHHHTT--HHHHHHHHTTS------------HHHHHHHHHHHHHHT---TT--S-HHHHHHHHHHTHHHHHHH
T ss_pred HHHHHHHHHHHcCCCHHHHHHHHHhccccccccccchhhHHHHHHHHHHHHhc---Cc--h-HHHHHHHHHHHHHHHHHh
Confidence 477889999999999999998888776655543 2357888888888765 22 1 225667899999999999
Q ss_pred -cCCCcHHHHHHHHHHHHHhhhcchh
Q psy17900 117 -TDTAPRAELALMLKVQEFCYENMNL 141 (157)
Q Consensus 117 -~~~~~~~ql~LL~kvQ~~Cye~~~~ 141 (157)
+.+. ..|..+|..+-.|.-.|..+
T Consensus 86 ~~~~~-~~q~~il~~v~~~W~~~~q~ 110 (253)
T PF09090_consen 86 EAESE-EAQFWILDAVFRFWKNNPQM 110 (253)
T ss_dssp -TSSH-HHHHHHHHHHHHHHTT-HHH
T ss_pred ccCCh-HHHHHHHHHHHHHHhcCCce
Confidence 8888 99999999999998887654
No 7
>KOG1104|consensus
Probab=87.38 E-value=3.6 Score=39.33 Aligned_cols=93 Identities=17% Similarity=0.213 Sum_probs=70.0
Q ss_pred HHHHHHHHHHcCCCHHHHHHHHHHHHhhcCCCh-HHHHHHHHHHHHhhhhccchHhHHHHHHHHHHhhHhhHHHHhcCCC
Q psy17900 42 LQEQLEEQISEGASIKDIVADIREIANKHCIPD-QELIVLIWSTVMAQVEWNKKEELVAEQALKHLKQFTPLFGAFTDTA 120 (157)
Q Consensus 42 l~~~L~~~i~~~~~~~~ii~~ik~~~~~~~~~~-~e~i~~iw~~lm~~v~ws~k~~~~~e~a~~~lkk~~pLL~~F~~~~ 120 (157)
+..++..++..-.++++++.++|+.-.+...+. .=.|+++.+++++.. +|. -.-+...+.+|..+|.++|-+.
T Consensus 502 ~~~~l~~~~~~k~~~e~~~~iLk~~~~~~~~~~n~~~i~lfvq~~l~lG---SKS---fSH~f~~lek~~~vfk~l~~~~ 575 (759)
T KOG1104|consen 502 VAVQLIVAFREKATAEEIVNILKSEDESEIGSFNRLKIILFVQTLLDLG---SKS---FSHAFSALEKYHTVFKKLCEDS 575 (759)
T ss_pred HHHHHHHHHhccCCHHHHHHHHhcCccccccCCcceehhhHHHHHHHhc---cch---hhhHHHHHHHHHHHHHHHhcCC
Confidence 467889999999999999999993332222222 346788889998886 221 1134678889999999999999
Q ss_pred cHHHHHHHHHHHHHhhhcch
Q psy17900 121 PRAELALMLKVQEFCYENMN 140 (157)
Q Consensus 121 ~~~ql~LL~kvQ~~Cye~~~ 140 (157)
...|+.+|..|=++.-.|..
T Consensus 576 e~~q~~vl~~vft~Wk~n~Q 595 (759)
T KOG1104|consen 576 ETKQIIVLEAVFTFWKANPQ 595 (759)
T ss_pred chhHHHHHHHHHHHHhcCch
Confidence 44499999999999888743
No 8
>PF02847 MA3: MA3 domain; InterPro: IPR003891 This entry represents the MI domain (after MA-3 and eIF4G), it is a protein-protein interaction module of ~130 amino acids [, , ]. It appears in several translation factors and is found in: One copy in plant and animal eIF4G 1 and 2 (DAP-5/NAT1/p97) Two copies in the animal programmed cell death protein 4 (PDCD4) or MA-3 that is induced during programmed cell death and inhibits neoplastic transformation Four tandem-repeated copies in a group of uncharacterised plant proteins The MI domain consists of seven alpha-helices, which pack into a globular form. The packing arrangement consists of repeating pairs of antiparallel helices packed one upon the other such that a superhelical axis is generated perpendicular to the alpha-helical axes []. The MI domain has also been named MA3 domain.; PDB: 2ION_A 2IOL_B 2NSZ_A 3EIQ_C 2HM8_A 2KZT_B 2IOS_A 2RG8_B 2ZU6_E 3EIJ_A ....
Probab=65.97 E-value=42 Score=23.35 Aligned_cols=48 Identities=17% Similarity=0.294 Sum_probs=38.2
Q ss_pred HHHHHHHHHHHHHHcCCCHHHHHHHHHHHHhhcCCChHHHHHHHHHHHHhh
Q psy17900 38 AKKELQEQLEEQISEGASIKDIVADIREIANKHCIPDQELIVLIWSTVMAQ 88 (157)
Q Consensus 38 ~~kel~~~L~~~i~~~~~~~~ii~~ik~~~~~~~~~~~e~i~~iw~~lm~~ 88 (157)
+||.+...|.+.+.. .+.+|.+..|+++..+ --.++++..+..+.|+.
T Consensus 1 ~rk~i~~~l~ey~~~-~d~~ea~~~l~el~~~--~~~~~vv~~~l~~~le~ 48 (113)
T PF02847_consen 1 LRKKIFSILMEYFSS-GDVDEAVECLKELKLP--SQHHEVVKVILECALEE 48 (113)
T ss_dssp HHHHHHHHHHHHHHH-T-HHHHHHHHHHTT-G--GGHHHHHHHHHHHHHTS
T ss_pred ChHHHHHHHHHHhcC-CCHHHHHHHHHHhCCC--ccHHHHHHHHHHHHhhc
Confidence 477888889999877 5899999999887555 56788999998888887
No 9
>KOG3831|consensus
Probab=64.61 E-value=30 Score=27.28 Aligned_cols=73 Identities=12% Similarity=0.225 Sum_probs=50.6
Q ss_pred CCCCCHHHHHHHHhhcCchhHHHHHHHHhHHHHHHHHHHHHHHHHHc-CCCHHHHHHHHHHHHhhcCCChHHHHHHHHHH
Q psy17900 6 PNKRSDEYFRTVFEEKGLADIVKLHMAQASQEAKKELQEQLEEQISE-GASIKDIVADIREIANKHCIPDQELIVLIWST 84 (157)
Q Consensus 6 ~~kR~~~~~~~~f~~~gL~~l~~~~~~~~~~~~~kel~~~L~~~i~~-~~~~~~ii~~ik~~~~~~~~~~~e~i~~iw~~ 84 (157)
.|.|+++.++.-++++|.-..-=|-- -+-=-+.+++++ +.||..++.-+|..-.+.++.+.-...++|+.
T Consensus 28 ~~~~n~~q~r~dlegrgv~~~~ffdi---------aidfiildafedlenppaav~av~kn~~ls~s~k~sal~t~~wsi 98 (196)
T KOG3831|consen 28 LNDENEAQLRLDLEGRGVCCMGFFDI---------AIDFIILDAFEDLENPPAAVLAVLKNRFLSDSFKESALATACWSI 98 (196)
T ss_pred cCcccHHHHHHhhccCceeEechHHH---------HHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46778888888888888643211111 011114455544 47888999999999999999999999999987
Q ss_pred HHh
Q psy17900 85 VMA 87 (157)
Q Consensus 85 lm~ 87 (157)
+=+
T Consensus 99 ika 101 (196)
T KOG3831|consen 99 IKA 101 (196)
T ss_pred HHH
Confidence 643
No 10
>PRK07668 hypothetical protein; Validated
Probab=56.45 E-value=95 Score=26.04 Aligned_cols=76 Identities=18% Similarity=0.264 Sum_probs=52.9
Q ss_pred CCCCH---HHHHHHHhhcCchhHHHHHHHHhHHHHHHHHHHHHHHHHHcCCCHHHHHH-----HHHHHHhhcCCChHHHH
Q psy17900 7 NKRSD---EYFRTVFEEKGLADIVKLHMAQASQEAKKELQEQLEEQISEGASIKDIVA-----DIREIANKHCIPDQELI 78 (157)
Q Consensus 7 ~kR~~---~~~~~~f~~~gL~~l~~~~~~~~~~~~~kel~~~L~~~i~~~~~~~~ii~-----~ik~~~~~~~~~~~e~i 78 (157)
+|++. .++..+++.+|++ .++.++...|+..++.++=++|.+.++++- +.++...+...+..+-.
T Consensus 3 TkeNeefl~~L~~yL~~~gls-------eeeieeiL~Ei~~hLlEgQk~GkTA~~IfG~sPk~yA~EL~~~~~~~~~~~~ 75 (254)
T PRK07668 3 SKEGRKFLDDTRVYLIAKGIK-------EEDIESFLEDAELHLIEGEKDGKTVEDIFGDSPKEYANELVKEMEVDRKENI 75 (254)
T ss_pred CHHHHHHHHHHHHHHHHCCCC-------HHHHHHHHHHHHHHHHHHHHcCCcHHHHhCCCHHHHHHHHhcccCCCcchHH
Confidence 34444 3455677778876 455677888999999999999988777765 35666666666666666
Q ss_pred HHHHHHHHhhh
Q psy17900 79 VLIWSTVMAQV 89 (157)
Q Consensus 79 ~~iw~~lm~~v 89 (157)
..+-.+++..+
T Consensus 76 ~~l~~~ii~~l 86 (254)
T PRK07668 76 KLILFIIIGIL 86 (254)
T ss_pred HHHHHHHHHHH
Confidence 66666666655
No 11
>smart00544 MA3 Domain in DAP-5, eIF4G, MA-3 and other proteins. Highly alpha-helical. May contain repeats and/or regions similar to MIF4G domains Ponting (TIBS) "Novel eIF4G domain homologues" in press
Probab=56.23 E-value=66 Score=22.42 Aligned_cols=80 Identities=11% Similarity=0.171 Sum_probs=54.5
Q ss_pred HHHHHHHHHHHHHcCCCHHHHHHHHHHHHhhcCCChHHHHHHHHHHHHhhhhccchHhHHHHHHHHHHhhHhhHHHHhcC
Q psy17900 39 KKELQEQLEEQISEGASIKDIVADIREIANKHCIPDQELIVLIWSTVMAQVEWNKKEELVAEQALKHLKQFTPLFGAFTD 118 (157)
Q Consensus 39 ~kel~~~L~~~i~~~~~~~~ii~~ik~~~~~~~~~~~e~i~~iw~~lm~~v~ws~k~~~~~e~a~~~lkk~~pLL~~F~~ 118 (157)
+|.+...+.+..+. .+.++++.-++++..+ --.++++..+..+.|+. +. +.-..|+-||..+|+
T Consensus 2 ~k~i~~~l~ey~~~-~D~~ea~~~l~~L~~~--~~~~~vv~~~i~~~le~---~~----------~~~~~~~~Ll~~L~~ 65 (113)
T smart00544 2 KKKIFLIIEEYLSS-GDTDEAVHCLLELKLP--EQHHEVVKVLLTCALEE---KR----------TYREMYSVLLSRLCQ 65 (113)
T ss_pred hhHHHHHHHHHHHc-CCHHHHHHHHHHhCCC--cchHHHHHHHHHHHHcC---Cc----------cHHHHHHHHHHHHHH
Confidence 56777778888866 4889999999988766 25789999999998876 11 122236667777775
Q ss_pred CCcHHHHHHHHHHHHH
Q psy17900 119 TAPRAELALMLKVQEF 134 (157)
Q Consensus 119 ~~~~~ql~LL~kvQ~~ 134 (157)
.+..+.-.+...+...
T Consensus 66 ~~~~~~~~~~~~f~~~ 81 (113)
T smart00544 66 ANVISTKQFEKGFWRL 81 (113)
T ss_pred cCCcCHHHHHHHHHHH
Confidence 4435555555555544
No 12
>smart00509 TFS2N Domain in the N-terminus of transcription elongation factor S-II (and elsewhere).
Probab=55.39 E-value=61 Score=21.76 Aligned_cols=70 Identities=16% Similarity=0.207 Sum_probs=47.1
Q ss_pred HHHHHHHHHHHcCCCHHHHHHHHHHHHhhcCCChHHHHHHHHHHHHhhhh-ccch-HhHHHHHHHHHHhhHhhHHH
Q psy17900 41 ELQEQLEEQISEGASIKDIVADIREIANKHCIPDQELIVLIWSTVMAQVE-WNKK-EELVAEQALKHLKQFTPLFG 114 (157)
Q Consensus 41 el~~~L~~~i~~~~~~~~ii~~ik~~~~~~~~~~~e~i~~iw~~lm~~v~-ws~k-~~~~~e~a~~~lkk~~pLL~ 114 (157)
+....+..+.+++.+.+.++..++.+.. -+++...... +-+...|. ..+. ...+...|...+++|..++.
T Consensus 3 ~~~k~~~k~~~~~~~~~~~l~~L~~L~~-~~~t~~~L~~---T~iG~~v~~Lrkh~~~~I~~~A~~Li~~WK~~v~ 74 (75)
T smart00509 3 RAAKKLDKVANNGKEVSRCLDILKKLKK-LPITVDLLEE---TRIGKKVNGLRKHKNEEIRKLAKKLIKSWKKLVY 74 (75)
T ss_pred HHHHHHHHHhcCCCCHHHHHHHHHHHhc-CCCCHHHHHH---CcHHHHHHHHHcCCcHHHHHHHHHHHHHHHHHhc
Confidence 3556677777777778889988988885 6666655544 23333342 2222 35677799999999998764
No 13
>PF07842 GCFC: GC-rich sequence DNA-binding factor-like protein; InterPro: IPR022783 Sequences in this group are similar to a region of a human GC-rich sequence DNA-binding factor homologue (Q9Y5B6 from SWISSPROT). This is thought to be a protein involved in transcriptional regulation due to partial homologies to a transcription repressor and histone-interacting protein []. This entry also contains tuftelin interacting protein 11 which has been identified as both a nuclear and cytoplasmic protein, and has been implicated in the secretory pathway. Sip1, a septin interacting protein [] is also a member of this family. ; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=52.15 E-value=68 Score=26.37 Aligned_cols=110 Identities=17% Similarity=0.235 Sum_probs=67.0
Q ss_pred HHHHHHhhcCchhHHHHHHHHhHHHHHHHHHHHHHHHHHcC------CCHHHHHHHHHHHHh--------hcCCChHHHH
Q psy17900 13 YFRTVFEEKGLADIVKLHMAQASQEAKKELQEQLEEQISEG------ASIKDIVADIREIAN--------KHCIPDQELI 78 (157)
Q Consensus 13 ~~~~~f~~~gL~~l~~~~~~~~~~~~~kel~~~L~~~i~~~------~~~~~ii~~ik~~~~--------~~~~~~~e~i 78 (157)
.|.+-++..+|+.++.=. +.--+...+.+= ...-+.+..+|+... ..+-+....-
T Consensus 14 ~~~~ey~~~~l~~~~~~~-----------~~P~lr~~l~~W~PL~~p~~~~~~l~~~~~lL~~~~~~~~~~~~~~~~~ye 82 (276)
T PF07842_consen 14 KFPEEYRDAYLSLLAPAL-----------IAPLLRLELQNWDPLEDPSYGVDELKRWRSLLENDQDSSSSSSNRNMTPYE 82 (276)
T ss_pred HCHHHHHHcChHHHHHHH-----------HHHHHHHHHhccCCccCcchHHHHHHHHHHHHhhcccccccccccccCcHH
Confidence 455566667777666522 333333333331 112244555555444 2334446677
Q ss_pred HHHHHHHHhhh------hccchHhHHHHHHHHHHhhHhhHHHHhcCCCcHHHHHHHHHHHHHhhh
Q psy17900 79 VLIWSTVMAQV------EWNKKEELVAEQALKHLKQFTPLFGAFTDTAPRAELALMLKVQEFCYE 137 (157)
Q Consensus 79 ~~iw~~lm~~v------~ws~k~~~~~e~a~~~lkk~~pLL~~F~~~~~~~ql~LL~kvQ~~Cye 137 (157)
.++|..+|-.+ +|+.+ ..+..++.+..|.|+|..++.+. =.+=-++-|++..+.+
T Consensus 83 ~l~w~~~lp~~~~~~~~~w~~~---~~~~~~~ll~~W~~~Lp~~~~~~-ileqlVlPKL~~~V~~ 143 (276)
T PF07842_consen 83 SLIWEIWLPKVRSAIANEWDPR---DPDPDLSLLEAWSPLLPPWILDN-ILEQLVLPKLQAAVEE 143 (276)
T ss_pred HhhHHHHHHHHHHhhhcccCCC---CCchHHHHHHHHHHhCCHHHHHH-HHHHHHHHHHHHHHHh
Confidence 88898888665 36554 34456788999999999998887 4444677788877755
No 14
>PHA03074 late transcription factor VLTF-3; Provisional
Probab=51.27 E-value=1.4e+02 Score=24.61 Aligned_cols=82 Identities=21% Similarity=0.272 Sum_probs=59.3
Q ss_pred CCHHHHHHHHHHHHhhcCCChHHHHHHHHHHHHhhhh-ccchHhHHHHHHHHHHhhHhhHHHHhcCCCcHHHHHHHH-HH
Q psy17900 54 ASIKDIVADIREIANKHCIPDQELIVLIWSTVMAQVE-WNKKEELVAEQALKHLKQFTPLFGAFTDTAPRAELALML-KV 131 (157)
Q Consensus 54 ~~~~~ii~~ik~~~~~~~~~~~e~i~~iw~~lm~~v~-ws~k~~~~~e~a~~~lkk~~pLL~~F~~~~~~~ql~LL~-kv 131 (157)
-=.++||.++-+++..++++..++=....++.+++=+ -++|. -.++-..+.++..---..+++. -.++..|. -+
T Consensus 63 qcs~~ii~ell~lm~kn~i~~~didan~vs~fLK~~~~inkKd---YklvfeiiN~~~~e~lnLttek-Inei~eIFk~l 138 (225)
T PHA03074 63 QCSGEIISELLELMNKNQISTKDVDANFVSSFLKAKERINKKD---YKLVFEIINQVKDEKLNLTTEK-INEVVEIFKHL 138 (225)
T ss_pred HhhHHHHHHHHHHHHHccCChhhhhHHHHHHHHHHHHhcCchh---HHHHHHHHHHhhhhcccccHHH-HHHHHHHHHHH
Confidence 3477999999999999999999999999999998854 34442 1244556666666555577777 55555554 45
Q ss_pred HHHhhhcc
Q psy17900 132 QEFCYENM 139 (157)
Q Consensus 132 Q~~Cye~~ 139 (157)
=-|||+++
T Consensus 139 vfF~qent 146 (225)
T PHA03074 139 VFFCQENT 146 (225)
T ss_pred HHHHhccC
Confidence 66899985
No 15
>KOG0886|consensus
Probab=50.16 E-value=19 Score=28.03 Aligned_cols=61 Identities=20% Similarity=0.339 Sum_probs=47.4
Q ss_pred CCCCCCHHHHHHHHhhcCchhHHHHHHHHhHHHHHHHHHHHHHHHHH---------cCCCHHHHHHHHHH
Q psy17900 5 PPNKRSDEYFRTVFEEKGLADIVKLHMAQASQEAKKELQEQLEEQIS---------EGASIKDIVADIRE 65 (157)
Q Consensus 5 P~~kR~~~~~~~~f~~~gL~~l~~~~~~~~~~~~~kel~~~L~~~i~---------~~~~~~~ii~~ik~ 65 (157)
||.+|....=-.|=-.-.++++++-.+..+...+-+++..++.+.+. +|..|.+|+.+|+.
T Consensus 90 PpRDRKk~knikh~Gni~~deiv~iar~mr~rS~a~~l~gt~keilgt~~svgc~vDgk~Phdi~~~i~~ 159 (167)
T KOG0886|consen 90 PPRDRKKQKNIKHSGNITFDEIVEIARIMRPRSLARELSGTVKEILGTAQSVGCTVDGKHPHDIIDEINA 159 (167)
T ss_pred CcchhhhhccccccCcccHHHHHHHHHHhhhHhhhhhhhhhHHHHhchhhhcccccCCCChHHHHhhhcC
Confidence 67777665544555556788999999999999999999999988774 46778899988864
No 16
>COG4709 Predicted membrane protein [Function unknown]
Probab=49.23 E-value=13 Score=30.10 Aligned_cols=24 Identities=25% Similarity=0.326 Sum_probs=17.2
Q ss_pred CCCCCCCCCH--HHHHHHHhhcCchh
Q psy17900 2 EFVPPNKRSD--EYFRTVFEEKGLAD 25 (157)
Q Consensus 2 ~ffP~~kR~~--~~~~~~f~~~gL~~ 25 (157)
+-+|+..|.+ +++++||.++|.+-
T Consensus 15 ~~Lp~~~r~e~m~dyeehF~~a~~~G 40 (195)
T COG4709 15 EGLPREERREIMYDYEEHFREAQEAG 40 (195)
T ss_pred HhCCHHHHHHHHHHHHHHHHhhhhcC
Confidence 4567777755 78888988876643
No 17
>KOG3709|consensus
Probab=49.10 E-value=18 Score=33.83 Aligned_cols=27 Identities=19% Similarity=0.557 Sum_probs=21.1
Q ss_pred HHHHHHHHHhhhcchh-h----------HHHHHHHHHH
Q psy17900 126 ALMLKVQEFCYENMNL-M----------RVFQKIILLF 152 (157)
Q Consensus 126 ~LL~kvQ~~Cye~~~~-m----------k~F~kil~~L 152 (157)
++|++||.||+.|... - ++|..+|+.+
T Consensus 406 ~~~~riq~~c~sns~~P~~vkV~~IGgd~l~s~vlR~y 443 (778)
T KOG3709|consen 406 HVINRIQNFCHSNSSNPPLVKVGIIGGDKLFSQVLRAY 443 (778)
T ss_pred HHHHHHHHHhhcCCCCCCceEEEEecchHHHHHHHHHH
Confidence 7999999999998643 1 7788887654
No 18
>PF04233 Phage_Mu_F: Phage Mu protein F like protein; InterPro: IPR006528 This domain is found exclusively in phage-related proteins, internally or toward the C terminus. Some of these proteins have been identified as being involved in phage head morphogenesis [, ].
Probab=47.15 E-value=32 Score=23.87 Aligned_cols=27 Identities=19% Similarity=0.432 Sum_probs=24.5
Q ss_pred HHHHHHHHHHHcCCCHHHHHHHHHHHH
Q psy17900 41 ELQEQLEEQISEGASIKDIVADIREIA 67 (157)
Q Consensus 41 el~~~L~~~i~~~~~~~~ii~~ik~~~ 67 (157)
.+++.|.+.|..|.+++++...|++..
T Consensus 2 ~i~~~v~~~i~~G~~~~~~~~~l~~~~ 28 (112)
T PF04233_consen 2 RIRQAVTQGIERGKSPQEIAKRLRDRG 28 (112)
T ss_pred hHHHHHHHHHHcCCCHHHHHHHHHHHh
Confidence 578899999999999999999998884
No 19
>COG5103 CDC39 Cell division control protein, negative regulator of transcription [Cell division and chromosome partitioning / Transcription]
Probab=47.08 E-value=56 Score=33.81 Aligned_cols=56 Identities=13% Similarity=0.265 Sum_probs=51.1
Q ss_pred hHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHhhcCCChHHHHHHHHHHHHhhh
Q psy17900 34 ASQEAKKELQEQLEEQISEGASIKDIVADIREIANKHCIPDQELIVLIWSTVMAQV 89 (157)
Q Consensus 34 ~~~~~~kel~~~L~~~i~~~~~~~~ii~~ik~~~~~~~~~~~e~i~~iw~~lm~~v 89 (157)
.+.+.++|++.-++.+.+.....+.+|..+|+++.+.|--|.|+..+|..|+++--
T Consensus 597 ~~~dIE~E~~sy~q~~y~~~~~I~~~I~~l~~f~~senprd~elfsci~hal~~ey 652 (2005)
T COG5103 597 KEIDIEEEASSYIQQIYNSQRGIESSINQLKEFLRSENPRDKELFSCIFHALLEEY 652 (2005)
T ss_pred cCccHHHHHHHHHHHHHHhcccHHHHHHHHHHHhhcCCcchHHHHHHHHHHHHHHh
Confidence 34578899999999999999999999999999999999999999999999998653
No 20
>PF08651 DASH_Duo1: DASH complex subunit Duo1; InterPro: IPR013960 The DASH complex is a ~10 subunit microtubule-binding complex that is transferred to the kinetochore prior to mitosis []. In Saccharomyces cerevisiae (Baker's yeast) DASH forms both rings and spiral structures on microtubules in vitro [, ].
Probab=46.49 E-value=54 Score=22.52 Aligned_cols=50 Identities=24% Similarity=0.408 Sum_probs=40.7
Q ss_pred HHHHHHHHhhHhhHHHHhcCCCcHHHHHHHHHHHHHhhhcchhhHHHHHHH
Q psy17900 99 AEQALKHLKQFTPLFGAFTDTAPRAELALMLKVQEFCYENMNLMRVFQKII 149 (157)
Q Consensus 99 ~e~a~~~lkk~~pLL~~F~~~~~~~ql~LL~kvQ~~Cye~~~~mk~F~kil 149 (157)
....+..|++..|+++.+..+- +.=..=|.+|+.-|.+-..++..+.+|+
T Consensus 3 L~kEL~~Lr~IN~~ie~~~~~L-~~a~~~~~~v~~~~~~t~~LLd~w~~Il 52 (78)
T PF08651_consen 3 LEKELEQLRKINPVIEGLIETL-RSAKSNMNRVQETVESTNTLLDKWIRIL 52 (78)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3467888889999999998877 5555889999999988878888888777
No 21
>TIGR01806 CM_mono2 chorismate mutase, putative. This model represents a clade of probable chorismate mutases from alpha, beta and gamma proteobacteria as well as Mycobacterium tuberculosis and a clade of nematodes. Although the most likely function for the enzymes represented by this model is as a chorismate mutase, in no species are these enzymes the sole chorismate mutase in the genome. Also, in no case are these enzymes located in a region of the genome proximal to any other enzymes involved in chorismate pathways. Although the Pantoea enzyme has been shown to complement a CM-free mutant of E. coli, this was also shown to be the case with isochorismate-pyruvate lyase which only has a secondary (non-physiologically relevant) chorismate mutase activity. This enzyme is believed to be a homodimer and be localized to the periplasm.
Probab=46.06 E-value=96 Score=22.60 Aligned_cols=64 Identities=8% Similarity=0.184 Sum_probs=37.2
Q ss_pred CchhHHHHHHHHhHHHHHHHHHHHHHH----HHHcCCCHHHHHHHHHHHHhhcCCChHHHHHHHHHHHHhhh
Q psy17900 22 GLADIVKLHMAQASQEAKKELQEQLEE----QISEGASIKDIVADIREIANKHCIPDQELIVLIWSTVMAQV 89 (157)
Q Consensus 22 gL~~l~~~~~~~~~~~~~kel~~~L~~----~i~~~~~~~~ii~~ik~~~~~~~~~~~e~i~~iw~~lm~~v 89 (157)
++++|+++..++..-..+ + +.+.. .|.+-.-.++|+.-+.+...+..++ .+++..+|..+|+..
T Consensus 5 ~~~eLv~Ll~eR~~la~e--V-a~~K~~~~~pI~Dp~RE~~Vl~~~~~~a~~~gL~-~~~i~~if~~Ii~~S 72 (114)
T TIGR01806 5 QLGQLVDAANERLQLADD--V-AGYKARNNLPIEDSPREEQVLDSLRAQAQSAGLD-PDYVTRFFQAQINAN 72 (114)
T ss_pred hHHHHHHHHHHHHHHHHH--H-HHHHHHCCCCCCChHHHHHHHHHHHHHhHcCCCC-HHHHHHHHHHHHHHH
Confidence 567888888766542111 1 11111 1111111237777777777665554 567789999999875
No 22
>PF00286 Flexi_CP: Viral coat protein; InterPro: IPR000052 Potexviruses and Carlaviruses are plant-infecting viruses whose genome consist of a single-stranded RNA molecule encapsided in a coat protein. The genome of many Potexviruses is known and their coat protein sequence has been shown to be rather well conserved []. The same observation applies to the coat protein of a variety of Carlaviruses whose sequences are related to those of Potexviruses [, ]. The coat proteins of Potexviruses and of Carlaviruses contain from 190 to 300 amino acid residues. The best conserved region of these coat proteins is located in the central part.; GO: 0005198 structural molecule activity, 0019028 viral capsid; PDB: 4DOX_B.
Probab=44.43 E-value=97 Score=23.71 Aligned_cols=65 Identities=12% Similarity=0.188 Sum_probs=39.1
Q ss_pred CCCHHHHHHHHHHHHhhcCCChHHHHHHHHHHHHhhhh--------ccchH----hH-HHHHHHHHHhhHhhHHHHhcC
Q psy17900 53 GASIKDIVADIREIANKHCIPDQELIVLIWSTVMAQVE--------WNKKE----EL-VAEQALKHLKQFTPLFGAFTD 118 (157)
Q Consensus 53 ~~~~~~ii~~ik~~~~~~~~~~~e~i~~iw~~lm~~v~--------ws~k~----~~-~~e~a~~~lkk~~pLL~~F~~ 118 (157)
..+..+-+..|...-....+|...+..++|+-.+.-.+ +.+.. .. ..+.+...++..++ |+.||.
T Consensus 3 ~vAt~e~i~~I~~~~~~lgvp~~~~~~~~~~la~~C~d~gSS~~~~~~G~~~~~~g~~~~~la~aiik~~~t-LRqfC~ 80 (140)
T PF00286_consen 3 NVATPEEIAAISAALQGLGVPTESVAKVAWDLARYCADNGSSRYTDPKGTSPFPGGVIRADLAAAIIKEHCT-LRQFCR 80 (140)
T ss_dssp SS--HHHHHHHHHHHHHTT--GGGHHHHHHHHHHHHHHH---TT----SB--SSTT-BHHHHH-HHHHHTTS-HHHHHH
T ss_pred CCCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHhcCCCCCcccccCCcccCCCCccHHHHHHHHHHccCC-HHHHHH
Confidence 34455566667777777999999999999998885553 22322 11 24455577888887 777774
No 23
>PF02583 Trns_repr_metal: Metal-sensitive transcriptional repressor; InterPro: IPR003735 This entry describes proteins of unknown function.; PDB: 2HH7_A 3AAI_A 4ADZ_B.
Probab=44.24 E-value=93 Score=21.37 Aligned_cols=66 Identities=14% Similarity=0.197 Sum_probs=42.0
Q ss_pred HHHHHHHHcCCCHHHHHHHHHHHHhhcCCChHHHHHHHHHHHHhhh-hccchHhHHHHHHHHHHhhH
Q psy17900 44 EQLEEQISEGASIKDIVADIREIANKHCIPDQELIVLIWSTVMAQV-EWNKKEELVAEQALKHLKQF 109 (157)
Q Consensus 44 ~~L~~~i~~~~~~~~ii~~ik~~~~~~~~~~~e~i~~iw~~lm~~v-~ws~k~~~~~e~a~~~lkk~ 109 (157)
..+.+++.+|.+-.+|+.-|...+.+-+--...++.-=...+|... .-.+..+...+..++.|.+|
T Consensus 19 ~gI~~Miee~~~C~dIl~Qi~Av~~Al~~~~~~vl~~hl~~c~~~~~~~~~~~~~~i~el~~~i~ky 85 (85)
T PF02583_consen 19 RGIERMIEEDRDCEDILQQIAAVRSALDKVGKLVLEDHLEHCLVEAIQDEEDREEAIEELIKLIDKY 85 (85)
T ss_dssp HHHHHHHHTTE-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHCCTCCCHHHHHHHHHHHHHH-
T ss_pred HHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhcCcccHHHHHHHHHHHHhcC
Confidence 3467899999999999999999888877555555555444444433 12133444455677777665
No 24
>KOG0898|consensus
Probab=41.63 E-value=39 Score=26.10 Aligned_cols=83 Identities=12% Similarity=0.241 Sum_probs=57.8
Q ss_pred CCCHHHHHHHHhhcCchhHHHHHHHHhHHHHHHHHHHHHHHHHHcCCCHHHHHHHH-HHHHhhcCCChHHHHH------H
Q psy17900 8 KRSDEYFRTVFEEKGLADIVKLHMAQASQEAKKELQEQLEEQISEGASIKDIVADI-REIANKHCIPDQELIV------L 80 (157)
Q Consensus 8 kR~~~~~~~~f~~~gL~~l~~~~~~~~~~~~~kel~~~L~~~i~~~~~~~~ii~~i-k~~~~~~~~~~~e~i~------~ 80 (157)
|||-..| .|++-+|++|.+.-..|.-.-+--.+...|.|.+ ...+-.+|.-+ |....+.....+|+|. +
T Consensus 16 KRTFrkf--tyrGVdld~Lldms~~~~~~l~~ar~rrR~~RGL--~~k~~~liKklrkAkk~A~~~ekpe~VkTHlR~mI 91 (152)
T KOG0898|consen 16 KRTFRKF--TYRGVDLDQLLDMSTEQLVKLFPARQRRRLNRGL--TRKPHSLIKKLRKAKKEAPPMEKPEVVKTHLRNMI 91 (152)
T ss_pred hhhhhhc--cccCCCHHHHhcCCHHHHHHHHHHHHHHHHHccc--ccchHHHHHHHHHHHhhcCcccCcHHHHHHhhcce
Confidence 4554444 4677888999888776666666655666666655 34455677777 6666666677788885 6
Q ss_pred HHHHHHhhh--hccch
Q psy17900 81 IWSTVMAQV--EWNKK 94 (157)
Q Consensus 81 iw~~lm~~v--~ws~k 94 (157)
||+.++.++ -.|+|
T Consensus 92 I~PEMvGs~VGVyNGK 107 (152)
T KOG0898|consen 92 IVPEMVGSMVGVYNGK 107 (152)
T ss_pred eeHhhhcceEEEecCc
Confidence 899999998 48877
No 25
>PRK15039 transcriptional repressor RcnR to maintain nickel and cobalt homeostasis; Provisional
Probab=41.41 E-value=1.3e+02 Score=21.30 Aligned_cols=66 Identities=17% Similarity=0.093 Sum_probs=38.2
Q ss_pred HHHHHHHHcCCCHHHHHHHHHHHHhhcCCChHHHHHHHHHHHHhhhhccchHhHHHHHHHHHHhhH
Q psy17900 44 EQLEEQISEGASIKDIVADIREIANKHCIPDQELIVLIWSTVMAQVEWNKKEELVAEQALKHLKQF 109 (157)
Q Consensus 44 ~~L~~~i~~~~~~~~ii~~ik~~~~~~~~~~~e~i~~iw~~lm~~v~ws~k~~~~~e~a~~~lkk~ 109 (157)
..+.+++++|.+-.+|+.-+.+.+.+-+--..+++..=...++....-++..+...+...+.|++|
T Consensus 23 ~gI~~Miee~~~C~dIl~Ql~Avr~Al~~~~~~vl~~hl~~cv~~~~~~~~~~~~i~el~~~i~~~ 88 (90)
T PRK15039 23 VALKKMLDEPHECAAVLQQIAAIRGAVNGLMREVIKGHLTEHIVHQGDELKREEDLDVVLKVLDSY 88 (90)
T ss_pred HHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccccchHHHHHHHHHHHHHH
Confidence 457889999999999999998888766544444443333322222211122233344555555555
No 26
>PRK11352 regulator protein FrmR; Provisional
Probab=39.89 E-value=1.3e+02 Score=21.13 Aligned_cols=67 Identities=10% Similarity=0.149 Sum_probs=41.7
Q ss_pred HHHHHHHHcCCCHHHHHHHHHHHHhhcCCChHHHHHHHHH-HHHhhhhccchHhHHHHHHHHHHhhHh
Q psy17900 44 EQLEEQISEGASIKDIVADIREIANKHCIPDQELIVLIWS-TVMAQVEWNKKEELVAEQALKHLKQFT 110 (157)
Q Consensus 44 ~~L~~~i~~~~~~~~ii~~ik~~~~~~~~~~~e~i~~iw~-~lm~~v~ws~k~~~~~e~a~~~lkk~~ 110 (157)
..+.++|.+|.+-.+|+.-+.+.+.+-+--...++.-=.. |+.+...-++..+...+...+.+++|.
T Consensus 23 ~gi~~Mie~~~~C~dil~Ql~Avr~Al~~~~~~ile~hl~~cv~~~~~~~~~~~~~i~el~~~i~~~~ 90 (91)
T PRK11352 23 DALERSLEGDAECRAILQQIAAVRGAANGLMAEVLESHIRETFDRNDCYSREVSQSVDDTIELVRAYL 90 (91)
T ss_pred HHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccCccchHHHHHHHHHHHHHHh
Confidence 4578899999999999999999888866444444433333 333332112223455566677777764
No 27
>cd01046 Rubrerythrin_like rubrerythrin-like, diiron-binding domain. Rubrerythrin-like domain, similar to rubrerythrin, a nonheme iron binding domain found in many air-sensitive bacteria and archaea, and member of a broad superfamily of ferritin-like diiron-carboxylate proteins. Rubrerythrin is thought to reduce hydrogen peroxide as part of an oxidative stress protection system. The rubrerythrin protein has two domains, a binuclear metal center located within a four-helix bundle of the rubrerythrin domain, and a rubredoxin domain. The Rubrerythrin-like domains in this CD are singular domains (no C-terminus rubredoxin domain) and are phylogenetically distinct from rubrerythrin domains of rubrerythrin-rubredoxin proteins.
Probab=37.32 E-value=1.6e+02 Score=21.30 Aligned_cols=96 Identities=14% Similarity=0.087 Sum_probs=56.9
Q ss_pred HHHHHHHhhcCchhHHHHHHHHhHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHhhcCCChHHHHHHHHHHHHhhhh-
Q psy17900 12 EYFRTVFEEKGLADIVKLHMAQASQEAKKELQEQLEEQISEGASIKDIVADIREIANKHCIPDQELIVLIWSTVMAQVE- 90 (157)
Q Consensus 12 ~~~~~~f~~~gL~~l~~~~~~~~~~~~~kel~~~L~~~i~~~~~~~~ii~~ik~~~~~~~~~~~e~i~~iw~~lm~~v~- 90 (157)
-.|....+..|++.+..+.+.+..++...- ..+.+.+ .+.+ ..++++....---+..+... ...+.+...
T Consensus 21 ~~~a~~a~~eG~~~~A~~f~~~a~eE~~HA--~~~~~~l-~~i~-----~~~~~~le~a~~~E~~~~~~-~~~~~~~A~~ 91 (123)
T cd01046 21 LAMARVAQREGYPEVAEELKRIAMEEAEHA--ARFAELL-GKVS-----EDTKENLEMMLEGEAGANEG-KKDAATEAKA 91 (123)
T ss_pred HHHHHHHHHCCCHHHHHHHHHHHHHHHHHH--HHHHHHH-hcCc-----ccHHHHHHHHHHhHHHHHHh-HHHHHHHHHH
Confidence 357889999999999999998877766544 3344444 2222 22223333333334444443 344444441
Q ss_pred ---ccch--HhHHHHHHHHHHhhHhhHHHHh
Q psy17900 91 ---WNKK--EELVAEQALKHLKQFTPLFGAF 116 (157)
Q Consensus 91 ---ws~k--~~~~~e~a~~~lkk~~pLL~~F 116 (157)
.... =..+.+....|.+.|..+|..|
T Consensus 92 egd~~~~~~~~~~~~~E~~H~~~~~~~l~~~ 122 (123)
T cd01046 92 EGLDEAHDFFHEAAKDEARHGKMLKGLLERY 122 (123)
T ss_pred cCCHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 2222 1334667889999999998876
No 28
>PF08102 Antimicrobial_7: Scorpion antimicrobial peptide ; InterPro: IPR012526 This family consists of antimicrobial peptides secreted by scorpions. Novel antimicrobial peptides have been isolated from scorpions, namely the opistoporin [] and the pandinin []. These peptides form essentially helical structures and demonstrate high antimicrobial activity against Gram-negative and Gram-positive bacteria respectively.; GO: 0005576 extracellular region
Probab=34.93 E-value=81 Score=19.36 Aligned_cols=30 Identities=23% Similarity=0.613 Sum_probs=22.5
Q ss_pred HHHHHHhhhh--ccch-HhHHHHHHHHHHhhHh
Q psy17900 81 IWSTVMAQVE--WNKK-EELVAEQALKHLKQFT 110 (157)
Q Consensus 81 iw~~lm~~v~--ws~k-~~~~~e~a~~~lkk~~ 110 (157)
+|+.+=+.+. ||+. -+++..+++...+.|.
T Consensus 3 vwd~IK~~Akk~wnS~~~~~Lk~kalnAaknfV 35 (43)
T PF08102_consen 3 VWDWIKSTAKKAWNSDPVQQLKNKALNAAKNFV 35 (43)
T ss_pred HHHHHHHHHHHHhcchHHHHHHHHHHHHHHHHH
Confidence 6777777663 9988 4667778888887774
No 29
>PF08656 DASH_Dad3: DASH complex subunit Dad3; InterPro: IPR013965 The DASH complex is a ~10 subunit microtubule-binding complex that is transferred to the kinetochore prior to mitosis []. In Saccharomyces cerevisiae (Baker's yeast) DASH forms both rings and spiral structures on microtubules in vitro [, ].
Probab=33.59 E-value=1.6e+02 Score=20.32 Aligned_cols=58 Identities=17% Similarity=0.280 Sum_probs=40.9
Q ss_pred HHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHhhcCCChHHHHHHHHHHHHhhh-hccch
Q psy17900 37 EAKKELQEQLEEQISEGASIKDIVADIREIANKHCIPDQELIVLIWSTVMAQV-EWNKK 94 (157)
Q Consensus 37 ~~~kel~~~L~~~i~~~~~~~~ii~~ik~~~~~~~~~~~e~i~~iw~~lm~~v-~ws~k 94 (157)
.--+.+-.++...-..+.|+..+...++++-.+..+=..=+-++||+-++..= +|..+
T Consensus 17 ~~L~~L~~~l~~L~~~~~~~~~lL~~LR~LE~K~glV~TL~KaSVYslvlq~~~~~e~~ 75 (78)
T PF08656_consen 17 DNLKTLSDTLKDLNSSNSPSEELLDGLRELERKIGLVYTLFKASVYSLVLQQEIDNEEE 75 (78)
T ss_pred HHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Confidence 34455667777775567888899999999988877766777777777776543 34444
No 30
>TIGR03147 cyt_nit_nrfF cytochrome c nitrite reductase, accessory protein NrfF.
Probab=32.83 E-value=84 Score=23.69 Aligned_cols=34 Identities=15% Similarity=0.209 Sum_probs=27.4
Q ss_pred HHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHhhc
Q psy17900 37 EAKKELQEQLEEQISEGASIKDIVADIREIANKH 70 (157)
Q Consensus 37 ~~~kel~~~L~~~i~~~~~~~~ii~~ik~~~~~~ 70 (157)
.+-+.+...+.++|.+|.+-++|+.+..+.=-+.
T Consensus 57 ~iA~dmR~~Vr~~i~~G~Sd~eI~~~~v~RYG~~ 90 (126)
T TIGR03147 57 PIAYDLRHEVYSMVNEGKSNQQIIDFMTARFGDF 90 (126)
T ss_pred HHHHHHHHHHHHHHHcCCCHHHHHHHHHHhcCCe
Confidence 4456788999999999999999998887765443
No 31
>PRK10304 ferritin; Provisional
Probab=32.32 E-value=2.3e+02 Score=21.76 Aligned_cols=41 Identities=7% Similarity=0.040 Sum_probs=28.4
Q ss_pred HHHHHHhhcCchhHHHHHHHHhHHHHHHHHHHHHHHHHHcCC
Q psy17900 13 YFRTVFEEKGLADIVKLHMAQASQEAKKELQEQLEEQISEGA 54 (157)
Q Consensus 13 ~~~~~f~~~gL~~l~~~~~~~~~~~~~kel~~~L~~~i~~~~ 54 (157)
.+..+|...||+-+..|.+++..++...-.. -+.+.+..|.
T Consensus 26 ~ma~~~~~~gl~g~A~~f~~qs~EE~~HA~k-l~~~i~~rgg 66 (165)
T PRK10304 26 QMSAWCSYHTFEGAAAFLRRHAQEEMTHMQR-LFDYLTDTGN 66 (165)
T ss_pred HHHHHHhhCCChHHHHHHHHHHHHHHHHHHH-HHHHHHHcCC
Confidence 4678899999999999999887766654332 3334443343
No 32
>COG4396 Mu-like prophage host-nuclease inhibitor protein Gam [General function prediction only]
Probab=31.40 E-value=33 Score=26.63 Aligned_cols=29 Identities=21% Similarity=0.507 Sum_probs=23.2
Q ss_pred hhHhhHHHHhcCCCcHHHHHHHHHHHHHhhhcc
Q psy17900 107 KQFTPLFGAFTDTAPRAELALMLKVQEFCYENM 139 (157)
Q Consensus 107 kk~~pLL~~F~~~~~~~ql~LL~kvQ~~Cye~~ 139 (157)
..|+|-+.+.|... ..|--.||.||..|.
T Consensus 50 e~Yapq~~~lk~EI----~~L~k~vq~yCeanr 78 (170)
T COG4396 50 EEYAPQAAPLKAEI----MSLTKRVQAYCEANR 78 (170)
T ss_pred HHhhhhhHHHHHHH----HHHHHHHHHHHHhCH
Confidence 45999998888766 667788999998864
No 33
>PF07739 TipAS: TipAS antibiotic-recognition domain; InterPro: IPR012925 TipAL is a bacterial transcriptional regulator of the MerR family. The tipA gene can be expressed as a long form, TipAL, and a short form, TipAS, which constitutes the C-terminal part of TipAL. TipAS forms the antibiotic-recognition domain []. This domain, which has an alpha-helical globin-like fold, is also found at the C terminus of other MerR family transcription factors, including Mta, a central regulator of multidrug resistance in Bacillus subtilis [], and SkgA from Caulobacter crescentus []. ; GO: 0003677 DNA binding, 0045892 negative regulation of transcription, DNA-dependent; PDB: 1NY9_A 3HH0_A 3QAO_A.
Probab=31.26 E-value=1.1e+02 Score=21.15 Aligned_cols=42 Identities=12% Similarity=0.256 Sum_probs=25.2
Q ss_pred HHHHHHHhhHhhHHHHhcCCCcHHHHHHHHHHHHHhhhcchhhHHH
Q psy17900 100 EQALKHLKQFTPLFGAFTDTAPRAELALMLKVQEFCYENMNLMRVF 145 (157)
Q Consensus 100 e~a~~~lkk~~pLL~~F~~~~~~~ql~LL~kvQ~~Cye~~~~mk~F 145 (157)
+.+-..+++|..++..|+..+ .+++..+-....+|..|...|
T Consensus 57 ~evq~l~~~~~~~~~~~~~~~----~~~~~~l~~~y~~~~~~~~~~ 98 (118)
T PF07739_consen 57 PEVQELAERWMELINQFTGGD----PELLRGLAQMYVEDPRFAAMY 98 (118)
T ss_dssp HHHHHHHHHHHHHHHHSS-------HHHHHHHHHHTTSTHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHhCCC----HHHHHHHHHHHHcCHHHHhhc
Confidence 355566677888888777755 346666666666666655444
No 34
>PF03732 Retrotrans_gag: Retrotransposon gag protein ; InterPro: IPR005162 Transposable elements (TEs) promote various chromosomal rearrangements more efficiently, and often more specifically, than other cellular processes. Retrotransposons are structurally similar to retroviruses and are bounded by long terminal repeats. This entry represents eukaryotic Gag or capsid-related retrotranspon-related proteins. There is a central motif QGXXEXXXXXFXXLXXH that is common to Retroviridae gag-proteins, but is poorly conserved.
Probab=30.77 E-value=1.5e+02 Score=19.17 Aligned_cols=34 Identities=18% Similarity=0.324 Sum_probs=24.7
Q ss_pred cCCCHHHHHHHHHHHHhhcC--CChHHHHHHHHHHH
Q psy17900 52 EGASIKDIVADIREIANKHC--IPDQELIVLIWSTV 85 (157)
Q Consensus 52 ~~~~~~~ii~~ik~~~~~~~--~~~~e~i~~iw~~l 85 (157)
.+.++.+-+...+++....+ +++.+.+...+.+|
T Consensus 59 ~~esv~~y~~rf~~l~~~~~~~~~e~~~v~~f~~GL 94 (96)
T PF03732_consen 59 GNESVREYVNRFRELARRAPPPMDEEMLVERFIRGL 94 (96)
T ss_pred cCCcHHHHHHHHHHHHHHCCCCcCHHHHHHHHHHCC
Confidence 46778888888888877777 77777777666553
No 35
>PRK10144 formate-dependent nitrite reductase complex subunit NrfF; Provisional
Probab=30.58 E-value=95 Score=23.39 Aligned_cols=34 Identities=18% Similarity=0.221 Sum_probs=27.1
Q ss_pred HHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHhhc
Q psy17900 37 EAKKELQEQLEEQISEGASIKDIVADIREIANKH 70 (157)
Q Consensus 37 ~~~kel~~~L~~~i~~~~~~~~ii~~ik~~~~~~ 70 (157)
.+-+.+...+.+++.+|.+-++|+.+..+.=-+.
T Consensus 57 ~iA~dmR~~Vr~~i~~G~sd~eI~~~~v~RYG~~ 90 (126)
T PRK10144 57 PVAVSMRHQVYSMVAEGKSEVEIIGWMTERYGDF 90 (126)
T ss_pred HHHHHHHHHHHHHHHcCCCHHHHHHHHHHhcCCe
Confidence 4456788899999999999999998887765443
No 36
>PHA03056 putative myristoylated protein; Provisional
Probab=28.30 E-value=1.6e+02 Score=22.75 Aligned_cols=42 Identities=21% Similarity=0.225 Sum_probs=34.0
Q ss_pred HHHHHHcCCCHHHHHHHHHHHHhhcCCChHHHHHHHHHHHHhhhh
Q psy17900 46 LEEQISEGASIKDIVADIREIANKHCIPDQELIVLIWSTVMAQVE 90 (157)
Q Consensus 46 L~~~i~~~~~~~~ii~~ik~~~~~~~~~~~e~i~~iw~~lm~~v~ 90 (157)
|-+....+.+++..+.-||-....+++|+.++ ||.-+|+--+
T Consensus 70 LCKd~l~~~~p~T~~~~IK~Il~qy~IP~S~V---vw~Pia~~cD 111 (165)
T PHA03056 70 LCKDHAEKSSPETQQMIIKHIYEQYLIPVSEV---LLKPMMSMGD 111 (165)
T ss_pred HHHHHHHcCCchHHHHHHHHHHHHhcCChhHH---HHHHHHhhCC
Confidence 44445556778888888999999999999998 9999997764
No 37
>PF08318 COG4: COG4 transport protein; InterPro: IPR013167 This region is found in yeast oligomeric golgi complex component 4 which is involved in ER to Golgi and intra Golgi transport [].
Probab=28.19 E-value=3.8e+02 Score=22.83 Aligned_cols=38 Identities=18% Similarity=0.258 Sum_probs=31.1
Q ss_pred HHHHHHHHhhHhhHHHHhcCCCcHHHHHHHHHHHHHhhhc
Q psy17900 99 AEQALKHLKQFTPLFGAFTDTAPRAELALMLKVQEFCYEN 138 (157)
Q Consensus 99 ~e~a~~~lkk~~pLL~~F~~~~~~~ql~LL~kvQ~~Cye~ 138 (157)
-|.+...|..+.|++..+...+ . =+.+|.++|.-|..-
T Consensus 88 Fe~ia~ii~~h~~lI~~~yG~~-~-~~~vi~~Lq~E~D~q 125 (331)
T PF08318_consen 88 FEHIATIIEQHQPLIEKYYGPG-Y-MVYVIEKLQKECDLQ 125 (331)
T ss_pred HHHHHHHHHHccHHHHHHcCCc-H-HHHHHHHHHHHHHHH
Confidence 4566778888999999998876 5 568999999999874
No 38
>KOG1992|consensus
Probab=28.07 E-value=1e+02 Score=30.44 Aligned_cols=64 Identities=11% Similarity=0.202 Sum_probs=50.7
Q ss_pred HHHhHHHHHHHHHHHHHHHHHcCCCHH----HHHHHHHHHHhhcCCChHHHHHHHHHHHHh------hhhccchH
Q psy17900 31 MAQASQEAKKELQEQLEEQISEGASIK----DIVADIREIANKHCIPDQELIVLIWSTVMA------QVEWNKKE 95 (157)
Q Consensus 31 ~~~~~~~~~kel~~~L~~~i~~~~~~~----~ii~~ik~~~~~~~~~~~e~i~~iw~~lm~------~v~ws~k~ 95 (157)
|..-.+-|+.+-..-.+|.+ +|.+++ .++..+|++.+...-....|++....++|+ +.+|.+|+
T Consensus 351 R~eDeElFED~pleYiRRDl-EGsDvdTRRR~a~dlvrgL~~~fe~~vt~v~~~~v~~~l~~y~~nPS~nWk~kd 424 (960)
T KOG1992|consen 351 REEDEELFEDNPLEYIRRDL-EGSDVDTRRRAAIDLVRGLCKNFEGQVTGVFSSEVQRLLDQYSKNPSGNWKKKD 424 (960)
T ss_pred chhhHHHhccCHHHHHHHhc-ccCCcchhHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhccCCCccccccc
Confidence 33445556666666777777 456655 889999999999999999999999999999 77899884
No 39
>PF00816 Histone_HNS: H-NS histone family Partial NMR structure.; InterPro: IPR001801 The histone-like nucleoid-structuring (H-NS) protein belongs to a family of bacterial proteins that play a role in the formation of nucleoid structure and affect gene expression under certain conditions [].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 2LEV_A 1HNS_A 1LR1_B 1HNR_A 1NI8_A 1OV9_A 2JR1_A 3NR7_A 2L93_A 2L92_A.
Probab=27.97 E-value=1.5e+02 Score=20.24 Aligned_cols=36 Identities=33% Similarity=0.552 Sum_probs=25.4
Q ss_pred HHHHHHHHHHHHcCCCHHHHHHHHHHHHhhcCCChHHH
Q psy17900 40 KELQEQLEEQISEGASIKDIVADIREIANKHCIPDQEL 77 (157)
Q Consensus 40 kel~~~L~~~i~~~~~~~~ii~~ik~~~~~~~~~~~e~ 77 (157)
++++..+.+.-.. ...+++..|++.+..+.++-.|+
T Consensus 8 ~~l~~~~~~~~~~--e~~~~~~~i~~~~~~~Gis~~el 43 (93)
T PF00816_consen 8 KELEKEIEERRKQ--EREEAIAEIRELMAEYGISPEEL 43 (93)
T ss_dssp HHHHHHHHHHHHH--CCHHHHHHHHHHHHHTT--HHHC
T ss_pred HHHHHHHHHHHHH--HHHHHHHHHHHHHHHhCCCHHHh
Confidence 4555555555433 36789999999999999999998
No 40
>PF09424 YqeY: Yqey-like protein; InterPro: IPR019004 Putative protein of unknown function; the authentic protein is detected in highly purified mitochondria in high-throughput studies; YOR215C is not an essential gene. ; PDB: 1NG6_A.
Probab=27.91 E-value=2.7e+02 Score=21.05 Aligned_cols=71 Identities=14% Similarity=0.338 Sum_probs=35.6
Q ss_pred HHHHHHHHHHHcCCCHH-HHHHHHHHHH------hhcCCChHHHHHHHHHHHHhh---hh---ccchHhHH--HHHHHHH
Q psy17900 41 ELQEQLEEQISEGASIK-DIVADIREIA------NKHCIPDQELIVLIWSTVMAQ---VE---WNKKEELV--AEQALKH 105 (157)
Q Consensus 41 el~~~L~~~i~~~~~~~-~ii~~ik~~~------~~~~~~~~e~i~~iw~~lm~~---v~---ws~k~~~~--~e~a~~~ 105 (157)
.+.+.+..+..+..... ++++.+.+-. ....++|.+++.+|=.-+=.. ++ -.+++|+. ....+..
T Consensus 3 ~l~~dlk~AMKakD~~r~~~lr~~~a~i~~~e~~~~~~l~d~~v~~vi~k~iKqr~ea~e~y~~agR~dlae~e~~Ei~i 82 (143)
T PF09424_consen 3 RLRKDLKAAMKAKDKVRLNTLRMLLAAIKNAEKDKGRELTDEEVIAVIRKEIKQRKEAAEQYEKAGRPDLAEKEQAEIEI 82 (143)
T ss_dssp HHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHHTTS---HHHHHHHHHHHHHHHHHHHHHHHHHT-HHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhccHHHHHHHHHHHHHHHHhhhccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence 34555555555543222 4444333322 223688999888876554332 22 23556765 4577788
Q ss_pred HhhHhh
Q psy17900 106 LKQFTP 111 (157)
Q Consensus 106 lkk~~p 111 (157)
|..|-|
T Consensus 83 L~~yLP 88 (143)
T PF09424_consen 83 LEEYLP 88 (143)
T ss_dssp HGGGS-
T ss_pred HHHhCc
Confidence 888888
No 41
>PF06109 HlyE: Haemolysin E (HlyE); InterPro: IPR010356 This family consists of several enterobacterial haemolysin (HlyE) proteins. Haemolysin E (HlyE) is a novel pore-forming toxin of Escherichia coli, Salmonella typhi, and Shigella flexneri. HlyE is unrelated to the well characterised pore-forming E. coli haemolysins of the RTX family, haemolysin A (HlyA), and the enterohaemolysin encoded by the plasmid borne ehxA gene of E. coli 0157. However, it is evident that expression of HlyE in the absence of the RTX toxins is sufficient to give a haemolytic phenotype in E. coli. HlyE is a protein of 34 kDa that is expressed during anaerobic growth of E. coli. Anaerobic expression is controlled by the transcription factor, FNR, such that, upon ingestion and entry into the anaerobic mammalian intestine, HlyE is produced and may then contribute to the colonisation of the host [].; PDB: 2WCD_P 1QOY_A.
Probab=27.81 E-value=1.9e+02 Score=23.85 Aligned_cols=73 Identities=15% Similarity=0.287 Sum_probs=31.4
Q ss_pred HHHHHHHHHhhcCCChHHHHHHHHHHHHhhhh-ccchHhHH---HHHHHHHHhhHhhHHHHhcCCCcHHHHHHHHHH
Q psy17900 59 IVADIREIANKHCIPDQELIVLIWSTVMAQVE-WNKKEELV---AEQALKHLKQFTPLFGAFTDTAPRAELALMLKV 131 (157)
Q Consensus 59 ii~~ik~~~~~~~~~~~e~i~~iw~~lm~~v~-ws~k~~~~---~e~a~~~lkk~~pLL~~F~~~~~~~ql~LL~kv 131 (157)
-+.++-..+.++.-+-.-+||-|=+-+|++-+ .=...+.+ ..-+...+..|-.||..|-.....+|-.+|.++
T Consensus 40 tikelsrfk~eysq~as~lvg~ik~llm~sqd~yfeatq~vyewcgv~tqll~ay~~lf~ey~ekkasaqk~ilikv 116 (299)
T PF06109_consen 40 TIKELSRFKQEYSQSASTLVGDIKSLLMNSQDRYFEATQTVYEWCGVTTQLLTAYISLFNEYNEKKASAQKDILIKV 116 (299)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTSS--TTTHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHhHHHHHHHHHHHHhcchHhHHHHHHHHHHHHhHHHHHHHHHHHHHHHhhhhhhhhccceehhh
Confidence 33344444445555555555656566665531 00000111 222334444555555555544335555555544
No 42
>KOG0310|consensus
Probab=27.52 E-value=3e+02 Score=25.39 Aligned_cols=78 Identities=21% Similarity=0.166 Sum_probs=53.5
Q ss_pred HHHHHHHHHHhhh-hccchHhHHHHHHHHHHhhHhhHHHHhcCCCcHHHHHHHHHHHHHhhhcchhhHHH---HHHHHHH
Q psy17900 77 LIVLIWSTVMAQV-EWNKKEELVAEQALKHLKQFTPLFGAFTDTAPRAELALMLKVQEFCYENMNLMRVF---QKIILLF 152 (157)
Q Consensus 77 ~i~~iw~~lm~~v-~ws~k~~~~~e~a~~~lkk~~pLL~~F~~~~~~~ql~LL~kvQ~~Cye~~~~mk~F---~kil~~L 152 (157)
+-..=|...|++| +-++.++++. .+++.|-.=+.|-.+...-...++-.+|+=++.||++-. |+++| ..++.-+
T Consensus 361 Lk~F~~kkALd~vl~~~~~pelvv-avl~eL~~Rg~l~~AL~grde~eL~~lLnfl~~~l~~~r-f~~~L~~~~~~iLd~ 438 (487)
T KOG0310|consen 361 LKQFKHKKALDHVLEPKKDPELVV-AVLSELVHRGGLRRALAGRDESELAPLLNFLVKNLTVVR-FASILMEVVSVILDL 438 (487)
T ss_pred HhhhhHHHHHHHHhcccCChhHHH-HHHHHHHHhhHHHHHhcCccHHHHHHHHHHHHhhccchh-hHHHHHHHHHHHHHH
Confidence 4455566666666 3344567777 888889889999999998773555568889999998843 33333 4455666
Q ss_pred hhcC
Q psy17900 153 YKRG 156 (157)
Q Consensus 153 Y~~D 156 (157)
|..|
T Consensus 439 Y~~~ 442 (487)
T KOG0310|consen 439 YARD 442 (487)
T ss_pred HHhh
Confidence 7654
No 43
>PF11220 DUF3015: Protein of unknown function (DUF3015); InterPro: IPR021383 This bacterial family of proteins has no known function.
Probab=27.44 E-value=1.3e+02 Score=23.20 Aligned_cols=49 Identities=12% Similarity=0.192 Sum_probs=35.5
Q ss_pred cCchhHHHHHHH--HhHHHHHHHHHHHHHHHHHcCC-CHHHHHHHHHHHHhh
Q psy17900 21 KGLADIVKLHMA--QASQEAKKELQEQLEEQISEGA-SIKDIVADIREIANK 69 (157)
Q Consensus 21 ~gL~~l~~~~~~--~~~~~~~kel~~~L~~~i~~~~-~~~~ii~~ik~~~~~ 69 (157)
+-|+.|..++.- .....|.+.+++.+.+.+..+. ++++++..|...+..
T Consensus 84 E~L~ala~llgv~~~d~~~f~~~~q~nF~~if~s~~~t~~~v~~~i~~~~~~ 135 (144)
T PF11220_consen 84 EHLDALAELLGVPAEDRAAFGAVLQENFASIFPSESVTSEEVLDNIVAVMAG 135 (144)
T ss_pred chHHHHHHHhCCCHhhHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHhc
Confidence 446666666655 5677788888888888887764 777888877776654
No 44
>TIGR01641 phageSPP1_gp7 phage putative head morphogenesis protein, SPP1 gp7 family. This model describes a region of about 110 amino acids found exclusively in phage-related proteins, internally or toward the C-terminus. One member, gp7 of phage SPP1, appears involved in head morphogenesis.
Probab=27.43 E-value=86 Score=21.88 Aligned_cols=26 Identities=12% Similarity=0.353 Sum_probs=22.8
Q ss_pred HHHHHHHHHHcCCCHHHHHHHHHHHH
Q psy17900 42 LQEQLEEQISEGASIKDIVADIREIA 67 (157)
Q Consensus 42 l~~~L~~~i~~~~~~~~ii~~ik~~~ 67 (157)
++..|.+.+..|.++++|...|++..
T Consensus 1 ~~~~l~~gi~~G~~~~~iak~i~~~~ 26 (108)
T TIGR01641 1 VEDILADGVQRGLGPNELAKRLRKEL 26 (108)
T ss_pred ChHHHHHHHHcCCCHHHHHHHHHHHH
Confidence 35778999999999999999998776
No 45
>PF13625 Helicase_C_3: Helicase conserved C-terminal domain
Probab=26.80 E-value=1.3e+02 Score=21.90 Aligned_cols=32 Identities=19% Similarity=0.306 Sum_probs=26.5
Q ss_pred HHHHHHHHHHcCCCHHHHHHHHHHHHhhcCCCh
Q psy17900 42 LQEQLEEQISEGASIKDIVADIREIANKHCIPD 74 (157)
Q Consensus 42 l~~~L~~~i~~~~~~~~ii~~ik~~~~~~~~~~ 74 (157)
-...|.++++.|.+.++|+..++... .+.+|+
T Consensus 43 T~~Sl~~A~~~G~~~e~i~~~L~~~S-~~~lP~ 74 (129)
T PF13625_consen 43 TPASLWRAASAGLTAEEIIEFLERYS-KNPLPQ 74 (129)
T ss_pred CHHHHHHHHHcCCCHHHHHHHHHHHc-CCCCCH
Confidence 36789999999999999999998876 556665
No 46
>PF08542 Rep_fac_C: Replication factor C C-terminal domain; InterPro: IPR013748 Replication factor C (RFC) is a multimeric AAA+ protein complex that loads the DNA polymerase processivity clamp PCNA (Proliferating Cell Nuclear Antigen) onto DNA using ATP to drive the reaction []. PCNA functions at multiple levels in directing DNA metabolic pathways []. When bound to DNA, PCNA organises various proteins involved in DNA replication, DNA repair, DNA modification, and chromatin modelling. Replication factor C consists of five subunits in a spiral arrangement: Rfc1, Rfc2, Rfc3, Rfc4, and Rfc5 subunits. Rfc1 and Rfc2 load the PCNA sliding clamp onto DNA, while Rfc3 binds ATP and also acts as a checkpoint sensor. The RFC complex contains four ATP sites (sites A, B, C, and D) located at subunit interfaces. In each ATP site, an arginine residue from one subunit is located near the gamma-phosphate of ATP bound in the adjacent subunit. These arginine residues act as "arginine fingers" that can potentially perform two functions: sensing that ATP is bound and catalyzing ATP hydrolysis []. This entry represents the core domain found in Rfc1-5.; GO: 0003689 DNA clamp loader activity, 0005524 ATP binding, 0006260 DNA replication, 0005663 DNA replication factor C complex; PDB: 1SXJ_B 2CHG_B 2CHV_F 2CHQ_C 1IQP_A.
Probab=26.73 E-value=1.9e+02 Score=19.06 Aligned_cols=33 Identities=6% Similarity=0.187 Sum_probs=17.6
Q ss_pred CHHHHHHHHHHHHhhcCCChHHHHHHHHHHHHhh
Q psy17900 55 SIKDIVADIREIANKHCIPDQELIVLIWSTVMAQ 88 (157)
Q Consensus 55 ~~~~ii~~ik~~~~~~~~~~~e~i~~iw~~lm~~ 88 (157)
+.+++...+++.... .++-.+++.-+...++..
T Consensus 19 ~~~~~~~~~~~l~~~-G~s~~~Il~~l~~~l~~~ 51 (89)
T PF08542_consen 19 DFKEARKKLYELLVE-GYSASDILKQLHEVLVES 51 (89)
T ss_dssp CHHHHHHHHHHHHHT-T--HHHHHHHHHHHHHTS
T ss_pred CHHHHHHHHHHHHHc-CCCHHHHHHHHHHHHHHh
Confidence 555555555555555 555555555555555554
No 47
>PF12554 MOZART1: Mitotic-spindle organizing gamma-tubulin ring associated; InterPro: IPR022214 This family of proteins is found in eukaryotes. Proteins in this family are typically between 71 and 105 amino acids in length. There is a single completely conserved residue L that may be functionally important.
Probab=26.56 E-value=1.5e+02 Score=18.63 Aligned_cols=28 Identities=21% Similarity=0.243 Sum_probs=22.5
Q ss_pred HHHHHHHHHHHHcCCCHHHHHHHHHHHH
Q psy17900 40 KELQEQLEEQISEGASIKDIVADIREIA 67 (157)
Q Consensus 40 kel~~~L~~~i~~~~~~~~ii~~ik~~~ 67 (157)
++--....+.+..|.+|+.+..-||+.+
T Consensus 21 ~etL~ici~L~e~GVnPeaLA~vI~elr 48 (48)
T PF12554_consen 21 RETLSICIELCENGVNPEALAAVIKELR 48 (48)
T ss_pred HHHHHHHHHHHHCCCCHHHHHHHHHHhC
Confidence 4566677888999999998888888753
No 48
>KOG1916|consensus
Probab=26.03 E-value=5.4e+02 Score=26.23 Aligned_cols=12 Identities=8% Similarity=0.354 Sum_probs=6.1
Q ss_pred HHHHHHHHHhhh
Q psy17900 126 ALMLKVQEFCYE 137 (157)
Q Consensus 126 ~LL~kvQ~~Cye 137 (157)
.+|=.++--|..
T Consensus 1055 sviPafEKScqa 1066 (1283)
T KOG1916|consen 1055 SVIPAFEKSCQA 1066 (1283)
T ss_pred hccHHHHHHHHH
Confidence 344455555554
No 49
>KOG3303|consensus
Probab=25.97 E-value=3.6e+02 Score=21.83 Aligned_cols=30 Identities=10% Similarity=0.360 Sum_probs=23.4
Q ss_pred ccch---HhH----HHHHHHHHHhhHhhHHHHhcCCC
Q psy17900 91 WNKK---EEL----VAEQALKHLKQFTPLFGAFTDTA 120 (157)
Q Consensus 91 ws~k---~~~----~~e~a~~~lkk~~pLL~~F~~~~ 120 (157)
|+.. +.. +.......++.|+.+|..|-..-
T Consensus 95 W~~g~~lps~i~~sls~~E~eyf~~Ys~~La~y~~~~ 131 (192)
T KOG3303|consen 95 WSYGLDLPSSIRFSLSHEEEEYFKNYSNLLAEYMGPL 131 (192)
T ss_pred HhcCCCccHHHHHhhhHHHHHHHHHHHHHHHHHhcCc
Confidence 8866 222 24578999999999999998875
No 50
>PF04121 Nup84_Nup100: Nuclear pore protein 84 / 107 ; InterPro: IPR007252 Nup84p forms a complex with five proteins, including Nup120p, Nup85p, Sec13p, and a Sec13p homolog. This Nup84p complex in conjunction with Sec13-type proteins is required for correct nuclear pore biogenesis [].; GO: 0006810 transport, 0005643 nuclear pore; PDB: 3CQC_A 3CQG_A 3I4R_A 3IKO_I 3JRO_C.
Probab=24.63 E-value=1.8e+02 Score=27.45 Aligned_cols=72 Identities=14% Similarity=0.193 Sum_probs=21.8
Q ss_pred HHHHHHhhcCchhHHHHHHHHhHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHhhcCCChHHHHHHHHHHHHhh
Q psy17900 13 YFRTVFEEKGLADIVKLHMAQASQEAKKELQEQLEEQISEGASIKDIVADIREIANKHCIPDQELIVLIWSTVMAQ 88 (157)
Q Consensus 13 ~~~~~f~~~gL~~l~~~~~~~~~~~~~kel~~~L~~~i~~~~~~~~ii~~ik~~~~~~~~~~~e~i~~iw~~lm~~ 88 (157)
...+++..+|+.+||++|..+-.....-++=..+...|.+.......+ +.++...++-..++..++.-+++.
T Consensus 379 ~Yi~~L~~~~~~~LIplY~S~L~~~~~~e~ys~~L~~i~d~~~R~~~L----~la~~~gld~~~i~k~~v~~v~~~ 450 (697)
T PF04121_consen 379 AYISYLRSAGLYELIPLYASFLPEERAIEVYSRFLISITDPEEREKQL----ELAKKLGLDVSAILKRTVERVFED 450 (697)
T ss_dssp HHHHHHHHTT-GGGHHHHHTTGGGGGG-------------------------------------------------
T ss_pred HHHHHHHHCCCcccHHHHHccCCHHHHHHHHHHHHHhcCChHHHHHHH----HHHHHcCCCHHHHHHHHHHHHHhc
Confidence 345788999999999999998777777777777777775544333333 445556666555555555544443
No 51
>TIGR01385 TFSII transcription elongation factor S-II. This model represents eukaryotic transcription elongation factor S-II. This protein allows stalled RNA transcription complexes to perform a cleavage of the nascent RNA and restart at the newly generated 3-prime end.
Probab=24.25 E-value=4.1e+02 Score=22.70 Aligned_cols=67 Identities=10% Similarity=0.162 Sum_probs=43.2
Q ss_pred HHHHHHHHHcCCCHHHHHHHHHHHHhhcCCChHHH----HHHHHHHHHhhhhccchHhHHHHHHHHHHhhHhhHHHHh
Q psy17900 43 QEQLEEQISEGASIKDIVADIREIANKHCIPDQEL----IVLIWSTVMAQVEWNKKEELVAEQALKHLKQFTPLFGAF 116 (157)
Q Consensus 43 ~~~L~~~i~~~~~~~~ii~~ik~~~~~~~~~~~e~----i~~iw~~lm~~v~ws~k~~~~~e~a~~~lkk~~pLL~~F 116 (157)
...|..+.. +.+.+.++..++.+.. .++|..=+ ||.....+=++ + .+.+...|...|++|+.++..=
T Consensus 8 ~k~L~k~~~-~~~~~~~l~~L~~L~~-~~~t~~lL~~T~IG~~Vn~lrkh----~-~~~I~~lAk~li~~WK~~v~~~ 78 (299)
T TIGR01385 8 AKALDKNKS-SKNVEQCLDILHQLKE-FPPTEELLQETKVGVKVNKLRKH----P-NEDISKLAKKIIKSWKKVVDKN 78 (299)
T ss_pred HHHhhhhcc-CCCHHHHHHHHHHHhc-CCCcHHHHhhCchhHHHHHHHcC----C-cHHHHHHHHHHHHHHHHHHhhh
Confidence 344555544 5777889999999886 66666332 23332222221 1 3447779999999999999874
No 52
>PF02881 SRP54_N: SRP54-type protein, helical bundle domain; InterPro: IPR013822 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]. SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the N-terminal helical bundle domain of the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species. These proteins include Escherichia coli and Bacillus subtilis ffh protein (P48), which seems to be the prokaryotic counterpart of SRP54; signal recognition particle receptor alpha subunit (docking protein), an integral membrane GTP-binding protein which ensures, in conjunction with SRP, the correct targeting of nascent secretory proteins to the endoplasmic reticulum membrane; bacterial FtsY protein, which is believed to play a similar role to that of the docking protein in eukaryotes; the pilA protein from Neisseria gonorrhoeae, the homologue of ftsY; and bacterial flagellar biosynthesis protein flhF.; GO: 0005525 GTP binding, 0006614 SRP-dependent cotranslational protein targeting to membrane; PDB: 1J8M_F 1J8Y_F 2J37_W 2OG2_A 3B9Q_A 2V3C_C 3NDB_B 1ZU5_B 1ZU4_A 1WGW_A ....
Probab=24.23 E-value=1.2e+02 Score=19.65 Aligned_cols=48 Identities=23% Similarity=0.254 Sum_probs=26.3
Q ss_pred HHHHHHHHHHHHHHHHcCCCHHHHHHHHHH-HHhhcCCCh-HHHHHHHHH
Q psy17900 36 QEAKKELQEQLEEQISEGASIKDIVADIRE-IANKHCIPD-QELIVLIWS 83 (157)
Q Consensus 36 ~~~~kel~~~L~~~i~~~~~~~~ii~~ik~-~~~~~~~~~-~e~i~~iw~ 83 (157)
+.+-++++..|..+--.=.....|+..|+. ......+.. .++..++..
T Consensus 24 ~~~l~ele~~Li~aDVg~~~a~~i~~~ik~~~~~~~~~~~~~~v~~~l~~ 73 (75)
T PF02881_consen 24 EEFLEELEEALIEADVGVEVAEKIIENIKKKLIKKKGINPREEVKKALKE 73 (75)
T ss_dssp HHHHHHHHHHHHHTTTSHHHHHHHHHHHHHHHHCTTSSHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHcCcCHHHHHHHHHHHHHHHhcccCCCcHHHHHHHHHH
Confidence 444456666655443222333477777777 555555555 455555544
No 53
>PF03271 EB1: EB1-like C-terminal motif; InterPro: IPR004953 A group of microtubule-associated proteins called +TIPs (plus end tracking proteins), including EB1 (end-binding protein 1) family proteins, label growing microtubules ends specifically in diverse organisms and are implicated in spindle dynamics, chromosome segregation, and directing microtubules toward cortical sites. EB1 members have a bipartite composition: the N-terminal CH domain (IPR001715 from INTERPRO) mediates microtubule plus end localization and a C-terminal cargo binding domain (EB1-C) that captures cell polarity determinants. The EB1-C domain comprises a unique EB1-like sequence motif that acts as a binding site for other +TIP proteins. It interacts with the carboxy terminus of the adenomatous polyposis coli (APC) tumor suppressor, a well conserved +TIP phosphoprotein with a pivotal function in cell cycle regulation. Another binding partner of the EB1-C domain is the well conserved +TIP protein dynactin, a component of the large cytoplasmic dynein/dynactin complex [, , ]. The ~80-residue EB1-C domain starts with a long smoothly curved helix (alpha1), which is followed by a hairpin connection leading to a short second helix (alpha2) running antiparallel to alpha1. The two parallel alpha1 helices of the EB1-C domain dimer wrap around each other in a slightly left-handed supercoil. The two alpha2 helices run antiparallel to helices alpha1 and form a similar fork in the opposite orientation and rotated by 90 degrees. As a result, two helical segments from each monomer form a four-helix bundle. The side chain forming the hydrophobic core of this bundle are highly conserved [, , ]. Some protein known to contain an EB1-C domain are listed below: Yeast protein BIM1. Fission yeast microtubule integrity protein mal3. Vertebrate microtubule-associated protein RP/EB family member 1 (EB1). Vertebrate microtubule-associated protein RP/EB family member 2 (EB2 or RP1). Vertebrate microtubule-associated protein RP/EB family member 3 (EBF3). ; GO: 0008017 microtubule binding; PDB: 3TQ7_B 4E61_B 2HKQ_A 1YIG_B 3GJO_B 2HL5_B 1YIB_A 1WU9_A 1TXQ_B.
Probab=23.88 E-value=1.4e+02 Score=18.12 Aligned_cols=28 Identities=21% Similarity=0.408 Sum_probs=18.5
Q ss_pred HHHHHHHHhhh-cc---hhhHHHHHHHHHHhh
Q psy17900 127 LMLKVQEFCYE-NM---NLMRVFQKIILLFYK 154 (157)
Q Consensus 127 LL~kvQ~~Cye-~~---~~mk~F~kil~~LY~ 154 (157)
=|..|+..|.+ +. ....+-.+|..+||.
T Consensus 12 KLR~IE~l~q~~~~~~~~~~~~~~~I~~ILYa 43 (43)
T PF03271_consen 12 KLRDIEILCQEANESENEPKDLIKKIQEILYA 43 (43)
T ss_dssp HHHHHHHHHHHHCHHCCTC--HHHHHHHHHHC
T ss_pred HHHHHHHHHhhccccCcchhHHHHHHHHHhcC
Confidence 36678888888 21 223366899999994
No 54
>PF03918 CcmH: Cytochrome C biogenesis protein; InterPro: IPR005616 Members of this family include NrfF, CcmH, CycL, Ccl2.; PDB: 2KW0_A 2HL7_A.
Probab=23.67 E-value=1.3e+02 Score=23.03 Aligned_cols=39 Identities=15% Similarity=0.323 Sum_probs=27.1
Q ss_pred HHHHHHHHHHHHHHcCCCHHHHHHHHHHHHhhcCCChHH
Q psy17900 38 AKKELQEQLEEQISEGASIKDIVADIREIANKHCIPDQE 76 (157)
Q Consensus 38 ~~kel~~~L~~~i~~~~~~~~ii~~ik~~~~~~~~~~~e 76 (157)
.=+++...+.+++.+|.+.++|+.+..+.=-+.-+-.+.
T Consensus 58 ~A~dmR~~I~~~l~~G~s~~eI~~~~v~rYG~~Vl~~Pp 96 (148)
T PF03918_consen 58 IARDMRREIREMLAEGKSDEEIIDYFVERYGEFVLYEPP 96 (148)
T ss_dssp HHHHHHHHHHHHHHHT--HHHHHHHHHHHHTTT-EES--
T ss_pred HHHHHHHHHHHHHHcCCCHHHHHHHHHHhcCcceeecCC
Confidence 345788889999999999999999988876665544443
No 55
>PF09832 DUF2059: Uncharacterized protein conserved in bacteria (DUF2059); InterPro: IPR018637 This entry contains proteins that have no known function. ; PDB: 2X3O_B 3OAO_A.
Probab=23.51 E-value=1.4e+02 Score=18.81 Aligned_cols=28 Identities=18% Similarity=0.242 Sum_probs=21.2
Q ss_pred HHHHHHHhhcCchhHHHHHHHHhHHHHH
Q psy17900 12 EYFRTVFEEKGLADIVKLHMAQASQEAK 39 (157)
Q Consensus 12 ~~~~~~f~~~gL~~l~~~~~~~~~~~~~ 39 (157)
..+.++|.++.|.+++.|+..-..+.+-
T Consensus 11 ~~y~~~ft~~El~~i~~FY~Sp~Gqk~~ 38 (64)
T PF09832_consen 11 PIYAEHFTEEELDAILAFYESPLGQKIV 38 (64)
T ss_dssp HHHHHHS-HHHHHHHHHHHHSHHHHHHH
T ss_pred HHHHHHCCHHHHHHHHHHHCCHHhHHHH
Confidence 5688999999999999999765444433
No 56
>KOG3952|consensus
Probab=23.03 E-value=1.6e+02 Score=24.88 Aligned_cols=52 Identities=27% Similarity=0.524 Sum_probs=35.6
Q ss_pred HHHhhHhhH-----HHHhcCCCcHHHHHHHHHHHHHhhhcchhhHHHHHHHHHHhhc
Q psy17900 104 KHLKQFTPL-----FGAFTDTAPRAELALMLKVQEFCYENMNLMRVFQKIILLFYKR 155 (157)
Q Consensus 104 ~~lkk~~pL-----L~~F~~~~~~~ql~LL~kvQ~~Cye~~~~mk~F~kil~~LY~~ 155 (157)
..++.|+|+ +-.||.+.-+-=+.|=+-.--|||....|.|+--+.+.+-|+.
T Consensus 221 erlkaFapiqemMtfvqfaNdEcDyGmGLELGmdLFcygshyfhkva~qlLplAYnl 277 (304)
T KOG3952|consen 221 ERLKAFAPIQEMMTFVQFANDECDYGMGLELGMDLFCYGSHYFHKVAMQLLPLAYNL 277 (304)
T ss_pred HHHHhhhhHHHHHHHHHHhccccccccchhhhhHHHhcccHHHHHHHHHHHHHHHHh
Confidence 568889998 5567765434334455555679999888877777777777763
No 57
>PF15508 NAAA-beta: beta subunit of N-acylethanolamine-hydrolyzing acid amidase
Probab=22.58 E-value=1.8e+02 Score=20.19 Aligned_cols=26 Identities=27% Similarity=0.400 Sum_probs=21.9
Q ss_pred CHHHHHHHHHHHHhhcCCChHHHHHH
Q psy17900 55 SIKDIVADIREIANKHCIPDQELIVL 80 (157)
Q Consensus 55 ~~~~ii~~ik~~~~~~~~~~~e~i~~ 80 (157)
-+.+-..+||+.....++|-.|++..
T Consensus 64 ~~~~~~~EirGIA~~~gi~l~~iv~l 89 (95)
T PF15508_consen 64 LPQPYAEEIRGIAKAAGIPLGDIVLL 89 (95)
T ss_pred CCHHHHHHHHHHHHHhCCCHHHHHHH
Confidence 36678899999999999999998753
No 58
>cd07316 terB_like_DjlA N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins. Tellurium resistance terB-like domain of the DnaJ-like DjlA proteins. This family represents the terB-like domain of DjlA-like proteins, a subgroup of heat shock DnaJ-like proteins. Escherichia coli DjlA is a type III membrane protein with a small N-terminal transmembrane region and DnaJ-like domain on the extreme C-terminus. Overproduction has been shown to activate the RcsC pathway, which regulates the production of the capsular exopolysaccharide colanic acid. The specific function of this domain is unknown.
Probab=21.91 E-value=2.6e+02 Score=18.87 Aligned_cols=57 Identities=12% Similarity=0.165 Sum_probs=31.5
Q ss_pred HHHHHHHHHHHHHcCCCHHHHHHHHHHHHhhcCCChHHHHHHHHHHHHhhhhccchH
Q psy17900 39 KKELQEQLEEQISEGASIKDIVADIREIANKHCIPDQELIVLIWSTVMAQVEWNKKE 95 (157)
Q Consensus 39 ~kel~~~L~~~i~~~~~~~~ii~~ik~~~~~~~~~~~e~i~~iw~~lm~~v~ws~k~ 95 (157)
.+++...+......+.+..++...++..-...+-.-..++.++|.....--+-+..+
T Consensus 38 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~r~~~l~~l~~vA~ADG~~~~~E 94 (106)
T cd07316 38 RREAIRLFNEGKESDFGLEEYARQFRRACGGRPELLLQLLEFLFQIAYADGELSEAE 94 (106)
T ss_pred HHHHHHHHHHhCcCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCCCHHH
Confidence 345666666666555566666655554332122222568888888777654444443
No 59
>PF08747 DUF1788: Domain of unknown function (DUF1788); InterPro: IPR014858 This entry represents a putative uncharacterised protein of length around 200 amino acids.
Probab=21.74 E-value=3.4e+02 Score=20.10 Aligned_cols=67 Identities=22% Similarity=0.366 Sum_probs=37.9
Q ss_pred HHHHHHHhhcC-chhHHHHHHHHhHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHhhcCCChHHH-----HHHHHHHH
Q psy17900 12 EYFRTVFEEKG-LADIVKLHMAQASQEAKKELQEQLEEQISEGASIKDIVADIREIANKHCIPDQEL-----IVLIWSTV 85 (157)
Q Consensus 12 ~~~~~~f~~~g-L~~l~~~~~~~~~~~~~kel~~~L~~~i~~~~~~~~ii~~ik~~~~~~~~~~~e~-----i~~iw~~l 85 (157)
+-+-+++++.| ++.+++.-+++-. ..+.++|...+.. ++.++..|.+.. .-++.++ ||.+|+-+
T Consensus 8 ~~~l~~l~~~~~~d~~~~~E~~~g~----~~~~~~l~~~l~~---~~~i~~~i~~~~---~~~~~~vv~ltGvG~l~P~~ 77 (126)
T PF08747_consen 8 EIFLEILEERGILDKIIEMEEKKGS----DALLKQLQGILDM---QEKIAEYIQEEL---EDDDRDVVFLTGVGSLFPFI 77 (126)
T ss_pred HHHHHHHHhcChHHHHHHHHHhhhH----HHHHHHHHHHhhh---HHHHHHHHHHhc---cCCCCcEEEEeCcchhcchh
Confidence 45678888876 5555555544433 3344444444422 777887777763 2344554 46667666
Q ss_pred Hhh
Q psy17900 86 MAQ 88 (157)
Q Consensus 86 m~~ 88 (157)
-.+
T Consensus 78 R~h 80 (126)
T PF08747_consen 78 RSH 80 (126)
T ss_pred hHH
Confidence 444
No 60
>KOG1900|consensus
Probab=21.32 E-value=6.4e+02 Score=26.28 Aligned_cols=93 Identities=8% Similarity=0.122 Sum_probs=58.4
Q ss_pred hHHHHHHHHhHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHh------------------------hcCCChHHHHHH
Q psy17900 25 DIVKLHMAQASQEAKKELQEQLEEQISEGASIKDIVADIREIAN------------------------KHCIPDQELIVL 80 (157)
Q Consensus 25 ~l~~~~~~~~~~~~~kel~~~L~~~i~~~~~~~~ii~~ik~~~~------------------------~~~~~~~e~i~~ 80 (157)
.+.+...|-.-+...+++..+++++-.+....++++.++..... =++..|+.+|..
T Consensus 1071 f~~~i~dklevA~iQ~dvl~a~~d~~~~~~~~~el~k~Ld~el~~~t~Lyn~fAdPf~l~Ei~L~I~~~a~y~D~~~I~~ 1150 (1311)
T KOG1900|consen 1071 FLIEIEDKLEVASIQDDVLVAMQDDRIDASAANELVKELDGELLSLTQLYNEFADPFDLWEICLSIFKCADYSDPSLIQE 1150 (1311)
T ss_pred HHHHHHHHHHHHHhhHHHHHHHHHhhcchhHHHHHHHHhccccccHHHHHHhccCcchHHHHHHHHhhhccCCChHHHHH
Confidence 34444555555666666666666555444444455555443332 256889999999
Q ss_pred HHHHHHhhhhcc-chHhHHHHHHHHHHhhHhhHHHHhcCCC
Q psy17900 81 IWSTVMAQVEWN-KKEELVAEQALKHLKQFTPLFGAFTDTA 120 (157)
Q Consensus 81 iw~~lm~~v~ws-~k~~~~~e~a~~~lkk~~pLL~~F~~~~ 120 (157)
.|.-+++++--. +-.. +--.+.+.+..+++..+..+.
T Consensus 1151 ~W~~li~s~~~~~~~~~---~~~~~~~~~I~~~~~~~~~~~ 1188 (1311)
T KOG1900|consen 1151 TWARLIDSALSQPGITS---EVLKRLGSKISNTLKVYGKTD 1188 (1311)
T ss_pred HHHHHHHHHHhcCCCcH---HHHhhHHHHHhhhhhhhcCCc
Confidence 999999998221 1111 455667777888888887776
No 61
>PLN03025 replication factor C subunit; Provisional
Probab=21.25 E-value=4.9e+02 Score=21.68 Aligned_cols=33 Identities=9% Similarity=0.257 Sum_probs=21.9
Q ss_pred CCHHHHHHHHHHHHhhcCCChHHHHHHHHHHHHh
Q psy17900 54 ASIKDIVADIREIANKHCIPDQELIVLIWSTVMA 87 (157)
Q Consensus 54 ~~~~~ii~~ik~~~~~~~~~~~e~i~~iw~~lm~ 87 (157)
.+.+.+...+.++. ....+..+++..++..++.
T Consensus 238 ~~~~~a~~~l~~ll-~~g~~~~~Il~~l~~~~~~ 270 (319)
T PLN03025 238 GKFDDACDGLKQLY-DLGYSPTDIITTLFRVVKN 270 (319)
T ss_pred CCHHHHHHHHHHHH-HcCCCHHHHHHHHHHHHHh
Confidence 55666777777775 4477777777777665543
No 62
>PF13324 GCIP: Grap2 and cyclin-D-interacting; PDB: 3AY5_A.
Probab=20.93 E-value=2.6e+02 Score=23.05 Aligned_cols=88 Identities=11% Similarity=0.152 Sum_probs=43.3
Q ss_pred cCchhHHHHHHHHhHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHH----HhhcCCChHHHHHHHHHHHHhhh--hccch
Q psy17900 21 KGLADIVKLHMAQASQEAKKELQEQLEEQISEGASIKDIVADIREI----ANKHCIPDQELIVLIWSTVMAQV--EWNKK 94 (157)
Q Consensus 21 ~gL~~l~~~~~~~~~~~~~kel~~~L~~~i~~~~~~~~ii~~ik~~----~~~~~~~~~e~i~~iw~~lm~~v--~ws~k 94 (157)
.||-.++-...+.+.-.+++++.....+.+.. ...++..+... -.+..-.-.-..|.||.++=... ..+++
T Consensus 45 ~~l~~~~~~~~~~~G~tL~~~i~~~v~~lv~~---~~~L~~~~~~~~~s~~~~~~~~~~~~tG~VWeaCd~l~~lp~~n~ 121 (275)
T PF13324_consen 45 LGLLSLYHGLPKGQGPTLRKEIRSAVKSLVDS---SIQLVEELVSAYGSSSQSEKNEVLQSTGRVWEACDQLKKLPKDNK 121 (275)
T ss_dssp HHHHHHHTTS-GGG-HHHHHHHHHHHHHHHHH---HHHHHHHHH-------------------HHHHHHHTTTTS-SSHH
T ss_pred HHHHHHHhhCcHhhHHHHHHHHHHHHHHHHHH---HHHHHHHHHHhccCcccCccchhHHHHhHHHHHHHHHHHhhhhhH
Confidence 34444444455667778889998888888833 34444433331 11112233457899999984333 22222
Q ss_pred H---------hHHHHHHHHHHhhHhh
Q psy17900 95 E---------ELVAEQALKHLKQFTP 111 (157)
Q Consensus 95 ~---------~~~~e~a~~~lkk~~p 111 (157)
. -.....|++.++.|.|
T Consensus 122 ~av~~~~~~~~~lvkDa~~El~E~~~ 147 (275)
T PF13324_consen 122 VAVLRRLKQSRDLVKDALEELEEWDE 147 (275)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 1 1125578888999976
No 63
>PF00745 GlutR_dimer: Glutamyl-tRNAGlu reductase, dimerisation domain; InterPro: IPR015896 Tetrapyrroles are large macrocyclic compounds derived from a common biosynthetic pathway []. The end-product, uroporphyrinogen III, is used to synthesise a number of important molecules, including vitamin B12, haem, sirohaem, chlorophyll, coenzyme F430 and phytochromobilin []. The first stage in tetrapyrrole synthesis is the synthesis of 5-aminoaevulinic acid ALA via two possible routes: (1) condensation of succinyl CoA and glycine (C4 pathway) using ALA synthase (2.3.1.37 from EC), or (2) decarboxylation of glutamate (C5 pathway) via three different enzymes, glutamyl-tRNA synthetase (6.1.1.17 from EC) to charge a tRNA with glutamate, glutamyl-tRNA reductase (1.2.1.70 from EC) to reduce glutamyl-tRNA to glutamate-1-semialdehyde (GSA), and GSA aminotransferase (5.4.3.8 from EC) to catalyse a transamination reaction to produce ALA. The second stage is to convert ALA to uroporphyrinogen III, the first macrocyclic tetrapyrrolic structure in the pathway. This is achieved by the action of three enzymes in one common pathway: porphobilinogen (PBG) synthase (or ALA dehydratase, 4.2.1.24 from EC) to condense two ALA molecules to generate porphobilinogen; hydroxymethylbilane synthase (or PBG deaminase, 2.5.1.61 from EC) to polymerise four PBG molecules into preuroporphyrinogen (tetrapyrrole structure); and uroporphyrinogen III synthase (4.2.1.75 from EC) to link two pyrrole units together (rings A and D) to yield uroporphyrinogen III. Uroporphyrinogen III is the first branch point of the pathway. To synthesise cobalamin (vitamin B12), sirohaem, and coenzyme F430, uroporphyrinogen III needs to be converted into precorrin-2 by the action of uroporphyrinogen III methyltransferase (2.1.1.107 from EC). To synthesise haem and chlorophyll, uroporphyrinogen III needs to be decarboxylated into coproporphyrinogen III by the action of uroporphyrinogen III decarboxylase (4.1.1.37 from EC) []. This entry represents the helical dimerisation domain of glutamyl-tRNA reductase (1.2.1.70 from EC) []. This enzyme reduces glutamyl-tRNA to glutamate-1-semialdehyde during the first stage of tetrapyrrole biosynthesis by the C5 pathway [, ]. The enzyme requires NADPH as a cofactor.; GO: 0008883 glutamyl-tRNA reductase activity, 0050661 NADP binding, 0033014 tetrapyrrole biosynthetic process, 0055114 oxidation-reduction process; PDB: 1GPJ_A.
Probab=20.91 E-value=1.2e+02 Score=20.67 Aligned_cols=36 Identities=17% Similarity=0.282 Sum_probs=18.0
Q ss_pred HHHHHHhhcCchhHHHHHHHHhHHHHHHHHHHHHHH
Q psy17900 13 YFRTVFEEKGLADIVKLHMAQASQEAKKELQEQLEE 48 (157)
Q Consensus 13 ~~~~~f~~~gL~~l~~~~~~~~~~~~~kel~~~L~~ 48 (157)
.|...++......++.=++.+...-...|++..+.+
T Consensus 13 ~f~~w~~~~~~~p~I~~l~~~~e~i~~~el~~~~~~ 48 (101)
T PF00745_consen 13 EFMRWLKSRKVDPVIKALREKAEEIRDEELERALKK 48 (101)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHS-
T ss_pred HHHHHHHhcchHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 444555555555555555555555555555554444
No 64
>smart00762 Cog4 COG4 transport protein. This region is found in yeast oligomeric golgi complex component 4 which is involved in ER to Golgi and intra Golgi transport.
Probab=20.65 E-value=5.3e+02 Score=21.92 Aligned_cols=39 Identities=15% Similarity=0.157 Sum_probs=31.5
Q ss_pred HHHHHHHHhhHhhHHHHhcCCCcHHHHHHHHHHHHHhhhcc
Q psy17900 99 AEQALKHLKQFTPLFGAFTDTAPRAELALMLKVQEFCYENM 139 (157)
Q Consensus 99 ~e~a~~~lkk~~pLL~~F~~~~~~~ql~LL~kvQ~~Cye~~ 139 (157)
-+.+...|..+.|+...+... .-=+.+|.++|.-|....
T Consensus 88 fe~ia~ii~~h~~~I~~~yG~--~~~~~vi~~Lq~E~D~q~ 126 (324)
T smart00762 88 FENVATIIEQHQPVIEKYYGP--DGMLYVITKLQKEADLQG 126 (324)
T ss_pred HHHHHHHHHhccHHHHHHcCc--hhHHHHHHHHHHHHHHHH
Confidence 446677888899999999864 556789999999998853
No 65
>PF01320 Colicin_Pyocin: Colicin immunity protein / pyocin immunity protein; InterPro: IPR023802 Bacterial colicin and pyocin immunity proteins [, ] can bind specifically to the DNase-type colicins and pyocins and inhibit their bactericidal activity. The 1.8-angstrom crystal structure of the ImmE7 protein consists of four antiparallel alpha-helices []. Sequence similarities between colicins E2, A and E1 [] are less striking. The colicin E2 (pyocin) immunity protein does not share similarity with either the colicin E3 or cloacin DF13 [] immunity proteins. Pyocin protects a cell that harbours the plasmid ColE2 encoding colicin E2 against colicin E2; it is thus essential both for autonomous replication and colicin E2 immunity []. This entry represents the structural domain of colicin and pyocin immunity proteins.; GO: 0015643 toxin binding, 0030153 bacteriocin immunity; PDB: 1GXH_A 1GXG_A 1MZ8_C 2ERH_A 1ZNV_C 1AYI_A 1UNK_A 2JBG_A 7CEI_A 1CEI_A ....
Probab=20.28 E-value=3.2e+02 Score=19.16 Aligned_cols=57 Identities=18% Similarity=0.245 Sum_probs=31.9
Q ss_pred CCCHHHHHHHHHHHHhhcCCChHHHHHHHHHHHHhhhhccchHhHH----------HHHHHHHHhhHh
Q psy17900 53 GASIKDIVADIREIANKHCIPDQELIVLIWSTVMAQVEWNKKEELV----------AEQALKHLKQFT 110 (157)
Q Consensus 53 ~~~~~~ii~~ik~~~~~~~~~~~e~i~~iw~~lm~~v~ws~k~~~~----------~e~a~~~lkk~~ 110 (157)
+.+-++.+..|+.......-++.+...+| .-.-+.+++-...+++ .+.+++.++.|.
T Consensus 9 dyTE~EFl~~v~~i~~~~~~~ee~~d~lv-~hF~~iteHP~gSDLIfYP~~~~edsPegIv~~vKeWR 75 (85)
T PF01320_consen 9 DYTESEFLEFVKEIFNAELKTEEEHDELV-DHFEKITEHPDGSDLIFYPEDGREDSPEGIVKEVKEWR 75 (85)
T ss_dssp GSBHHHHHHHHHHHHHTCSSSCHHHHHHH-HHHHHHH--TTTTHHHHS-STTSTSSHHHHHHHHHHHH
T ss_pred HhhHHHHHHHHHHHHcCCCCCHHHHHHHH-HHHHHcCCCCCCCceeeeCCCCCCCCHHHHHHHHHHHH
Confidence 46677888888888777745554333222 2222223333333443 668888888885
No 66
>TIGR03092 SASP_sspI small, acid-soluble spore protein I. This protein family is restricted to a subset of endospore-forming bacteria such as Bacillus subtilis, all of which are in the Firmicutes (low-GC Gram-positive) lineage. It is a minor SASP (small, acid-soluble spore protein) designated SspI. The gene in Bacillus subtilis previously was designated ysfA.
Probab=20.16 E-value=1.7e+02 Score=19.66 Aligned_cols=43 Identities=21% Similarity=0.376 Sum_probs=34.1
Q ss_pred CCCHHHHHHHHhhc----------CchhHHHHHHHHhHHHHHHHHHHHHHHHH
Q psy17900 8 KRSDEYFRTVFEEK----------GLADIVKLHMAQASQEAKKELQEQLEEQI 50 (157)
Q Consensus 8 kR~~~~~~~~f~~~----------gL~~l~~~~~~~~~~~~~kel~~~L~~~i 50 (157)
.+|++.+.+...++ ||+-|++-+=+..++.-++++-.+|.+.+
T Consensus 12 ~~s~~elk~~I~daI~sgEEk~LPGLGVlFE~~W~~~~~~ek~~m~~~l~~~l 64 (65)
T TIGR03092 12 NNTKEQLEATIVDAIQSGEEKMLPGLGVLFEAIWKHANEQEKDEMLETLEQGV 64 (65)
T ss_pred CCCHHHHHHHHHHHHhccchhcCCccHHHHHHHHHhcCHHHHHHHHHHHHHhc
Confidence 45666666666542 89999999999999999999998887765
Done!