Query psy8114
Match_columns 111
No_of_seqs 23 out of 25
Neff 3.1
Searched_HMMs 46136
Date Fri Aug 16 18:57:53 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy8114.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/8114hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF01581 FARP: FMRFamide relat 90.8 0.081 1.8E-06 24.7 0.2 9 89-97 3-11 (11)
2 TIGR03042 PS_II_psbQ_bact phot 89.4 0.42 9.1E-06 36.3 3.2 55 7-65 9-63 (142)
3 PF14369 zf-RING_3: zinc-finge 64.2 3 6.6E-05 24.5 0.6 12 25-36 24-35 (35)
4 TIGR03516 ppisom_GldI peptidyl 60.7 15 0.00033 27.9 4.0 58 1-64 1-59 (177)
5 cd07998 WGR_DNA_ligase WGR dom 59.3 4.3 9.4E-05 28.0 0.7 13 92-104 31-43 (77)
6 TIGR01710 typeII_sec_gspG gene 56.6 13 0.00027 26.6 2.8 22 45-66 37-58 (134)
7 PF08194 DIM: DIM protein; In 56.5 12 0.00026 22.9 2.2 19 1-19 1-19 (36)
8 PF02903 Alpha-amylase_N: Alph 53.1 6.7 0.00015 27.1 0.9 19 83-101 29-47 (120)
9 COG0143 MetG Methionyl-tRNA sy 50.3 13 0.00029 33.5 2.5 28 41-68 440-467 (558)
10 cd07994 WGR WGR domain. The WG 50.2 10 0.00022 24.9 1.4 15 89-103 28-43 (73)
11 smart00773 WGR Proposed nuclei 50.1 9.8 0.00021 25.0 1.3 14 89-102 35-48 (84)
12 TIGR02763 chlamy_scaf chlamydi 48.3 6 0.00013 29.5 0.0 44 32-84 46-89 (114)
13 PF05406 WGR: WGR domain; Int 45.8 10 0.00022 24.8 0.9 15 89-103 32-46 (81)
14 COG1419 FlhF Flagellar GTP-bin 43.3 9.5 0.00021 33.4 0.5 30 75-104 315-344 (407)
15 PF03511 Fanconi_A: Fanconi an 41.8 66 0.0014 22.0 4.3 37 3-48 4-40 (64)
16 PF10929 DUF2811: Protein of u 39.8 22 0.00047 23.6 1.7 19 52-70 9-27 (57)
17 cd07958 Anticodon_Ia_Leu_BEm A 37.4 36 0.00078 21.9 2.4 20 46-65 66-85 (117)
18 PTZ00015 histone H4; Provision 35.4 14 0.00031 26.6 0.3 44 51-102 54-101 (102)
19 PF02812 ELFV_dehydrog_N: Glu/ 35.0 22 0.00048 26.0 1.2 73 8-97 50-129 (131)
20 COG4698 Uncharacterized protei 34.5 24 0.00053 28.5 1.5 63 2-64 12-74 (197)
21 PLN00035 histone H4; Provision 34.1 15 0.00033 26.6 0.3 45 51-103 53-101 (103)
22 cd07375 Anticodon_Ia_like Anti 33.0 30 0.00065 21.9 1.5 20 46-65 67-86 (117)
23 COG2165 PulG Type II secretory 31.8 1.4E+02 0.003 19.6 4.6 29 37-65 37-65 (149)
24 PF11328 DUF3130: Protein of u 31.2 61 0.0013 23.3 3.0 34 24-60 27-60 (90)
25 cd07356 HN_L-whirlin_R1_like F 31.2 40 0.00086 23.8 1.9 48 37-86 2-55 (78)
26 KOG2046|consensus 31.2 31 0.00068 27.6 1.6 36 45-86 81-117 (193)
27 cd07996 WGR_MMR_like WGR domai 31.0 33 0.00072 21.7 1.4 16 89-104 29-44 (74)
28 PF13670 PepSY_2: Peptidase pr 28.9 98 0.0021 20.1 3.5 27 8-36 3-29 (83)
29 COG4574 Eco Serine protease in 28.5 50 0.0011 25.9 2.3 20 1-20 1-20 (162)
30 COG2317 Zn-dependent carboxype 27.7 29 0.00063 31.4 1.0 47 43-93 128-174 (497)
31 COG3090 DctM TRAP-type C4-dica 27.2 83 0.0018 23.7 3.2 26 27-52 74-99 (177)
32 cd07355 HN_L-delphilin-R2_like 26.8 46 0.001 23.6 1.7 38 37-86 18-55 (80)
33 PF15172 Prolactin_RP: Prolact 26.4 23 0.00051 22.9 0.1 9 93-101 29-37 (47)
34 PRK11443 lipoprotein; Provisio 25.9 69 0.0015 23.5 2.5 18 15-32 12-31 (124)
35 TIGR01796 CM_mono_aroH monofun 25.7 30 0.00064 25.8 0.6 16 79-94 93-108 (117)
36 PF06840 DUF1241: Protein of u 25.6 74 0.0016 24.5 2.7 20 45-64 117-136 (154)
37 PF03800 Nuf2: Nuf2 family; I 24.9 1.1E+02 0.0025 21.8 3.5 27 37-63 112-138 (146)
38 PF08479 POTRA_2: POTRA domain 24.4 51 0.0011 20.9 1.4 22 44-65 30-51 (76)
39 PRK00888 ftsB cell division pr 24.1 95 0.0021 21.9 2.9 13 1-13 1-13 (105)
40 cd07957 Anticodon_Ia_Met Antic 23.9 89 0.0019 20.4 2.6 23 44-66 62-84 (129)
41 PRK13733 conjugal transfer pro 23.8 1.2E+02 0.0025 24.0 3.6 57 1-65 1-57 (171)
42 cd02185 AroH Chorismate mutase 23.3 35 0.00077 25.4 0.6 16 79-94 93-108 (117)
43 PF01798 Nop: Putative snoRNA 23.3 1.3E+02 0.0028 22.6 3.7 25 40-64 2-26 (150)
44 COG0549 ArcC Carbamate kinase 22.9 34 0.00073 29.4 0.5 16 85-100 232-247 (312)
45 cd07997 WGR_PARP WGR domain of 22.8 52 0.0011 22.6 1.3 14 89-102 40-53 (102)
46 PF07327 Neuroparsin: Neuropar 22.7 84 0.0018 23.2 2.4 21 4-25 7-27 (103)
47 cd00385 Isoprenoid_Biosyn_C1 I 22.4 1.2E+02 0.0026 20.8 3.1 32 34-65 139-170 (243)
48 cd07962 Anticodon_Ia_Val Antic 22.4 79 0.0017 21.7 2.2 24 44-67 68-93 (135)
49 PF06287 DUF1039: Protein of u 22.3 68 0.0015 21.7 1.8 19 30-50 20-38 (66)
50 PRK12871 ubiA prenyltransferas 22.0 1E+02 0.0022 25.1 3.0 43 50-110 53-100 (297)
51 PF13080 DUF3926: Protein of u 21.8 1.3E+02 0.0029 19.1 2.9 32 32-65 3-34 (44)
52 cd08003 WGR_PARP2_like WGR dom 21.3 54 0.0012 23.1 1.2 25 76-102 29-53 (103)
53 PF14377 DUF4414: Domain of un 21.0 38 0.00082 23.6 0.3 27 22-48 39-65 (108)
54 PF08334 T2SG: Type II secreti 20.5 2E+02 0.0043 19.5 3.8 25 42-66 10-34 (108)
55 PF07736 CM_1: Chorismate muta 20.3 46 0.00099 24.8 0.7 16 80-95 94-109 (118)
56 KOG3574|consensus 20.2 26 0.00055 31.8 -0.8 19 88-108 87-106 (510)
57 PF00616 RasGAP: GTPase-activa 20.1 1.1E+02 0.0024 22.0 2.6 17 33-49 117-133 (197)
58 PF06430 L_lactis_RepB_C: Lact 20.0 47 0.001 25.1 0.7 8 81-88 115-122 (122)
No 1
>PF01581 FARP: FMRFamide related peptide family; InterPro: IPR002544 The neuropeptide Phe-Met-Arg-Phe-NH2 (FMRFamide) is a potent cardioactive neuropeptide in Lymnaea stagnalis []. FMRFamide (Phe-Met-Arg-Phe-NH2) was first demonstrated to be cardioactive in several molluscan species. FMRFamide is now known to be cardioexcitatory in mammals, to inhibit morphine-induced antinociception, and to block morphine-, defeat-, and deprivation-induced feeding []. Thirteen neuropeptides varying in length from 7 to 11 residues and ending C-terminally in -Phe-Met-Arg-Phe-NH2 (calliFMRFamides 1-13) and one dodecapeptide ending in -Met-Ile-Arg-Phe-NH2 (calliMIRFamide 1) have been isolated from thoracic ganglia of the blowfly Calliphora vomitoria. Results indicate that the N terminus (in addition to the C terminus as previously found for FMRFamides of other organisms) is crucial for at least some biological activities [].; GO: 0007218 neuropeptide signaling pathway
Probab=90.80 E-value=0.081 Score=24.70 Aligned_cols=9 Identities=44% Similarity=1.206 Sum_probs=7.3
Q ss_pred ceeeeeccc
Q psy8114 89 DHVFLRYGK 97 (111)
Q Consensus 89 DHVFLRFGR 97 (111)
|.-|+||||
T Consensus 3 ~~~~~RFGr 11 (11)
T PF01581_consen 3 DNNFMRFGR 11 (11)
T ss_pred cccccccCC
Confidence 456999998
No 2
>TIGR03042 PS_II_psbQ_bact photosystem II protein PsbQ. This protein through the member sll1638 from Synechocystis sp. PCC 6803, was shown to be part of the cyanobacteria photosystem II. It is homologous to (but quite diverged from) the chloroplast PsbQ protein, called oxygen-evolving enhancer protein 3 (OEE3). We designate this cyanobacteria protein PsbQ by homology.
Probab=89.44 E-value=0.42 Score=36.26 Aligned_cols=55 Identities=24% Similarity=0.260 Sum_probs=41.3
Q ss_pred HHHHHHHHHHhhhhccCCCCCCCcccccCCChHHHHHHHHHHHHHHHHHHHHHhHhhcC
Q psy8114 7 LVLFLMVTLFMKKSLAMPPLQCTPGFVDQIPFKIRKICVALSTIYELSNAMESYIDDNG 65 (111)
Q Consensus 7 ~v~~~~~~i~~~~A~AapPp~C~p~~lDelpPriRKiC~AL~ni~els~Ame~YIddq~ 65 (111)
||+++++.++|+...++.||-=+|..+..+--.++.|=++=+++.| +++||+++.
T Consensus 9 Lv~~~~~Lvsc~~p~~~~p~tysp~~l~~i~~~~~~i~~~~~r~~e----Lk~lI~kk~ 63 (142)
T TIGR03042 9 LVLLLTFLVSCSGPAAAVPPTYSPAQLAQIQRQAEGIEAAKDRLPE----LASLVAKED 63 (142)
T ss_pred HHHHHHHHHHcCCCcccCCCCCCHHHHHHHHHHHHHHHHHHHhhHH----HHHHHhhcc
Confidence 5667777888888777778888888888666666666666665555 688998874
No 3
>PF14369 zf-RING_3: zinc-finger
Probab=64.24 E-value=3 Score=24.54 Aligned_cols=12 Identities=42% Similarity=0.863 Sum_probs=10.8
Q ss_pred CCCCCcccccCC
Q psy8114 25 PLQCTPGFVDQI 36 (111)
Q Consensus 25 Pp~C~p~~lDel 36 (111)
=|.|.+||++||
T Consensus 24 CP~C~~gFvEei 35 (35)
T PF14369_consen 24 CPRCHGGFVEEI 35 (35)
T ss_pred CcCCCCcEeEeC
Confidence 689999999986
No 4
>TIGR03516 ppisom_GldI peptidyl-prolyl isomerase, gliding motility-associated. Members of this protein family are exclusive to the Bacteroidetes phylum (previously Cytophaga-Flavobacteria-Bacteroides). GldI is a FKBP-type peptidyl-prolyl cis-trans isomerase (pfam00254) linked to a type of rapid surface gliding motility found in certain Bacteroidetes, such as Flavobacterium johnsoniae and Cytophaga hutchinsonii. Knockout of this gene abolishes the gliding phenotype. Gliding motility appears closely linked to chitin utilization in the model species Flavobacterium johnsoniae. This family is only found in Bacteroidetes containing the suite of genes proposed to confer the gliding motility phenotype.
Probab=60.66 E-value=15 Score=27.94 Aligned_cols=58 Identities=24% Similarity=0.317 Sum_probs=42.3
Q ss_pred CchhHHHHHHHHHHHHhhhhccCCCCC-CCcccccCCChHHHHHHHHHHHHHHHHHHHHHhHhhc
Q psy8114 1 MKWLQPLVLFLMVTLFMKKSLAMPPLQ-CTPGFVDQIPFKIRKICVALSTIYELSNAMESYIDDN 64 (111)
Q Consensus 1 ~~~~~~~v~~~~~~i~~~~A~AapPp~-C~p~~lDelpPriRKiC~AL~ni~els~Ame~YIddq 64 (111)
||-+.-+.++..++++|++..+-.|-. =+..++++-=.|.||+=.. | ..++++||.++
T Consensus 1 ~~~~~~~~~~~~~~~~c~~~~~~~pv~~~~~~~~~~s~~rnk~l~~~-----e-~~~I~~~i~~~ 59 (177)
T TIGR03516 1 MKHLIAVILLLLLLLGCKTPEARRPISRSSGTTIKLSAERNKKLIAA-----E-EAAIKRIISAD 59 (177)
T ss_pred CceeHHHHHHHHHHhhcCCCCCCCCcCCCCcchHHHHHHHHHHHHHH-----H-HHHHHHHHHhC
Confidence 677777788888999999888776663 3455667655677776552 3 46899999965
No 5
>cd07998 WGR_DNA_ligase WGR domain of bacterial DNA ligases. The WGR domain is found in a small family of predicted bacterial DNA ligases. It has been called WGR after the most conserved central motif of the domain. The domain typically occurs in together with an ATP-dependent DNA ligase domain, and is between 70 and 80 residues in length. It has been proposed to function as a nucleic acid binding domain.
Probab=59.25 E-value=4.3 Score=28.02 Aligned_cols=13 Identities=31% Similarity=0.289 Sum_probs=10.8
Q ss_pred eeeccccCCCCcc
Q psy8114 92 FLRYGKITSDGWV 104 (111)
Q Consensus 92 FLRFGR~~~~~~~ 104 (111)
=-||||||++|-.
T Consensus 31 ~~~yGR~Gt~gq~ 43 (77)
T cd07998 31 NFRYGRRGSALRE 43 (77)
T ss_pred EEEEccccCCccc
Confidence 3599999999865
No 6
>TIGR01710 typeII_sec_gspG general secretion pathway protein G. This model represents GspG, protein G of the main terminal branch of the general secretion pathway, also called type II secretion. It transports folded proteins across the bacterial outer membrane and is widely distributed in Gram-negative pathogens.
Probab=56.57 E-value=13 Score=26.64 Aligned_cols=22 Identities=45% Similarity=0.567 Sum_probs=17.4
Q ss_pred HHHHHHHHHHHHHHHhHhhcCC
Q psy8114 45 VALSTIYELSNAMESYIDDNGS 66 (111)
Q Consensus 45 ~AL~ni~els~Ame~YIddq~~ 66 (111)
.+.+++.++.+|++.|-.|.+.
T Consensus 37 ~~~~~l~~i~~al~~y~~d~g~ 58 (134)
T TIGR01710 37 VAKAQIKALKNALDMYRLDNGR 58 (134)
T ss_pred HHHHHHHHHHHHHHHHHHHhCC
Confidence 3457777888999999988765
No 7
>PF08194 DIM: DIM protein; InterPro: IPR013172 Drosophila immune-induced molecules (DIMs) are short proteins induced during the immune response of Drosophila []. This entry includes DIMs 1 to 4 and DIM23.
Probab=56.52 E-value=12 Score=22.88 Aligned_cols=19 Identities=26% Similarity=0.286 Sum_probs=13.6
Q ss_pred CchhHHHHHHHHHHHHhhh
Q psy8114 1 MKWLQPLVLFLMVTLFMKK 19 (111)
Q Consensus 1 ~~~~~~~v~~~~~~i~~~~ 19 (111)
|||++=+..++.+++.++.
T Consensus 1 Mk~l~~a~~l~lLal~~a~ 19 (36)
T PF08194_consen 1 MKCLSLAFALLLLALAAAV 19 (36)
T ss_pred CceeHHHHHHHHHHHHhcc
Confidence 8999886677777755444
No 8
>PF02903 Alpha-amylase_N: Alpha amylase, N-terminal ig-like domain; InterPro: IPR004185 O-Glycosyl hydrolases 3.2.1. from EC are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families [, ]. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. Enzymes containing this domain belong to family 13 (GH13 from CAZY) of the glycosyl hydrolases. The maltogenic alpha-amylase is an enzyme which catalyses hydrolysis of (1-4)-alpha-D-glucosidic linkages in polysaccharides so as to remove successive alpha-maltose residues from the non-reducing ends of the chains in the conversion of starch to maltose. Other enzymes include neopullulanase, which hydrolyses pullulan to panose, and cyclomaltodextrinase, which hydrolyses cyclodextrins.; GO: 0004553 hydrolase activity, hydrolyzing O-glycosyl compounds, 0005975 carbohydrate metabolic process; PDB: 1J0J_A 1J0H_A 1J0I_A 1J0K_A 1EA9_C 1SMA_A 1GVI_B 1WZK_B 1VFM_B 3A6O_A ....
Probab=53.12 E-value=6.7 Score=27.10 Aligned_cols=19 Identities=32% Similarity=0.672 Sum_probs=15.4
Q ss_pred CcccccceeeeeccccCCC
Q psy8114 83 VKRQDMDHVFLRYGKITSD 101 (111)
Q Consensus 83 ~KRQDVDHVFLRFGR~~~~ 101 (111)
+++.||++|+|++|-+..-
T Consensus 29 t~k~Dv~~V~l~~~d~~~~ 47 (120)
T PF02903_consen 29 TAKNDVEKVFLVYGDPYEE 47 (120)
T ss_dssp EETTT-SEEEEEEEETTSE
T ss_pred ecCCCCCEEEEEECCCccc
Confidence 6789999999999988743
No 9
>COG0143 MetG Methionyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=50.34 E-value=13 Score=33.45 Aligned_cols=28 Identities=25% Similarity=0.392 Sum_probs=23.9
Q ss_pred HHHHHHHHHHHHHHHHHHHhHhhcCCCC
Q psy8114 41 RKICVALSTIYELSNAMESYIDDNGSMD 68 (111)
Q Consensus 41 RKiC~AL~ni~els~Ame~YIddq~~~~ 68 (111)
.++=.||+.+.+|++..|.||+++++|.
T Consensus 440 ~~~~~Al~~i~~l~~~~N~Yi~~~~PW~ 467 (558)
T COG0143 440 YEFRKALEEIMALASRANKYIDEQAPWK 467 (558)
T ss_pred hhHHHHHHHHHHHHHHHHHHhhcCCCch
Confidence 3455688899999999999999999885
No 10
>cd07994 WGR WGR domain. The WGR domain is found in a variety of eukaryotic poly(ADP-ribose) polymerases (PARPs) as well as the putative Escherichia coli molybdate metabolism regulator and related bacterial proteins, a small family of bacterial DNA ligases, and various other bacterial proteins of unknown function. It has been called WGR after the most conserved central motif of the domain. The domain occurs in single-domain proteins and in a variety of domain architectures, and is between 70 and 80 residues in length. It has been proposed to function as a nucleic acid binding domain.
Probab=50.24 E-value=10 Score=24.91 Aligned_cols=15 Identities=33% Similarity=0.545 Sum_probs=12.4
Q ss_pred ceeeeeccccCC-CCc
Q psy8114 89 DHVFLRYGKITS-DGW 103 (111)
Q Consensus 89 DHVFLRFGR~~~-~~~ 103 (111)
=+||-|+||.|. .|=
T Consensus 28 ~~v~~~WGRiGt~~Gq 43 (73)
T cd07994 28 YWVFRSYGRVGTVIGS 43 (73)
T ss_pred EEEEEEECCccCcCCc
Confidence 478999999998 663
No 11
>smart00773 WGR Proposed nucleic acid binding domain. This domain is named after its most conserved central motif. It is found in a variety of polyA polymerases as well as in molybdate metabolism regulators (e.g. in E.coli) and other proteins of unknown function. The domain is found in isolation in some proteins and is between 70 and 80 residues in length. It is proposed that it may be a nucleic acid binding domain.
Probab=50.13 E-value=9.8 Score=24.98 Aligned_cols=14 Identities=36% Similarity=0.788 Sum_probs=12.5
Q ss_pred ceeeeeccccCCCC
Q psy8114 89 DHVFLRYGKITSDG 102 (111)
Q Consensus 89 DHVFLRFGR~~~~~ 102 (111)
=+||.++||.|+.|
T Consensus 35 ~~v~~~wGRiG~~g 48 (84)
T smart00773 35 YSVWRRWGRIGTNG 48 (84)
T ss_pred EEEEEEeeecCCCC
Confidence 58999999999876
No 12
>TIGR02763 chlamy_scaf chlamydiaphage internal scaffolding protein. Members of this protein family are encoded by genes in chlamydiaphage such as Chp2, viruses with around eight genes that infect obligately intracellular bacterial pathogens of the genus Chlamydia. This protein, initially designated VP3 (as if a structural protein of mature viral particles), is displaced from procapsids as DNA is packaged, and therefore is described as a scafolding protein.
Probab=48.26 E-value=6 Score=29.54 Aligned_cols=44 Identities=25% Similarity=0.396 Sum_probs=29.6
Q ss_pred cccCCChHHHHHHHHHHHHHHHHHHHHHhHhhcCCCCCCccccchhhhcCCCc
Q psy8114 32 FVDQIPFKIRKICVALSTIYELSNAMESYIDDNGSMDQFVNPEINQLMENGVK 84 (111)
Q Consensus 32 ~lDelpPriRKiC~AL~ni~els~Ame~YIddq~~~~~~~~~~~~~l~d~~~K 84 (111)
+-|+||-++|+=- .| =..+|=+|++|+.||.- ....+++++.+|
T Consensus 46 aFdsLPAkvRe~F---gN---dPeeml~~L~d~~nyde---~~algll~~e~~ 89 (114)
T TIGR02763 46 AFDSLPAKVRENF---GN---DPEEMLSWLEDEANYDE---VEALGLLDPETK 89 (114)
T ss_pred HHHHhhHHHHHHh---CC---CHHHHHHHHhChhhHHH---HHHhcccccccc
Confidence 3577888888621 11 14478899999998653 346777887755
No 13
>PF05406 WGR: WGR domain; InterPro: IPR008893 This domain is named after the most conserved central motif of the domain. It is found in a variety of polyA polymerases as well as the Escherichia coli molybdate metabolism regulator P33345 from SWISSPROT and other proteins of unknown function.The domain is found in isolation in proteins such as Q9JN21 from SWISSPROT and is between 70 and 80 residues in length. ; PDB: 2EOC_A 2RA8_A 4DQY_C 2CR9_A.
Probab=45.85 E-value=10 Score=24.79 Aligned_cols=15 Identities=47% Similarity=0.636 Sum_probs=13.4
Q ss_pred ceeeeeccccCCCCc
Q psy8114 89 DHVFLRYGKITSDGW 103 (111)
Q Consensus 89 DHVFLRFGR~~~~~~ 103 (111)
-.||.++||.|+.|=
T Consensus 32 ~~v~~~wGRiG~~gq 46 (81)
T PF05406_consen 32 WVVFRRWGRIGSKGQ 46 (81)
T ss_dssp EEEEEEEEETTSSEE
T ss_pred eEEEEEECCCCCcCc
Confidence 789999999999863
No 14
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=43.29 E-value=9.5 Score=33.40 Aligned_cols=30 Identities=13% Similarity=0.389 Sum_probs=25.1
Q ss_pred chhhhcCCCcccccceeeeeccccCCCCcc
Q psy8114 75 INQLMENGVKRQDMDHVFLRYGKITSDGWV 104 (111)
Q Consensus 75 ~~~l~d~~~KRQDVDHVFLRFGR~~~~~~~ 104 (111)
.--.+..+.|.+|+.++|-+|+.-..+|-+
T Consensus 315 ~~Lvlsat~K~~dlkei~~~f~~~~i~~~I 344 (407)
T COG1419 315 VYLVLSATTKYEDLKEIIKQFSLFPIDGLI 344 (407)
T ss_pred EEEEEecCcchHHHHHHHHHhccCCcceeE
Confidence 334477999999999999999999888853
No 15
>PF03511 Fanconi_A: Fanconi anaemia group A protein; InterPro: IPR003516 Fanconi anaemia (FA) [, , ] is a recessive inherited disease characterised by defective DNA repair. FA cells are sensitive to DNA cross-linking agents that cause chromosomal instability and cell death. The disease is manifested clinically by progressive pancytopenia, variable physical anomalies, and predisposition to malignancy []. Four complementation groups have been identified, designated A to D. The FA group A gene (FAA) has been cloned [], but its function remains to be elucidated.
Probab=41.78 E-value=66 Score=21.95 Aligned_cols=37 Identities=22% Similarity=0.303 Sum_probs=28.3
Q ss_pred hhHHHHHHHHHHHHhhhhccCCCCCCCcccccCCChHHHHHHHHHH
Q psy8114 3 WLQPLVLFLMVTLFMKKSLAMPPLQCTPGFVDQIPFKIRKICVALS 48 (111)
Q Consensus 3 ~~~~~v~~~~~~i~~~~A~AapPp~C~p~~lDelpPriRKiC~AL~ 48 (111)
-+++|.||..|-+.|+.-. .....| +++.-.+|+.+-
T Consensus 4 lLvsLfFFSLM~LlSs~l~-------p~~~~d--~~kaldiCaeIL 40 (64)
T PF03511_consen 4 LLVSLFFFSLMGLLSSYLA-------PKEGAD--SLKALDICAEIL 40 (64)
T ss_pred hHHHHHHHHHHHHHHHhcC-------cccccc--cHHHHHHHHHHH
Confidence 5789999999999887543 134567 899999999544
No 16
>PF10929 DUF2811: Protein of unknown function (DUF2811); InterPro: IPR021231 This is a bacterial family of uncharacterised proteins.
Probab=39.77 E-value=22 Score=23.61 Aligned_cols=19 Identities=32% Similarity=0.691 Sum_probs=16.1
Q ss_pred HHHHHHHHhHhhcCCCCCC
Q psy8114 52 ELSNAMESYIDDNGSMDQF 70 (111)
Q Consensus 52 els~Ame~YIddq~~~~~~ 70 (111)
+|-.+|+.||+.-++|+|-
T Consensus 9 ~L~~~m~~fie~hP~WDQ~ 27 (57)
T PF10929_consen 9 DLHQAMKDFIETHPNWDQY 27 (57)
T ss_pred HHHHHHHHHHHcCCCchHH
Confidence 4567999999999999775
No 17
>cd07958 Anticodon_Ia_Leu_BEm Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases. This domain is found in leucyl tRNA synthetases (LeuRS), which belong to the class Ia aminoacyl tRNA synthetases. It lies C-terminal to the catalytic core domain. In contrast to other class Ia enzymes, the anticodon is not used as an identity element in LeuRS (with exceptions such as Saccharomyces cerevisiae and some other eukaryotes). No anticodon-binding site can be defined for this family, which includes bacterial and eukaryotic mitochondrial members, as well as LeuRS from the archaeal Halobacteria. LeuRS catalyzes the transfer of leucine to the 3'-end of its tRNA.
Probab=37.37 E-value=36 Score=21.90 Aligned_cols=20 Identities=30% Similarity=0.532 Sum_probs=13.9
Q ss_pred HHHHHHHHHHHHHHhHhhcC
Q psy8114 46 ALSTIYELSNAMESYIDDNG 65 (111)
Q Consensus 46 AL~ni~els~Ame~YIddq~ 65 (111)
|++.+++|.++++.|+++..
T Consensus 66 a~~~i~~~~~~~n~~~~~~~ 85 (117)
T cd07958 66 AIAALMELVNALYKYKKKDA 85 (117)
T ss_pred HHHHHHHHHHHHHHhhcccc
Confidence 45566777788888877643
No 18
>PTZ00015 histone H4; Provisional
Probab=35.45 E-value=14 Score=26.65 Aligned_cols=44 Identities=18% Similarity=0.298 Sum_probs=29.5
Q ss_pred HHHHHHHHHhHhhcCCCCCCccccchhhhc----CCCcccccceeeeeccccCCCC
Q psy8114 51 YELSNAMESYIDDNGSMDQFVNPEINQLME----NGVKRQDMDHVFLRYGKITSDG 102 (111)
Q Consensus 51 ~els~Ame~YIddq~~~~~~~~~~~~~l~d----~~~KRQDVDHVFLRFGR~~~~~ 102 (111)
.|+...+|.|+++- .+++..+.+ ..+|=+||++..-|.|| +.-|
T Consensus 54 ~e~r~vle~~l~~I-------~rdav~~aeHA~RKTVt~~DV~~AlKr~g~-~~yg 101 (102)
T PTZ00015 54 EEVRGVLKAFLENV-------VRDSTAYTEYARRKTVTAMDVVYALKRQGR-TLYG 101 (102)
T ss_pred HHHHHHHHHHHHHH-------HHHHHHHHHhcCCCcccHHHHHHHHHhcCC-CCCC
Confidence 36667788888763 244444444 34556799999999998 4444
No 19
>PF02812 ELFV_dehydrog_N: Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; InterPro: IPR006097 Glutamate, leucine, phenylalanine and valine dehydrogenases are structurally and functionally related. They contain a Gly-rich region containing a conserved Lys residue, which has been implicated in the catalytic activity, in each case a reversible oxidative deamination reaction. Glutamate dehydrogenases (1.4.1.2 from EC, 1.4.1.3 from EC, and 1.4.1.4 from EC) (GluDH) are enzymes that catalyse the NAD- and/or NADP-dependent reversible deamination of L-glutamate into alpha-ketoglutarate [, ]. GluDH isozymes are generally involved with either ammonia assimilation or glutamate catabolism. Two separate enzymes are present in yeasts: the NADP-dependent enzyme, which catalyses the amination of alpha-ketoglutarate to L-glutamate; and the NAD-dependent enzyme, which catalyses the reverse reaction [] - this form links the L-amino acids with the Krebs cycle, which provides a major pathway for metabolic interconversion of alpha-amino acids and alpha- keto acids []. Leucine dehydrogenase (1.4.1.9 from EC) (LeuDH) is a NAD-dependent enzyme that catalyses the reversible deamination of leucine and several other aliphatic amino acids to their keto analogues []. Each subunit of this octameric enzyme from Bacillus sphaericus contains 364 amino acids and folds into two domains, separated by a deep cleft. The nicotinamide ring of the NAD+ cofactor binds deep in this cleft, which is thought to close during the hydride transfer step of the catalytic cycle. Phenylalanine dehydrogenase (1.4.1.20 from EC) (PheDH) is na NAD-dependent enzyme that catalyses the reversible deamidation of L-phenylalanine into phenyl-pyruvate []. Valine dehydrogenase (1.4.1.8 from EC) (ValDH) is an NADP-dependent enzyme that catalyses the reversible deamidation of L-valine into 3-methyl-2-oxobutanoate []. This entry represents the dimerisation region of these enzymes.; GO: 0016491 oxidoreductase activity, 0006520 cellular amino acid metabolic process, 0055114 oxidation-reduction process; PDB: 2BMA_C 1C1D_B 1BXG_A 1BW9_B 1C1X_A 2YFQ_B 3R3J_D 1V9L_C 1B26_C 2TMG_B ....
Probab=34.96 E-value=22 Score=26.03 Aligned_cols=73 Identities=19% Similarity=0.223 Sum_probs=44.6
Q ss_pred HHHHHHHHHhhhhccCCCC-------CCCcccccCCChHHHHHHHHHHHHHHHHHHHHHhHhhcCCCCCCccccchhhhc
Q psy8114 8 VLFLMVTLFMKKSLAMPPL-------QCTPGFVDQIPFKIRKICVALSTIYELSNAMESYIDDNGSMDQFVNPEINQLME 80 (111)
Q Consensus 8 v~~~~~~i~~~~A~AapPp-------~C~p~~lDelpPriRKiC~AL~ni~els~Ame~YIddq~~~~~~~~~~~~~l~d 80 (111)
|+.++..|..+.|++..|- .|+|.-++ ++..+++|. .|.++|+.||-... +.+-.|
T Consensus 50 v~~LA~~MT~K~Al~~lp~GGaKggI~~dp~~~s--~~e~e~l~r------~f~~~l~~~i~~~~---------~i~a~D 112 (131)
T PF02812_consen 50 VLRLARGMTYKCALAGLPFGGAKGGIKIDPKDLS--DNERERLTR------RFGRALSPFIGPGR---------DIPAPD 112 (131)
T ss_dssp HHHHHHHHHHHHHHTTSS-EEEEEEEESSGGGS---HHHHHHHHH------HHHHHHGGGSBTTT---------EEEEBB
T ss_pred HHHHHHHHHhhhhhccCCCCceeEEeecCccccc--HHHHHHHHH------HHHHHHHHHhccCc---------EEECCc
Confidence 5666777777888877765 56666555 566777777 45556666554431 222334
Q ss_pred CCCcccccceeeeeccc
Q psy8114 81 NGVKRQDMDHVFLRYGK 97 (111)
Q Consensus 81 ~~~KRQDVDHVFLRFGR 97 (111)
=|+-=+|+++++-+|.+
T Consensus 113 vgt~~~dm~~i~~~~~~ 129 (131)
T PF02812_consen 113 VGTGERDMAWIADEYRR 129 (131)
T ss_dssp TTBSHHHHHHHHHHHHH
T ss_pred CCCCHHHHHHHHHhchh
Confidence 45666777777766654
No 20
>COG4698 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=34.48 E-value=24 Score=28.51 Aligned_cols=63 Identities=24% Similarity=0.287 Sum_probs=41.0
Q ss_pred chhHHHHHHHHHHHHhhhhccCCCCCCCcccccCCChHHHHHHHHHHHHHHHHHHHHHhHhhc
Q psy8114 2 KWLQPLVLFLMVTLFMKKSLAMPPLQCTPGFVDQIPFKIRKICVALSTIYELSNAMESYIDDN 64 (111)
Q Consensus 2 ~~~~~~v~~~~~~i~~~~A~AapPp~C~p~~lDelpPriRKiC~AL~ni~els~Ame~YIddq 64 (111)
||+.=..|++-.+++..-+.-...|+=.|.-+.+.++.--|.-+.-.+=.||.+-||+||+|.
T Consensus 12 Kw~f~iLLAln~l~~~~i~~~vlsp~ee~t~~~~a~~~~~~~fqitttr~~LN~li~syl~~~ 74 (197)
T COG4698 12 KWLFFILLALNTLLAVLIALFVLSPREEPTHLEDASEKSEKSFQITTTRSQLNELINSYLEDY 74 (197)
T ss_pred HHHHHHHHHHHHHHHHHhheeeccCCCCCchhhccCcccceeEEEEccHHHHHHHHHHHHHHh
Confidence 677665555555555555555556666666666666644445555566678888899999984
No 21
>PLN00035 histone H4; Provisional
Probab=34.15 E-value=15 Score=26.60 Aligned_cols=45 Identities=18% Similarity=0.245 Sum_probs=29.7
Q ss_pred HHHHHHHHHhHhhcCCCCCCccccchhhhc----CCCcccccceeeeeccccCCCCc
Q psy8114 51 YELSNAMESYIDDNGSMDQFVNPEINQLME----NGVKRQDMDHVFLRYGKITSDGW 103 (111)
Q Consensus 51 ~els~Ame~YIddq~~~~~~~~~~~~~l~d----~~~KRQDVDHVFLRFGR~~~~~~ 103 (111)
.++..+++.|+++=. ++...+-+ ..+|=+||.+..-|+|| +.-|+
T Consensus 53 ~elr~vle~~l~~I~-------~dav~ya~HA~RKTV~~~DV~~Alkr~g~-~lyGf 101 (103)
T PLN00035 53 EETRGVLKIFLENVI-------RDAVTYTEHARRKTVTAMDVVYALKRQGR-TLYGF 101 (103)
T ss_pred HHHHHHHHHHHHHHH-------HHHHHHHHhcCCCcCcHHHHHHHHHHcCC-cCCCC
Confidence 366677788877632 44444433 34566799999999999 55443
No 22
>cd07375 Anticodon_Ia_like Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains. This domain is found in a variety of class Ia aminoacyl tRNA synthetases, C-terminal to the catalytic core domain. It recognizes and specifically binds to the anticodon of the tRNA. Aminoacyl tRNA synthetases catalyze the transfer of cognate amino acids to the 3'-end of their tRNAs by specifically recognizing cognate from non-cognate amino acids. Members include valyl-, leucyl-, isoleucyl-, cysteinyl-, arginyl-, and methionyl-tRNA synthethases. This superfamily also includes a domain from MshC, an enzyme in the mycothiol biosynthetic pathway.
Probab=33.04 E-value=30 Score=21.86 Aligned_cols=20 Identities=20% Similarity=0.584 Sum_probs=12.8
Q ss_pred HHHHHHHHHHHHHHhHhhcC
Q psy8114 46 ALSTIYELSNAMESYIDDNG 65 (111)
Q Consensus 46 AL~ni~els~Ame~YIddq~ 65 (111)
|++.+.+|.++.+.|++...
T Consensus 67 a~~~i~~~~~~~n~y~~~~~ 86 (117)
T cd07375 67 AVQELFKFTNELNWYLDELK 86 (117)
T ss_pred HHHHHHHHHHhccHHHHHhh
Confidence 44556677777777777543
No 23
>COG2165 PulG Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=31.78 E-value=1.4e+02 Score=19.61 Aligned_cols=29 Identities=24% Similarity=0.266 Sum_probs=24.2
Q ss_pred ChHHHHHHHHHHHHHHHHHHHHHhHhhcC
Q psy8114 37 PFKIRKICVALSTIYELSNAMESYIDDNG 65 (111)
Q Consensus 37 pPriRKiC~AL~ni~els~Ame~YIddq~ 65 (111)
..+.++..++......+.+++++|..+..
T Consensus 37 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 65 (149)
T COG2165 37 IDKAKRLEAAQQALRVIRLALEEYRLDGG 65 (149)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHcCC
Confidence 45666888998989999999999999865
No 24
>PF11328 DUF3130: Protein of unknown function (DUF3130; InterPro: IPR021477 This bacterial family of proteins has no known function.
Probab=31.22 E-value=61 Score=23.34 Aligned_cols=34 Identities=15% Similarity=0.114 Sum_probs=20.8
Q ss_pred CCCCCCcccccCCChHHHHHHHHHHHHHHHHHHHHHh
Q psy8114 24 PPLQCTPGFVDQIPFKIRKICVALSTIYELSNAMESY 60 (111)
Q Consensus 24 pPp~C~p~~lDelpPriRKiC~AL~ni~els~Ame~Y 60 (111)
+-|.=+.+..-.---.|.++|.||. +|+.++++|
T Consensus 27 y~plK~gnMaysraNsin~~r~Al~---dLv~~Ve~f 60 (90)
T PF11328_consen 27 YLPLKNGNMAYSRANSINQLRTALI---DLVDVVENF 60 (90)
T ss_pred cccccCCCeehhhhhhHHHHHHHHH---HHHHHHHHH
Confidence 3344444433222237889999998 666677766
No 25
>cd07356 HN_L-whirlin_R1_like First harmonin_N_like domain (repeat 1) of the long isoform of whirlin, and related domains. This subgroup contains the first of two harmonin_N_like domains of the long isoform of whirlin, and related domains. Whirlin is a postsynaptic density-95/discs-large/ZO-1 (PDZ) domain-containing scaffold protein which binds various components of the Usher protein network of the inner ear and the retina: erythrocyte protein p55, usherin, VlGR1, and myosin XVa. The long isoform of whirlin contains two harmonin_N_like domains, and three PDZ protein-binding domains, PDZ1-3. This first harmonin_N_like domain precedes PDZ1, and is a putative protein-binding module based on its sequence similarity to the N-terminal domain of harmonin. This first harmonin_N_like domain has been assayed for interaction with the cytoplasmic domain of cadherin 23 (a component of the Usher network and an interacting partner of the harmonin N-domain), however no interaction could be detected. Th
Probab=31.19 E-value=40 Score=23.79 Aligned_cols=48 Identities=19% Similarity=0.370 Sum_probs=33.0
Q ss_pred ChHHHHHHHHHHHH------HHHHHHHHHhHhhcCCCCCCccccchhhhcCCCccc
Q psy8114 37 PFKIRKICVALSTI------YELSNAMESYIDDNGSMDQFVNPEINQLMENGVKRQ 86 (111)
Q Consensus 37 pPriRKiC~AL~ni------~els~Ame~YIddq~~~~~~~~~~~~~l~d~~~KRQ 86 (111)
+--+|++=.+|..+ .+|.-++|.|=.+..-|+ +++....++|+..|||
T Consensus 2 s~nVr~lh~~l~~lLs~~Er~~f~h~Ln~Y~~~RnV~~--Lv~sL~~vLd~P~Krq 55 (78)
T cd07356 2 SANVRRLHNALTKLLSEAEREEFIHCLNDYHAKRNVYD--LVQSLKVVLDTPEKRQ 55 (78)
T ss_pred chhHHHHHHHHHHHccHHHHHHHHHHHHHHHhcccHHH--HHHHHHHHhCCHhHhH
Confidence 44567777777655 356667777766654222 5688888899999998
No 26
>KOG2046|consensus
Probab=31.17 E-value=31 Score=27.59 Aligned_cols=36 Identities=19% Similarity=0.222 Sum_probs=24.1
Q ss_pred HHHHHHHHHHHHHHHh-HhhcCCCCCCccccchhhhcCCCccc
Q psy8114 45 VALSTIYELSNAMESY-IDDNGSMDQFVNPEINQLMENGVKRQ 86 (111)
Q Consensus 45 ~AL~ni~els~Ame~Y-Iddq~~~~~~~~~~~~~l~d~~~KRQ 86 (111)
.-+|||.+|..|++.| +.+.. +=.+.+|.++..+.|
T Consensus 81 ~qmEnIs~Fi~a~~~ygv~~~d------~FqtvDLfE~kd~~~ 117 (193)
T KOG2046|consen 81 VQMENISNFIKAAKKYGVPEVD------LFQTVDLFEGKDMAQ 117 (193)
T ss_pred HHHHHHHHHHHHHHhcCCChhh------cccccccccCCCHHH
Confidence 4479999999999999 55543 344556666555444
No 27
>cd07996 WGR_MMR_like WGR domain of molybdate metabolism regulator and related proteins. The WGR domain is found in the putative Escherichia coli molybdate metabolism regulator and related bacterial proteins, as well as in various other bacterial proteins of unknown function. It has been called WGR after the most conserved central motif of the domain. The domain appears to occur in single-domain proteins and in a variety of domain architectures, together with ATP-dependent DNA ligase domains, WD40 repeats, leucine-rich repeats, and other domains. It has been proposed to function as a nucleic acid binding domain.
Probab=31.01 E-value=33 Score=21.72 Aligned_cols=16 Identities=25% Similarity=0.422 Sum_probs=13.2
Q ss_pred ceeeeeccccCCCCcc
Q psy8114 89 DHVFLRYGKITSDGWV 104 (111)
Q Consensus 89 DHVFLRFGR~~~~~~~ 104 (111)
-+|+-++||.|+-|=.
T Consensus 29 ~~v~~~wGRiG~~Gq~ 44 (74)
T cd07996 29 WSLVRRWGRIGTKGQS 44 (74)
T ss_pred EEEEEEECCCCCCCce
Confidence 4789999999987744
No 28
>PF13670 PepSY_2: Peptidase propeptide and YPEB domain This Prosite motif covers only the active site. This is family M4 in the peptidase classification.
Probab=28.90 E-value=98 Score=20.05 Aligned_cols=27 Identities=19% Similarity=0.160 Sum_probs=15.3
Q ss_pred HHHHHHHHHhhhhccCCCCCCCcccccCC
Q psy8114 8 VLFLMVTLFMKKSLAMPPLQCTPGFVDQI 36 (111)
Q Consensus 8 v~~~~~~i~~~~A~AapPp~C~p~~lDel 36 (111)
.++++++++++.|.| ++.|...--+++
T Consensus 3 ~~~~a~~~~a~~A~A--~~~~~~p~~~~~ 29 (83)
T PF13670_consen 3 ALALAAALLAAPAFA--SDDSDAPPADWL 29 (83)
T ss_pred HHHHHHHHHhHHhcC--CCCCCCCccccC
Confidence 455666666666666 445554444444
No 29
>COG4574 Eco Serine protease inhibitor ecotin [General function prediction only]
Probab=28.54 E-value=50 Score=25.92 Aligned_cols=20 Identities=30% Similarity=0.285 Sum_probs=15.1
Q ss_pred CchhHHHHHHHHHHHHhhhh
Q psy8114 1 MKWLQPLVLFLMVTLFMKKS 20 (111)
Q Consensus 1 ~~~~~~~v~~~~~~i~~~~A 20 (111)
||.|+|+|||.+.+-.++.+
T Consensus 1 ~~~~~~avl~Aa~~~A~a~~ 20 (162)
T COG4574 1 MKTILPAVLFAAFATASAWA 20 (162)
T ss_pred CchhHHHHHHHHHHHHhHhh
Confidence 78899999988776555544
No 30
>COG2317 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]
Probab=27.66 E-value=29 Score=31.44 Aligned_cols=47 Identities=26% Similarity=0.327 Sum_probs=37.7
Q ss_pred HHHHHHHHHHHHHHHHHhHhhcCCCCCCccccchhhhcCCCcccccceeee
Q psy8114 43 ICVALSTIYELSNAMESYIDDNGSMDQFVNPEINQLMENGVKRQDMDHVFL 93 (111)
Q Consensus 43 iC~AL~ni~els~Ame~YIddq~~~~~~~~~~~~~l~d~~~KRQDVDHVFL 93 (111)
+--.|+.|-+|++..-.|...+.+ .|--..+++|+|+.=+|||.||-
T Consensus 128 F~p~Lekiv~l~re~A~~~~~~~~----pYdaLld~yEpG~t~~~i~~vF~ 174 (497)
T COG2317 128 FKPYLEKIVELKREFAEYRGYEEH----PYDALLDLYEPGLTVRDVDRVFA 174 (497)
T ss_pred hhHHHHHHHHHHHHHHHhcccccC----cHHHHHHhhcCCCcHHHHHHHHH
Confidence 445688888999998899988763 24555677889999999999995
No 31
>COG3090 DctM TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]
Probab=27.21 E-value=83 Score=23.70 Aligned_cols=26 Identities=19% Similarity=0.235 Sum_probs=21.2
Q ss_pred CCCcccccCCChHHHHHHHHHHHHHH
Q psy8114 27 QCTPGFVDQIPFKIRKICVALSTIYE 52 (111)
Q Consensus 27 ~C~p~~lDelpPriRKiC~AL~ni~e 52 (111)
.+-.-+.+-+||+.||+|..+..+-=
T Consensus 74 i~vd~l~~~lp~~~r~~l~~~~~~l~ 99 (177)
T COG3090 74 IGVDVLVNLLPPRARKILRIIADLLI 99 (177)
T ss_pred eeehHHHHhCCHHHHHHHHHHHHHHH
Confidence 66677888999999999998876543
No 32
>cd07355 HN_L-delphilin-R2_like Second harmonin_N_like domain (repeat 2) of L-delphilin, and related domains. This subgroup contains the second of two harmonin_N_like domains of an alternatively spliced longer variant of mouse delphilin (L-delphilin), and related domains. Delphilin is a postsynaptic density-95/discs-large/ZO-1 (PDZ) domain-containing scaffold protein which binds the glutamate receptor delta-2 (GRID2) subunit and the monocarboxylate transporter 2 at the cerebellar parallel fiber-Purkinje cell synapses. This harmonin_N_like domain in L-delphilin follows the second PDZ protein-binding domain, PDZ2; it is also found in the shorter C-terminal isoforms (S-delphilin/delphilin alpha and delphilin beta). It is a putative protein-binding module based on its sequence similarity to the harmonin N-domain. The first harmonin_N_like domain of L-delphilin belongs to a different subgroup and is missing from S-delphilin.
Probab=26.76 E-value=46 Score=23.56 Aligned_cols=38 Identities=13% Similarity=0.259 Sum_probs=22.8
Q ss_pred ChHHHHHHHHHHHHHHHHHHHHHhHhhcCCCCCCccccchhhhcCCCccc
Q psy8114 37 PFKIRKICVALSTIYELSNAMESYIDDNGSMDQFVNPEINQLMENGVKRQ 86 (111)
Q Consensus 37 pPriRKiC~AL~ni~els~Ame~YIddq~~~~~~~~~~~~~l~d~~~KRQ 86 (111)
|+.=.-+|+||++..+ -+.++. ++.+.-+++|+..|||
T Consensus 18 ~~ER~~i~qaL~~y~~-~Rnvd~-----------Li~~v~pVLDtPaK~~ 55 (80)
T cd07355 18 PPERYGIKKALEDYFQ-HRNIDT-----------LIVDVYPVLDTPAKQV 55 (80)
T ss_pred HHHHHHHHHHHHHHHH-hccHHH-----------HHhhhhhhcCCHHHHH
Confidence 4444557777765555 232222 4556667888888886
No 33
>PF15172 Prolactin_RP: Prolactin-releasing peptide
Probab=26.36 E-value=23 Score=22.87 Aligned_cols=9 Identities=22% Similarity=0.479 Sum_probs=7.2
Q ss_pred eeccccCCC
Q psy8114 93 LRYGKITSD 101 (111)
Q Consensus 93 LRFGR~~~~ 101 (111)
-|||||.+.
T Consensus 29 GRFGrR~aa 37 (47)
T PF15172_consen 29 GRFGRRRAA 37 (47)
T ss_pred ccccchhcc
Confidence 489999873
No 34
>PRK11443 lipoprotein; Provisional
Probab=25.92 E-value=69 Score=23.51 Aligned_cols=18 Identities=11% Similarity=-0.081 Sum_probs=10.5
Q ss_pred HHhhhhcc--CCCCCCCccc
Q psy8114 15 LFMKKSLA--MPPLQCTPGF 32 (111)
Q Consensus 15 i~~~~A~A--apPp~C~p~~ 32 (111)
++++=|.+ .+|+.|+.+.
T Consensus 12 lLsgCa~~~~~~~~~~~~~d 31 (124)
T PRK11443 12 LLSGCQIDPYTHAPTLTSTD 31 (124)
T ss_pred HHHhccCCCCCChhhhcccC
Confidence 44444443 3677888765
No 35
>TIGR01796 CM_mono_aroH monofunctional chorismate mutase, gram positive type, clade 1. This model represents a family of monofunctional (non-fused) chorismate mutases from gram positive bacteria (Firmicutes) and cyanobacteria. Trusted members of the family are found in operons with other enzymes of the chorismate pathways, both up- and downstream of CM (Listeria, Bacillus, Oceanobacillus) or are the sole CM in the genome where the other members of the chorismate pathways are found elsewhere in the genome (Nostoc, Thermosynechococcus).
Probab=25.70 E-value=30 Score=25.77 Aligned_cols=16 Identities=38% Similarity=0.725 Sum_probs=13.1
Q ss_pred hcCCCcccccceeeee
Q psy8114 79 MENGVKRQDMDHVFLR 94 (111)
Q Consensus 79 ~d~~~KRQDVDHVFLR 94 (111)
+++..+++++-|||||
T Consensus 93 v~t~~~~~~i~HvYL~ 108 (117)
T TIGR01796 93 IESEKPRTGIHHVYLR 108 (117)
T ss_pred EecCCCCCCccccccc
Confidence 4466688999999997
No 36
>PF06840 DUF1241: Protein of unknown function (DUF1241); InterPro: IPR009652 This family consists of several programmed cell death 10 protein (PDCD10 or TFAR15) sequences. The function of this family is unknown.; PDB: 3L8I_A 3RQG_B 3RQE_B 3L8J_A 3RQF_B 3AJM_B.
Probab=25.61 E-value=74 Score=24.54 Aligned_cols=20 Identities=30% Similarity=0.433 Sum_probs=17.7
Q ss_pred HHHHHHHHHHHHHHHhHhhc
Q psy8114 45 VALSTIYELSNAMESYIDDN 64 (111)
Q Consensus 45 ~AL~ni~els~Ame~YIddq 64 (111)
..|++|-++++|++..+|+-
T Consensus 117 ~FL~tIK~IAsaIK~lLdAv 136 (154)
T PF06840_consen 117 TFLETIKEIASAIKKLLDAV 136 (154)
T ss_dssp HHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 37889999999999999984
No 37
>PF03800 Nuf2: Nuf2 family; InterPro: IPR005549 Members of this family are components of the mitotic spindle. It has been shown that Nuf2 from yeast is part of a complex called the Ndc80p complex []. This complex is thought to bind to the microtubules of the spindle. An arabidopsis protein has been included in this family that has previously not been identified as a member of this family, Q9C953 from SWISSPROT. The match is not strong, but in common with other members of this family contains coiled-coil to the C terminus of this region.; GO: 0007067 mitosis, 0000775 chromosome, centromeric region; PDB: 2VE7_D 3IZ0_D.
Probab=24.88 E-value=1.1e+02 Score=21.78 Aligned_cols=27 Identities=19% Similarity=0.262 Sum_probs=21.5
Q ss_pred ChHHHHHHHHHHHHHHHHHHHHHhHhh
Q psy8114 37 PFKIRKICVALSTIYELSNAMESYIDD 63 (111)
Q Consensus 37 pPriRKiC~AL~ni~els~Ame~YIdd 63 (111)
|.|.|++-+||-|+..|-+.-...+++
T Consensus 112 ~~R~~~~LSalINF~~Fre~~~~~~~~ 138 (146)
T PF03800_consen 112 PKRTRRILSALINFARFREERMDEYEE 138 (146)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 789999999999999986665544444
No 38
>PF08479 POTRA_2: POTRA domain, ShlB-type; InterPro: IPR013686 The POTRA domain (for polypeptide-transport-associated domain) is found towards the N terminus of ShlB family proteins (IPR005565 from INTERPRO). ShlB is important in the secretion and activation of the haemolysin ShlA. It has been postulated that the POTRA domain has a chaperone-like function over ShlA; it may fold back into the C-terminal beta-barrel channel []. ; PDB: 2X8X_X 2QDZ_A 3NJT_A 3MC8_A 3MC9_B.
Probab=24.35 E-value=51 Score=20.95 Aligned_cols=22 Identities=27% Similarity=0.788 Sum_probs=19.1
Q ss_pred HHHHHHHHHHHHHHHHhHhhcC
Q psy8114 44 CVALSTIYELSNAMESYIDDNG 65 (111)
Q Consensus 44 C~AL~ni~els~Ame~YIddq~ 65 (111)
|..++.+.++.++++.|..+++
T Consensus 30 ~l~~~~l~~~~~~l~~~y~~~G 51 (76)
T PF08479_consen 30 CLTLADLQQLADALTNYYREKG 51 (76)
T ss_dssp BB-HHHHHHHHHHHHHHHHHTT
T ss_pred CcCHHHHHHHHHHHHHHHHHcC
Confidence 8889999999999999888886
No 39
>PRK00888 ftsB cell division protein FtsB; Reviewed
Probab=24.07 E-value=95 Score=21.88 Aligned_cols=13 Identities=46% Similarity=0.659 Sum_probs=7.4
Q ss_pred CchhHHHHHHHHH
Q psy8114 1 MKWLQPLVLFLMV 13 (111)
Q Consensus 1 ~~~~~~~v~~~~~ 13 (111)
|||+.=++++++.
T Consensus 1 m~~~~~vll~ll~ 13 (105)
T PRK00888 1 MRLLTLLLLALLV 13 (105)
T ss_pred CcHHHHHHHHHHH
Confidence 7887654444443
No 40
>cd07957 Anticodon_Ia_Met Anticodon-binding domain of methionyl tRNA synthetases. This domain is found in methionyl tRNA synthetases (MetRS), which belong to the class Ia aminoacyl tRNA synthetases. It lies C-terminal to the catalytic core domain, and recognizes and specifically binds to the tRNA anticodon (CAU). MetRS catalyzes the transfer of methionine to the 3'-end of its tRNA.
Probab=23.93 E-value=89 Score=20.39 Aligned_cols=23 Identities=39% Similarity=0.562 Sum_probs=14.3
Q ss_pred HHHHHHHHHHHHHHHHhHhhcCC
Q psy8114 44 CVALSTIYELSNAMESYIDDNGS 66 (111)
Q Consensus 44 C~AL~ni~els~Ame~YIddq~~ 66 (111)
-.|++.+.+|.+..+.|+++..+
T Consensus 62 ~~a~~~~~~~~~~~n~y~~~~kp 84 (129)
T cd07957 62 RKALEEIMELARAANKYIDETAP 84 (129)
T ss_pred HHHHHHHHHHHHHHHhhhccCCC
Confidence 34555556677777777776543
No 41
>PRK13733 conjugal transfer protein TraV; Provisional
Probab=23.82 E-value=1.2e+02 Score=24.02 Aligned_cols=57 Identities=19% Similarity=0.276 Sum_probs=40.2
Q ss_pred CchhHHHHHHHHHHHHhhhhccCCCCCCCcccccCCChHHHHHHHHHHHHHHHHHHHHHhHhhcC
Q psy8114 1 MKWLQPLVLFLMVTLFMKKSLAMPPLQCTPGFVDQIPFKIRKICVALSTIYELSNAMESYIDDNG 65 (111)
Q Consensus 1 ~~~~~~~v~~~~~~i~~~~A~AapPp~C~p~~lDelpPriRKiC~AL~ni~els~Ame~YIddq~ 65 (111)
||-+..|.+++...++++-|....--.|+..--| =|.+++.-+++++..|+--+.+.
T Consensus 1 MK~~~~li~l~~~LlL~GCAg~~s~f~C~~t~sd--------qclsme~A~~~a~~g~~~~~~kp 57 (171)
T PRK13733 1 MKQISLLIPLLGTLLLSGCAGTNSEFECNATTSD--------TCMTMEQANEKAKKLEQSSDAKP 57 (171)
T ss_pred CchhhHHHHHHHHHHhccccCCCCCCCCCCCCCc--------ceeeHHHHHHHHHhcccccccCc
Confidence 6766776666666667776664222379955555 49999999999988877766654
No 42
>cd02185 AroH Chorismate mutase (AroH) is one of at least five chorismate-utilizing enzymes present in microorganisms that catalyze the rearrangement of chorismate to prephenic acid, the first committed step in the biosynthesis of aromatic amino acids. In prokaryotes, chorismate mutase may be fused to prephenate dehydratase, prephenate dehydrogenase, or 3-deoxy-D-arabino-heptulosonat-7-phosphate (DAHP) as part of a bifunctional enzyme. The AroH domain forms a homotrimer with three-fold symmetry.
Probab=23.30 E-value=35 Score=25.38 Aligned_cols=16 Identities=25% Similarity=0.592 Sum_probs=12.7
Q ss_pred hcCCCcccccceeeee
Q psy8114 79 MENGVKRQDMDHVFLR 94 (111)
Q Consensus 79 ~d~~~KRQDVDHVFLR 94 (111)
+++..+++++-|||||
T Consensus 93 v~t~~~q~~i~HVYL~ 108 (117)
T cd02185 93 VNTDKAQQEIKHVYLG 108 (117)
T ss_pred EecCCCCCCccCcccc
Confidence 3466678899999997
No 43
>PF01798 Nop: Putative snoRNA binding domain; InterPro: IPR002687 This domain is present in various pre-mRNA processing ribonucleoproteins. The function of the domain is unknown however it may be a common RNA or snoRNA or Nop1p binding domain. Proteins have been implicated in an expanding variety of functions during pre-mRNA splicing. Molecular cloning has identified genes encoding spliceosomal proteins that potentially act as novel RNA helicases, GTPases, or protein isomerases. Novel protein-protein and protein-RNA interactions that are required for functional spliceosome formation have also been described. Finally, growing evidence suggests that proteins may contribute directly to the spliceosome's active sites [].; PDB: 3GQX_B 3GQU_A 3NVM_A 3NMU_B 2NNW_C 3NVI_A 3NVK_A 2OZB_E 3SIU_B 3SIV_H ....
Probab=23.27 E-value=1.3e+02 Score=22.59 Aligned_cols=25 Identities=20% Similarity=0.425 Sum_probs=23.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHhHhhc
Q psy8114 40 IRKICVALSTIYELSNAMESYIDDN 64 (111)
Q Consensus 40 iRKiC~AL~ni~els~Ame~YIddq 64 (111)
+.++|.-+...+++-+.|.+||+++
T Consensus 2 I~~~~~~~~~L~~~r~~l~~yi~~r 26 (150)
T PF01798_consen 2 ILSACDEVISLSEYRKELLEYIESR 26 (150)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 6789999999999999999999997
No 44
>COG0549 ArcC Carbamate kinase [Amino acid transport and metabolism]
Probab=22.85 E-value=34 Score=29.38 Aligned_cols=16 Identities=31% Similarity=0.659 Sum_probs=13.0
Q ss_pred ccccceeeeeccccCC
Q psy8114 85 RQDMDHVFLRYGKITS 100 (111)
Q Consensus 85 RQDVDHVFLRFGR~~~ 100 (111)
=+|||-||+-||+..-
T Consensus 232 LTdVd~Vy~n~gkp~q 247 (312)
T COG0549 232 LTDVDAVYVNFGKPNQ 247 (312)
T ss_pred EeccchheecCCCccc
Confidence 4789999999998763
No 45
>cd07997 WGR_PARP WGR domain of poly(ADP-ribose) polymerases. The WGR domain is found in a variety of eukaryotic poly(ADP-ribose) polymerases (PARPs). It has been called WGR after the most conserved central motif of the domain. The domain typically occurs together with a catalytic PARP domain, and is between 70 and 80 residues in length. It has been proposed to function as a nucleic acid binding domain. PARPs catalyze the NAD(+)-dependent synthesis of ADP-ribose polymers and their addition to various nuclear proteins and histones. Higher eukaryotes contain several PARPs and there may be up to 17 human PARP-like proteins, with three of them (PARP-1, PARP-2, and PARP-3) containing a WGR domain. The synthesis of poly-ADP-ribose requires multiple enzymatic activities for initiation, trans-ADP-ribosylation, elongation, branching, and release of the polymer from the enzyme. Poly-ADP-ribosylation was thought to be a reversible post-translational covalent modification that serves as a regulator
Probab=22.77 E-value=52 Score=22.57 Aligned_cols=14 Identities=29% Similarity=0.726 Sum_probs=12.2
Q ss_pred ceeeeeccccCCCC
Q psy8114 89 DHVFLRYGKITSDG 102 (111)
Q Consensus 89 DHVFLRFGR~~~~~ 102 (111)
=+||.|.||.|..|
T Consensus 40 y~v~~~WGRVG~~G 53 (102)
T cd07997 40 YALFTRWGRVGERG 53 (102)
T ss_pred EEEEEEEccCCCcC
Confidence 57999999999866
No 46
>PF07327 Neuroparsin: Neuroparsin; InterPro: IPR010850 This family consists of several locust specific neuroparsin proteins. Neuroparsins are produced by the A1 type of protocerebral median neurosecretory cells of the PI-CC system and display pleiotropic activities: inhibition of the effect of juvenile hormone, stimulation of fluid reabsorption of isolated recta, induction of an increase in hemolymph lipid and trehalose levels, and neurotrophic effects [].
Probab=22.71 E-value=84 Score=23.20 Aligned_cols=21 Identities=33% Similarity=0.502 Sum_probs=14.4
Q ss_pred hHHHHHHHHHHHHhhhhccCCC
Q psy8114 4 LQPLVLFLMVTLFMKKSLAMPP 25 (111)
Q Consensus 4 ~~~~v~~~~~~i~~~~A~AapP 25 (111)
|.-++|+.+|++| ..+.++|+
T Consensus 7 l~aatLl~~V~Lf-~~~~~~p~ 27 (103)
T PF07327_consen 7 LAAATLLIAVILF-HRAEANPI 27 (103)
T ss_pred HHHHHHHHHHHHH-hccccCCc
Confidence 5567788888888 56666553
No 47
>cd00385 Isoprenoid_Biosyn_C1 Isoprenoid Biosynthesis enzymes, Class 1. Superfamily of trans-isoprenyl diphosphate synthases (IPPS) and class I terpene cyclases which either synthesis geranyl/farnesyl diphosphates (GPP/FPP) or longer chained products from isoprene precursors, isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP), or use geranyl (C10)-, farnesyl (C15)-, or geranylgeranyl (C20)-diphosphate as substrate. These enzymes produce a myriad of precursors for such end products as steroids, cholesterol, sesquiterpenes, heme, carotenoids, retinoids, and diterpenes; and are widely distributed among archaea, bacteria, and eukaryota.The enzymes in this superfamily share the same 'isoprenoid synthase fold' and include several subgroups. The head-to-tail (HT) IPPS catalyze the successive 1'-4 condensation of the 5-carbon IPP to the growing isoprene chain to form linear, all-trans, C10-, C15-, C20- C25-, C30-, C35-, C40-, C45-, or C50-isoprenoid diphosphates. Cyclic monoter
Probab=22.44 E-value=1.2e+02 Score=20.81 Aligned_cols=32 Identities=25% Similarity=0.386 Sum_probs=28.2
Q ss_pred cCCChHHHHHHHHHHHHHHHHHHHHHhHhhcC
Q psy8114 34 DQIPFKIRKICVALSTIYELSNAMESYIDDNG 65 (111)
Q Consensus 34 DelpPriRKiC~AL~ni~els~Ame~YIddq~ 65 (111)
.+..+.+++++..+..+.|+.|.+.+|-.+..
T Consensus 139 ~~~~~~~~~~~~~~g~~~ql~nDl~~~~~e~~ 170 (243)
T cd00385 139 AELLEALRKLGRALGLAFQLTNDLLDYEGDAE 170 (243)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhccCCHH
Confidence 34588999999999999999999999988864
No 48
>cd07962 Anticodon_Ia_Val Anticodon-binding domain of valyl tRNA synthetases. This domain is found in valyl tRNA synthetases (ValRS), which belong to the class Ia aminoacyl tRNA synthetases. It lies C-terminal to the catalytic core domain, and recognizes and specifically binds to the tRNA anticodon. ValRS catalyzes the transfer of valine to the 3'-end of its tRNA.
Probab=22.41 E-value=79 Score=21.70 Aligned_cols=24 Identities=17% Similarity=0.171 Sum_probs=17.6
Q ss_pred HHHHHHHHHHHH--HHHHhHhhcCCC
Q psy8114 44 CVALSTIYELSN--AMESYIDDNGSM 67 (111)
Q Consensus 44 C~AL~ni~els~--Ame~YIddq~~~ 67 (111)
=.|++.+.++++ +.|.|++...+|
T Consensus 68 ~~al~~i~~~~~~~~~N~Yi~~~~pW 93 (135)
T cd07962 68 SEAATALYEFFWNDFCDWYLELVKPR 93 (135)
T ss_pred HHHHHHHHHHHHHHHhHHHHHHhhHH
Confidence 346677778876 688888887754
No 49
>PF06287 DUF1039: Protein of unknown function (DUF1039); InterPro: IPR010437 This family describes a small protein, always smaller than 100 amino acids, encoded in pathogenicity islands for bacterial type III secretion systems in various strains of Yersinia, Salmonella, and enteropathogenic Escherichia coli, as well as Chromobacterium violaceum and Citrobacter rodentium. Although strictly associated with type III secretion systems, this protein seems not yet to have been characterised as part of the apparatus or as an effector protein.
Probab=22.30 E-value=68 Score=21.72 Aligned_cols=19 Identities=26% Similarity=0.436 Sum_probs=14.8
Q ss_pred cccccCCChHHHHHHHHHHHH
Q psy8114 30 PGFVDQIPFKIRKICVALSTI 50 (111)
Q Consensus 30 p~~lDelpPriRKiC~AL~ni 50 (111)
|.+++ ++..|.+|.|+--|
T Consensus 20 P~Li~--D~~~r~~c~alllf 38 (66)
T PF06287_consen 20 PQLIP--DEEDRAVCEALLLF 38 (66)
T ss_pred hhhcC--CHhHHHHHHHHHHH
Confidence 55667 89999999997643
No 50
>PRK12871 ubiA prenyltransferase; Reviewed
Probab=21.96 E-value=1e+02 Score=25.14 Aligned_cols=43 Identities=19% Similarity=0.378 Sum_probs=26.6
Q ss_pred HHHHHHHHHHhHhhcCCCCCCccccchhhhcCCCcccccceeeee-----ccccCCCCcccccccc
Q psy8114 50 IYELSNAMESYIDDNGSMDQFVNPEINQLMENGVKRQDMDHVFLR-----YGKITSDGWVSPVHVY 110 (111)
Q Consensus 50 i~els~Ame~YIddq~~~~~~~~~~~~~l~d~~~KRQDVDHVFLR-----FGR~~~~~~~~~~~~~ 110 (111)
..+-++++|+|.|-+- .++||..-.-| =.|...+|++||-+++
T Consensus 53 ~~~ag~~iND~~D~~~------------------D~~~v~rtm~r~~~P~~~Rpl~sG~is~~~a~ 100 (297)
T PRK12871 53 GFEAGFVLNDYVDRKR------------------DRLDVENTLTRYWRPFKERPIPSGKLSSKNAF 100 (297)
T ss_pred HHHHHHHHhhHHHHhc------------------CcchHhhhhhccccCCCCCccCCCCcCHHHHH
Confidence 3477889999999873 11222222222 2377789999987653
No 51
>PF13080 DUF3926: Protein of unknown function (DUF3926)
Probab=21.85 E-value=1.3e+02 Score=19.14 Aligned_cols=32 Identities=16% Similarity=0.413 Sum_probs=24.0
Q ss_pred cccCCChHHHHHHHHHHHHHHHHHHHHHhHhhcC
Q psy8114 32 FVDQIPFKIRKICVALSTIYELSNAMESYIDDNG 65 (111)
Q Consensus 32 ~lDelpPriRKiC~AL~ni~els~Ame~YIddq~ 65 (111)
+++|||.-++.-..-.-||.| +.+-+|+..+.
T Consensus 3 IleELP~PiqQsAkqmlnILQ--EELssy~~E~~ 34 (44)
T PF13080_consen 3 ILEELPTPIQQSAKQMLNILQ--EELSSYPQEQP 34 (44)
T ss_pred hHhhcCchHHHHHHHHHHHHH--HHHHhchhhcc
Confidence 578899877776666666665 57888998875
No 52
>cd08003 WGR_PARP2_like WGR domain of poly(ADP-ribose) polymerases. The WGR domain is found in a variety of eukaryotic poly(ADP-ribose) polymerases (PARPs). It has been called WGR after the most conserved central motif of the domain. The domain typically occurs together with a catalytic PARP domain, and is between 70 and 80 residues in length. It has been proposed to function as a nucleic acid binding domain. PARPs catalyze the NAD(+)-dependent synthesis of ADP-ribose polymers and their addition to various nuclear proteins. Higher eukaryotes contain several PARPs and and there may be up to 17 human PARP-like proteins, with three of them (PARP-1, PARP-2, and PARP-3) containing a WGR domain. The synthesis of poly-ADP-ribose requires multiple enzymatic activities for initiation, trans-ADP-ribosylation, elongation, branching, and release of the polymer from the enzyme. This subfamily is composed of human PARP-2 and similar proteins. Similar to PARP-1, PARP-2 is ubiquitously expressed and it
Probab=21.32 E-value=54 Score=23.15 Aligned_cols=25 Identities=28% Similarity=0.676 Sum_probs=16.7
Q ss_pred hhhhcCCCcccccceeeeeccccCCCC
Q psy8114 76 NQLMENGVKRQDMDHVFLRYGKITSDG 102 (111)
Q Consensus 76 ~~l~d~~~KRQDVDHVFLRFGR~~~~~ 102 (111)
.||+++.. -.-=+||.|.||.|..|
T Consensus 29 lQlle~~~--~~~y~~~~rWGRVG~~G 53 (103)
T cd08003 29 IQLLEDDA--EKIYSVWFRWGRVGKKG 53 (103)
T ss_pred EEEEEeCC--CCeEEEEEeEccccccc
Confidence 34554332 23568999999999765
No 53
>PF14377 DUF4414: Domain of unknown function (DUF4414)
Probab=20.99 E-value=38 Score=23.63 Aligned_cols=27 Identities=33% Similarity=0.484 Sum_probs=20.8
Q ss_pred cCCCCCCCcccccCCChHHHHHHHHHH
Q psy8114 22 AMPPLQCTPGFVDQIPFKIRKICVALS 48 (111)
Q Consensus 22 AapPp~C~p~~lDelpPriRKiC~AL~ 48 (111)
...++...|.||+.||+.+|.=-.+-+
T Consensus 39 ~~~~~~I~pefL~ALP~diR~EVl~qe 65 (108)
T PF14377_consen 39 APQPSQIDPEFLAALPPDIREEVLAQE 65 (108)
T ss_pred CCCccccCHHHHHhCCHHHHHHHHHHH
Confidence 445678999999999999997544444
No 54
>PF08334 T2SG: Type II secretion system (T2SS), protein G; InterPro: IPR013545 The general secretion pathway, or type II pullulanase-like machinery, is responsible for the transport of proteins from the periplasm across the outer membrane in Gram-negative bacteria [, ]. This entry includes protein G (e.g. P45773 from SWISSPROT, Q00514 from SWISSPROT) involved in this pathway. The PulG protein (P15746 from SWISSPROT) is thought to be anchored in the inner membrane with its C terminus directed towards the periplasm []. Together with other members of the secretion machinery, it is thought to assemble into a pilus-like structure that may function as a dynamic mechanism to push secreted proteins out of the cell. The polypeptide is organised into a long N-terminal alpha-helix followed by a loop region that separates it from a C-terminal anti-parallel beta-sheet []. ; PDB: 1T92_A 3G20_B 3GN9_B 2KEP_A 3FU1_B.
Probab=20.47 E-value=2e+02 Score=19.47 Aligned_cols=25 Identities=32% Similarity=0.403 Sum_probs=18.5
Q ss_pred HHHHHHHHHHHHHHHHHHhHhhcCC
Q psy8114 42 KICVALSTIYELSNAMESYIDDNGS 66 (111)
Q Consensus 42 KiC~AL~ni~els~Ame~YIddq~~ 66 (111)
|.-.|.+++..|.+||+.|--|.+.
T Consensus 10 k~~~a~~~l~~i~~Ale~Y~~d~G~ 34 (108)
T PF08334_consen 10 KEARAKADLRTIKTALEMYYLDNGR 34 (108)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHSS
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhCC
Confidence 3445556666888899999999764
No 55
>PF07736 CM_1: Chorismate mutase type I; InterPro: IPR008243 Chorismate mutase (CM; 5.4.99.5 from EC) catalyses the reaction at the branch point of the biosynthetic pathway leading to the three aromatic amino acids, phenylalanine, tryptophan and tyrosine (chorismic acid is the last common intermediate, and CM leads to the L-phenylalanine/L-tyrosine branch). It is part of the shikimate pathway, which is present only in bacteria, fungi and plants. This entry represents a family of monofunctional (non-fused) chorismate mutases from Gram-positive bacteria (Firmicutes) and cyanobacteria. Trusted members of the family are found in operons with other enzymes of the chorismate pathways, both up- and downstream of CM (Listeria, Bacillus, Oceanobacillus) or are the sole CM in the genome where the other members of the chorismate pathways are found elsewhere in the genome (Nostoc, Thermosynechococcus). They are monofunctional, homotrimeric, nonallosteric enzymes and are not regulated by the end-product aromatic amino acids. The three types of CM are AroQ class, Prokaryotic type (e.g., IPR008239 from INTERPRO amongst others); AroQ class, Eukaryotic type (IPR008238 from INTERPRO); and AroH class. They fall into two structural folds (AroQ class and AroH class) which are completely unrelated []. The two types of the AroQ structural class (the Escherichia coli CM dimer and the yeast CM monomer) can be structurally superimposed, and the topology of the four-helix bundle forming the active site is conserved []. For additional information please see [, , , , , , ].; PDB: 2CHS_K 2CHT_L 1COM_J 1FNJ_A 1FNK_A 1DBF_C 1UI9_A 1ODE_A 1UFY_A 1XHO_C ....
Probab=20.26 E-value=46 Score=24.77 Aligned_cols=16 Identities=25% Similarity=0.553 Sum_probs=9.4
Q ss_pred cCCCcccccceeeeec
Q psy8114 80 ENGVKRQDMDHVFLRY 95 (111)
Q Consensus 80 d~~~KRQDVDHVFLRF 95 (111)
++..+++++-|||||=
T Consensus 94 ~t~~~~~ei~HVYL~~ 109 (118)
T PF07736_consen 94 NTDKSQSEIKHVYLRG 109 (118)
T ss_dssp EESS-GGGS--EEEGG
T ss_pred ecCCCccccccccccc
Confidence 3555666999999973
No 56
>KOG3574|consensus
Probab=20.20 E-value=26 Score=31.85 Aligned_cols=19 Identities=42% Similarity=0.997 Sum_probs=14.1
Q ss_pred cceeee-eccccCCCCcccccc
Q psy8114 88 MDHVFL-RYGKITSDGWVSPVH 108 (111)
Q Consensus 88 VDHVFL-RFGR~~~~~~~~~~~ 108 (111)
||.+|- |||||-| |+-|+.
T Consensus 87 VDs~y~k~~Grrks--Wvvp~q 106 (510)
T KOG3574|consen 87 VDSVYSKRFGRRKS--WVVPCQ 106 (510)
T ss_pred hHHHHHHhhccccc--eeeehH
Confidence 566664 7999986 888864
No 57
>PF00616 RasGAP: GTPase-activator protein for Ras-like GTPase; InterPro: IPR001936 Ras proteins are membrane-associated molecular switches that bind GTP and GDP and slowly hydrolyze GTP to GDP []. This intrinsic GTPase activity of ras is stimulated by a family of proteins collectively known as 'GAP' or GTPase-activating proteins [, ]. As it is the GTP bound form of ras which is active, these proteins are said to be down-regulators of ras. The Ras GTPase-activating proteins are quite large (from 765 residues for sar1 to 3079 residues for IRA2) but share only a limited (about 250 residues) region of sequence similarity, referred to as the 'catalytic domain' or rasGAP domain. Note: There are distinctly different GAPs for the rap and rho/rac subfamilies of ras-like proteins (reviewed in reference []) that do not share sequence similarity with ras GAPs.; GO: 0005096 GTPase activator activity, 0051056 regulation of small GTPase mediated signal transduction, 0005622 intracellular; PDB: 3BXJ_B 1WQ1_G 1WER_A 1NF1_A 3FAY_A.
Probab=20.14 E-value=1.1e+02 Score=22.04 Aligned_cols=17 Identities=41% Similarity=0.749 Sum_probs=12.9
Q ss_pred ccCCChHHHHHHHHHHH
Q psy8114 33 VDQIPFKIRKICVALST 49 (111)
Q Consensus 33 lDelpPriRKiC~AL~n 49 (111)
++.+|+.+|.+|..|.+
T Consensus 117 ~~~~P~~lr~i~~~i~~ 133 (197)
T PF00616_consen 117 IDQIPPSLRYICKQIYE 133 (197)
T ss_dssp GGGS-HHHHHHHHHHHH
T ss_pred HHHhhHHHHHHHHHHHH
Confidence 56789999999996653
No 58
>PF06430 L_lactis_RepB_C: Lactococcus lactis RepB C-terminus; InterPro: IPR010931 This entry represents the C-terminal region of RepB proteins from Lactococcus lactis (See IPR000525 from INTERPRO).
Probab=20.04 E-value=47 Score=25.14 Aligned_cols=8 Identities=63% Similarity=0.812 Sum_probs=6.8
Q ss_pred CCCccccc
Q psy8114 81 NGVKRQDM 88 (111)
Q Consensus 81 ~~~KRQDV 88 (111)
+.+||||+
T Consensus 115 ptvk~qdl 122 (122)
T PF06430_consen 115 PTVKRQDL 122 (122)
T ss_pred HHHHhccC
Confidence 78999985
Done!