Query 044152
Match_columns 300
No_of_seqs 95 out of 104
Neff 5.3
Searched_HMMs 46136
Date Fri Mar 29 11:55:11 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/044152.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/044152hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2657 Transmembrane glycopro 100.0 6.8E-57 1.5E-61 443.5 9.7 258 1-299 299-595 (596)
2 PF05450 Nicastrin: Nicastrin; 99.8 1.7E-20 3.8E-25 172.6 5.5 68 36-109 147-234 (234)
3 PF04389 Peptidase_M28: Peptid 81.7 1.6 3.4E-05 37.4 3.4 45 44-97 134-178 (179)
4 PF05552 TM_helix: Conserved T 59.7 20 0.00043 25.5 4.3 29 271-299 17-45 (53)
5 PF06305 DUF1049: Protein of u 52.8 61 0.0013 23.5 6.1 15 251-265 3-17 (68)
6 cd04751 Commd3 COMM_Domain con 52.4 14 0.00031 29.6 2.8 30 7-36 13-42 (95)
7 KOG2657 Transmembrane glycopro 48.2 3 6.5E-05 43.3 -2.1 64 98-161 375-441 (596)
8 PF14316 DUF4381: Domain of un 45.6 27 0.00059 29.7 3.7 34 266-300 20-53 (146)
9 PF00672 HAMP: HAMP domain; I 43.1 15 0.00032 26.3 1.4 28 272-299 2-29 (70)
10 PHA02706 hypothetical protein; 42.3 16 0.00034 26.6 1.4 31 267-297 3-38 (58)
11 PRK01844 hypothetical protein; 40.5 60 0.0013 25.3 4.4 29 270-298 5-34 (72)
12 PRK00523 hypothetical protein; 38.7 66 0.0014 25.0 4.4 29 270-298 6-35 (72)
13 PF09835 DUF2062: Uncharacteri 37.1 56 0.0012 27.7 4.3 27 272-298 125-151 (154)
14 KOG2195 Transferrin receptor a 34.3 45 0.00097 36.1 3.9 56 49-113 484-545 (702)
15 PF05745 CRPA: Chlamydia 15 kD 34.0 34 0.00074 29.7 2.4 33 261-293 58-90 (150)
16 PF13974 YebO: YebO-like prote 33.5 39 0.00084 26.8 2.5 24 273-296 2-25 (80)
17 PF04246 RseC_MucC: Positive r 30.9 66 0.0014 26.8 3.7 29 268-296 96-124 (135)
18 PF08923 MAPKK1_Int: Mitogen-a 27.9 49 0.0011 27.7 2.4 23 50-75 3-27 (119)
19 COG1585 Membrane protein impli 27.5 72 0.0016 27.4 3.4 26 274-299 50-75 (140)
20 PF05283 MGC-24: Multi-glycosy 25.6 76 0.0017 28.8 3.3 31 264-294 155-185 (186)
21 PF15048 OSTbeta: Organic solu 25.5 76 0.0016 27.2 3.0 31 257-287 24-55 (125)
22 PF01102 Glycophorin_A: Glycop 25.0 1E+02 0.0022 26.2 3.7 10 283-292 82-91 (122)
23 TIGR02976 phageshock_pspB phag 24.5 1.4E+02 0.003 23.3 4.1 27 270-296 4-30 (75)
24 PF02009 Rifin_STEVOR: Rifin/s 23.6 1.2E+02 0.0026 29.4 4.5 31 268-298 257-288 (299)
25 PF15102 TMEM154: TMEM154 prot 22.7 16 0.00034 32.0 -1.5 31 269-299 58-89 (146)
26 COG3763 Uncharacterized protei 22.1 2.1E+02 0.0045 22.3 4.6 16 283-298 19-34 (71)
27 PF06305 DUF1049: Protein of u 22.1 1.7E+02 0.0038 21.1 4.2 13 268-280 24-36 (68)
28 PHA02955 hypothetical protein; 22.0 77 0.0017 29.5 2.6 25 274-298 184-208 (213)
29 PF15110 TMEM141: TMEM141 prot 22.0 69 0.0015 26.1 2.1 28 271-298 27-54 (94)
30 PF00528 BPD_transp_1: Binding 21.4 83 0.0018 26.0 2.6 30 270-299 156-185 (185)
31 PF10966 DUF2768: Protein of u 20.4 1.7E+02 0.0036 21.9 3.6 27 270-296 3-29 (58)
32 PF04277 OAD_gamma: Oxaloaceta 20.0 2.4E+02 0.0052 21.1 4.7 12 268-279 6-17 (79)
No 1
>KOG2657 consensus Transmembrane glycoprotein nicastrin [Signal transduction mechanisms; Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=6.8e-57 Score=443.52 Aligned_cols=258 Identities=22% Similarity=0.242 Sum_probs=236.0
Q ss_pred CcchhhhHHHHHHHhhcCchhhcccceeEeeceeeeeecCCCCCCCCccHHHHhhc-cCCCCcceEEEEEeccCCccccc
Q 044152 1 TLDVMFSMEAFIISIGRSLDSIVDLTWIICFGVSFGAFSLLAIFISPTSFMYWVNH-FQFSNFFYVLVLISEDFDIAFTN 79 (300)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~s~~~~~LPPSSl~SFLr~-~~i~g~~~~~~vVltd~d~~F~N 79 (300)
|+|+.-+.|+.++|+|++|.+ ++..+++|||||+|||||+ +++.+ |||+||+.+|+|
T Consensus 299 tld~L~~~ekSlrs~~f~ll~----------------~s~~s~~lPPsSlqsFlR~dpn~sa------VvLad~~~~f~N 356 (596)
T KOG2657|consen 299 TLDVLDRIEKSLRSHAFDLLK----------------PSGSSDRLPPSSLQSFLRADPNVSA------VVLADYGKEFEN 356 (596)
T ss_pred HHHHHHHHHhcccccCeeeec----------------CCCCCCCCChHHHHHHHhhCCCcce------EEeccCCchhhh
Confidence 578999999999999998864 5778899999999999998 99999 999999999999
Q ss_pred cccccccccccccC---------------------HHHHHHHHHHHHHHHHHHHcCCCCCCcccccccccCHHHHHHHHh
Q 044152 80 KFYHSHLDDMANIN---------------------SSAAVAAASLIARSLYILASDNNDMHSSVLGAINVNTSLVEELMG 138 (300)
Q Consensus 80 k~Y~S~lD~~~ni~---------------------~~~i~~vAt~vArsLy~lA~g~~~~~~~~~~~i~vd~~lV~eLl~ 138 (300)
|||||||||++||| ++.+.++|+.++++||+.+.|+.. ...+.+|+.++.++||
T Consensus 357 KyYhSilDdaeNin~sy~~al~evea~~~~ilas~ak~v~nva~~v~~aly~~~~gt~f-----tcl~~anP~~~c~fly 431 (596)
T KOG2657|consen 357 KYYHSILDDAENINDSYEKALQEVEAVSTAILASAAKYVGNVADEVVAALYKKLIGTIF-----TCLITANPWFDCDFLY 431 (596)
T ss_pred hhhhhhhcchhhccchhhhhhchhhhhhhcchHhhhhhhhhhHHHHHHHHHHHhhccee-----eeeeecCcchhHHHHH
Confidence 99999999999998 788999999999999999999977 5789999999999999
Q ss_pred hh---cc-CCCccccccccccccC---CCCccccccchhHHHHHHHHHhcCCCCCCC-CCccc-CcCCccccccchh---
Q 044152 139 CL---LS-CEPDLHYVGVVVGEPS---FKPYLGYVDDVSRFVWNFLADRTSTPKENA-SSSCS-KDCTNEDEHFLPS--- 206 (300)
Q Consensus 139 Cf---~~-C~~~~~~f~~l~~~~s---~~p~~~Yi~~~t~fv~~~La~~t~~~~~~~-~~~C~-~~c~~~~~~c~~g--- 206 (300)
|| .+ |+ +|++.+.+.+ +.|+.+||+...++.++++++.+-.++..+ .+.|. ++|..++|+|++|
T Consensus 432 ~fl~~an~cp----~n~ag~~qgs~l~~~P~~~Yi~v~s~t~~~~g~dk~lln~~lt~~s~~~~~nc~~~~~~~~~gp~n 507 (596)
T KOG2657|consen 432 KFLGGANHCP----FNSAGFNQGSTLMESPTAFYIVVHSLTIFALGSDKELLNVKLTKSSSHLGQNCAMYTYTWQPGPYN 507 (596)
T ss_pred HhhcccCcCc----chhhhcccCCcccCCCcceeEEeeccchhhhhhhHHHhhcccccCcccccccccccceeeeecCCC
Confidence 99 66 99 9999877654 789999999999999999998665555433 34455 6899999999988
Q ss_pred ----hhccccceeeccccceeecCCceeecCCCCCCCCCCCCCCccccccCCcceEEEEecCcchhhhHHHHHHHHHHHH
Q 044152 207 ----LNVANHRYVLAYSTRLMFESGTWNVLPPNSSDSMGSVDPVSTESNWNTIGLWVYTIQNGAYDHLILIGGIAVTISA 282 (300)
Q Consensus 207 ----Cv~St~~~~~A~SPAf~~~~~~w~~~~~~s~d~~~~~ystWTES~W~~i~~rifl~~s~~~e~~~L~~Gi~v~ilS 282 (300)
|++||+||++|+||||++++++|.++ +|+|||||+|..+++|||++++.++|.++|.+||+|+++|
T Consensus 508 ~~g~Cv~ST~ry~~AlSpaf~~~~~~Wsst----------~ysTWTES~W~~~svriyl~~s~~~e~ttL~vGi~vlilS 577 (596)
T KOG2657|consen 508 GNGSCVKSTIRYKVALSPAFDSQTPEWSST----------RYSTWTESVWIIESVRIYLMESASFEYTTLLVGIIVLILS 577 (596)
T ss_pred CCceeEeehhhhhhhcCcceecCCcccccc----------ccccchhhhhheeeeEEEEeccchhhhhhHHHHHHHHHHH
Confidence 99999999999999999999999999 7999999999999999999999999999999999999999
Q ss_pred HHHHHHHHH-HHHHHhhc
Q 044152 283 YFMIALARS-FITKALKR 299 (300)
Q Consensus 283 ~~~i~~i~~-~~~k~~k~ 299 (300)
++++|.+++ .|.|.+|.
T Consensus 578 ~i~vy~iss~vlf~dl~e 595 (596)
T KOG2657|consen 578 IIAVYRISSTVLFVDLGE 595 (596)
T ss_pred HHHHhhhcceEEEecCCC
Confidence 999999998 77777665
No 2
>PF05450 Nicastrin: Nicastrin; InterPro: IPR008710 Nicastrin and presenilin are two major components of the gamma-secretase complex, which executes the intramembrane proteolysis of type I integral membrane proteins such as the amyloid precursor protein (APP) and Notch. Nicastrin is synthesised in fibroblasts and neurons as an endoglycosidase-H-sensitive glycosylated precursor protein (immature nicastrin) and is then modified by complex glycosylation in the Golgi apparatus and by sialylation in the trans-Golgi network (mature nicastrin) [].; GO: 0016485 protein processing, 0016021 integral to membrane
Probab=99.81 E-value=1.7e-20 Score=172.60 Aligned_cols=68 Identities=34% Similarity=0.494 Sum_probs=63.8
Q ss_pred eeecCCCCCCCCccHHHHhhc-cCCCCcceEEEEEeccCCccccccccccccccccccC-------------------HH
Q 044152 36 GAFSLLAIFISPTSFMYWVNH-FQFSNFFYVLVLISEDFDIAFTNKFYHSHLDDMANIN-------------------SS 95 (300)
Q Consensus 36 ~~~s~~~~~LPPSSl~SFLr~-~~i~g~~~~~~vVltd~d~~F~Nk~Y~S~lD~~~ni~-------------------~~ 95 (300)
..+++.+++|||||+|||||+ ++||| |||+|||++|+||||||+||+.+||| ++
T Consensus 147 ~~~~~~~~~LPPsS~~sFLr~~~~i~~------vVLtd~~~~f~N~~y~S~~D~~~ni~~~y~~~~~~~~~~~~~~~~~~ 220 (234)
T PF05450_consen 147 KKASSSNPPLPPSSLQSFLRKDPNIPG------VVLTDHDSQFTNKYYNSILDDAENINFSYPNNSTPEEDLNFVTSTQM 220 (234)
T ss_pred eccccCCCCCCcchHHHHHccCCCCCE------EEecCCCcccccCCccCcccChhhhcCccCccCChhHhhccccHHHH
Confidence 335778999999999999999 79999 99999999999999999999999997 48
Q ss_pred HHHHHHHHHHHHHH
Q 044152 96 AAVAAASLIARSLY 109 (300)
Q Consensus 96 ~i~~vAt~vArsLy 109 (300)
+|++||++|||+||
T Consensus 221 ~~~~va~~va~~lY 234 (234)
T PF05450_consen 221 SLANVATLVARALY 234 (234)
T ss_pred HHHHHHHHHHHhhC
Confidence 99999999999997
No 3
>PF04389 Peptidase_M28: Peptidase family M28; InterPro: IPR007484 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This domain is found in metallopeptidases belonging to the MEROPS peptidase family M28 (aminopeptidase Y, clan MH) []. They also contain a transferrin receptor-like dimerisation domain (IPR007365 from INTERPRO) and a protease-associated PA domain (IPR003137 from INTERPRO).; GO: 0008233 peptidase activity, 0006508 proteolysis; PDB: 3BXM_A 2C6P_A 1Z8L_C 3SJF_A 3BHX_A 2C6G_A 3D7F_A 2XEG_A 3BI1_A 2C6C_A ....
Probab=81.72 E-value=1.6 Score=37.36 Aligned_cols=45 Identities=13% Similarity=0.175 Sum_probs=35.2
Q ss_pred CCCCccHHHHhhccCCCCcceEEEEEeccCCccccccccccccccccccCHHHH
Q 044152 44 FISPTSFMYWVNHFQFSNFFYVLVLISEDFDIAFTNKFYHSHLDDMANINSSAA 97 (300)
Q Consensus 44 ~LPPSSl~SFLr~~~i~g~~~~~~vVltd~d~~F~Nk~Y~S~lD~~~ni~~~~i 97 (300)
..++|--..|.+ .+||+ +-+.+.+ +.+++||+..|+.+++|.+.|
T Consensus 134 ~~~~sD~~~F~~-~gip~------~~~~~~~--~~~~~~Ht~~Dt~~~~~~~~l 178 (179)
T PF04389_consen 134 TFGGSDHYPFSK-AGIPA------VTLSSTD--GYNPYYHTPEDTPDNLDPDTL 178 (179)
T ss_dssp STTSSTCHHHHT-TT-EE------EEEEESS--SSGTTTTSTT-SGGGC-HHHH
T ss_pred CCCCCCcHhhhc-CCEeE------EEEEecC--CCCCCCCCcccChhhcCCccC
Confidence 345566889995 89999 8888888 678999999999999998776
No 4
>PF05552 TM_helix: Conserved TM helix; InterPro: IPR008910 This alignment represents a conserved transmembrane helix as well as some flanking sequence. It is often found in association with a Mechanosensitive (MS) channel IPR006685 from INTERPRO.; PDB: 2VV5_F 2OAU_E.
Probab=59.69 E-value=20 Score=25.46 Aligned_cols=29 Identities=17% Similarity=0.548 Sum_probs=26.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 044152 271 ILIGGIAVTISAYFMIALARSFITKALKR 299 (300)
Q Consensus 271 ~L~~Gi~v~ilS~~~i~~i~~~~~k~~k~ 299 (300)
-++++++++++.+.++-+++++++|.++|
T Consensus 17 ~iv~AilIl~vG~~va~~v~~~~~~~l~~ 45 (53)
T PF05552_consen 17 NIVGAILILIVGWWVAKFVRKLVRRLLEK 45 (53)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 57788888999999999999999999886
No 5
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=52.80 E-value=61 Score=23.54 Aligned_cols=15 Identities=13% Similarity=-0.159 Sum_probs=9.0
Q ss_pred ccCCcceEEEEecCc
Q 044152 251 NWNTIGLWVYTIQNG 265 (300)
Q Consensus 251 ~W~~i~~rifl~~s~ 265 (300)
|.+.+.++.|....+
T Consensus 3 N~~~V~v~~~~~~~~ 17 (68)
T PF06305_consen 3 NTQPVTVNFLFGQFP 17 (68)
T ss_pred CCceEEEEEEeeecc
Confidence 344566776666655
No 6
>cd04751 Commd3 COMM_Domain containing protein 3. The COMM Domain is found at the C-terminus of a variety of proteins; presumably all COMM_Domain containing proteins are located in the nucleus and the COMM domain plays a role in protein-protein interactions. Several family members have been shown to bind and inhibit NF-kappaB.
Probab=52.40 E-value=14 Score=29.59 Aligned_cols=30 Identities=33% Similarity=0.469 Sum_probs=26.7
Q ss_pred hHHHHHHHhhcCchhhcccceeEeeceeee
Q 044152 7 SMEAFIISIGRSLDSIVDLTWIICFGVSFG 36 (300)
Q Consensus 7 ~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~ 36 (300)
..+..+.++|..+..|+|+.|++-|.|+=+
T Consensus 13 ~l~~~l~~~~~~~p~l~dv~WRld~~lsS~ 42 (95)
T cd04751 13 VLENKLKSIGISFPHITDVNWRLDYVVSSK 42 (95)
T ss_pred HHHHHHHHhCCCCCceecCceEEEEEEccc
Confidence 467889999999999999999999988764
No 7
>KOG2657 consensus Transmembrane glycoprotein nicastrin [Signal transduction mechanisms; Posttranslational modification, protein turnover, chaperones]
Probab=48.23 E-value=3 Score=43.30 Aligned_cols=64 Identities=20% Similarity=0.289 Sum_probs=47.3
Q ss_pred HHHHHHHHHHHHHHHcCCCCCCccccccccc-CHHHHHHHHhhhccCCCcc--ccccccccccCCCC
Q 044152 98 VAAASLIARSLYILASDNNDMHSSVLGAINV-NTSLVEELMGCLLSCEPDL--HYVGVVVGEPSFKP 161 (300)
Q Consensus 98 ~~vAt~vArsLy~lA~g~~~~~~~~~~~i~v-d~~lV~eLl~Cf~~C~~~~--~~f~~l~~~~s~~p 161 (300)
.+++.+.|++++.+|....++...+...+.+ ++.++.+++.|+..|+|++ +|++.+.++....|
T Consensus 375 ~al~evea~~~~ilas~ak~v~nva~~v~~aly~~~~gt~ftcl~~anP~~~c~fly~fl~~an~cp 441 (596)
T KOG2657|consen 375 KALQEVEAVSTAILASAAKYVGNVADEVVAALYKKLIGTIFTCLITANPWFDCDFLYKFLGGANHCP 441 (596)
T ss_pred hhhchhhhhhhcchHhhhhhhhhhHHHHHHHHHHHhhcceeeeeeecCcchhHHHHHHhhcccCcCc
Confidence 4577889999999998877755544444433 5889999999996666666 59998888764344
No 8
>PF14316 DUF4381: Domain of unknown function (DUF4381)
Probab=45.61 E-value=27 Score=29.71 Aligned_cols=34 Identities=15% Similarity=0.282 Sum_probs=22.2
Q ss_pred chhhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhcC
Q 044152 266 AYDHLILIGGIAVTISAYFMIALARSFITKALKRD 300 (300)
Q Consensus 266 ~~e~~~L~~Gi~v~ilS~~~i~~i~~~~~k~~k~~ 300 (300)
+.++++|++ ++++++.+++.+..+.+-++|+||+
T Consensus 20 a~GWwll~~-lll~~~~~~~~~~~r~~~~~~yrr~ 53 (146)
T PF14316_consen 20 APGWWLLLA-LLLLLLILLLWRLWRRWRRNRYRRE 53 (146)
T ss_pred cHHHHHHHH-HHHHHHHHHHHHHHHHHHccHHHHH
Confidence 345555544 4455555777788888888888874
No 9
>PF00672 HAMP: HAMP domain; InterPro: IPR003660 The HAMP linker domain (present in Histidine kinases, Adenyl cyclases, Methyl-accepting proteins and Phosphatases) is an approximately 50-amino acid alpha-helical region. It is found in bacterial sensor and chemotaxis proteins and in eukaryotic histidine kinases. The bacterial proteins are usually integral membrane proteins and part of a two-component signal transduction pathway. One or several copies of the HAMP domain can be found in association with other domains, such as the histidine kinase domain, the bacterial chemotaxis sensory transducer domain, the PAS repeat, the EAL domain, the GGDEF domain, the protein phosphatase 2C-like domain, the guanylate cyclase domain, or the response regulatory domain. It has been suggested that the HAMP domain possesses a role of regulating the phosphorylation or methylation of homodimeric receptors by transmitting the conformational changes in periplasmic ligand-binding domains to cytoplasmic signalling kinase and methyl-acceptor domains.; GO: 0004871 signal transducer activity, 0007165 signal transduction, 0016021 integral to membrane; PDB: 3PJX_A 3PJW_A 3ZX6_B 2Y20_B 2Y0Q_D 2Y21_H 3ZRW_C 2L7H_B 2LFS_B 2L7I_B ....
Probab=43.08 E-value=15 Score=26.33 Aligned_cols=28 Identities=21% Similarity=0.278 Sum_probs=19.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 044152 272 LIGGIAVTISAYFMIALARSFITKALKR 299 (300)
Q Consensus 272 L~~Gi~v~ilS~~~i~~i~~~~~k~~k~ 299 (300)
++++++.+++++++.+++.+.+.+.+++
T Consensus 2 ~~~~~~~~~~~~~~~~~~~~~i~~pl~~ 29 (70)
T PF00672_consen 2 LVLFLIILLLSLLLAWLLARRITRPLRR 29 (70)
T ss_dssp HHHHHHHHHHHHHHHHH--HTTCCCHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4566677788888888888887776654
No 10
>PHA02706 hypothetical protein; Provisional
Probab=42.32 E-value=16 Score=26.59 Aligned_cols=31 Identities=10% Similarity=0.283 Sum_probs=21.4
Q ss_pred hhhhHHHHHHHHHHHHHHH-----HHHHHHHHHHHh
Q 044152 267 YDHLILIGGIAVTISAYFM-----IALARSFITKAL 297 (300)
Q Consensus 267 ~e~~~L~~Gi~v~ilS~~~-----i~~i~~~~~k~~ 297 (300)
.|.+.|+++++.+++.+.. +.||++|+-|+-
T Consensus 3 ~e~tllviaiimmllgi~siiidtvifinayfvkkr 38 (58)
T PHA02706 3 FENTLLVIAIIMMLLGIASIIIDTVIFINAYFVKKR 38 (58)
T ss_pred chhhhHHHHHHHHHHhhHHHhhheeeeeehhhhhhh
Confidence 4567777888877765554 457888887763
No 11
>PRK01844 hypothetical protein; Provisional
Probab=40.51 E-value=60 Score=25.28 Aligned_cols=29 Identities=14% Similarity=0.286 Sum_probs=16.8
Q ss_pred hHHHHHHHHHHHHHHHHHHH-HHHHHHHhh
Q 044152 270 LILIGGIAVTISAYFMIALA-RSFITKALK 298 (300)
Q Consensus 270 ~~L~~Gi~v~ilS~~~i~~i-~~~~~k~~k 298 (300)
+.++++++.+++.+++-||+ |.+..|-+|
T Consensus 5 ~~I~l~I~~li~G~~~Gff~ark~~~k~lk 34 (72)
T PRK01844 5 LGILVGVVALVAGVALGFFIARKYMMNYLQ 34 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44556666666666665555 455555444
No 12
>PRK00523 hypothetical protein; Provisional
Probab=38.72 E-value=66 Score=25.02 Aligned_cols=29 Identities=21% Similarity=0.256 Sum_probs=16.2
Q ss_pred hHHHHHHHHHHHHHHHHHHH-HHHHHHHhh
Q 044152 270 LILIGGIAVTISAYFMIALA-RSFITKALK 298 (300)
Q Consensus 270 ~~L~~Gi~v~ilS~~~i~~i-~~~~~k~~k 298 (300)
+.++++++.+++.+++-||+ |.++.|-+|
T Consensus 6 l~I~l~i~~li~G~~~Gffiark~~~k~l~ 35 (72)
T PRK00523 6 LALGLGIPLLIVGGIIGYFVSKKMFKKQIR 35 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44455555566666665555 555555544
No 13
>PF09835 DUF2062: Uncharacterized protein conserved in bacteria (DUF2062); InterPro: IPR018639 This domain, found in various prokaryotic proteins, has no known function. It is found at the C-terminal of family 2 glycosyltransferase proteins, in addition to proteins of unknown function.
Probab=37.10 E-value=56 Score=27.72 Aligned_cols=27 Identities=30% Similarity=0.424 Sum_probs=15.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 044152 272 LIGGIAVTISAYFMIALARSFITKALK 298 (300)
Q Consensus 272 L~~Gi~v~ilS~~~i~~i~~~~~k~~k 298 (300)
++.|++..++++++++.+-+.++||-+
T Consensus 125 ~i~~~v~~~i~Y~l~~~~~~~~r~~r~ 151 (154)
T PF09835_consen 125 LILGIVLGIISYFLVYFLVRKYRKRRR 151 (154)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444555566666666665555554433
No 14
>KOG2195 consensus Transferrin receptor and related proteins containing the protease-associated (PA) domain [Posttranslational modification, protein turnover, chaperones; Inorganic ion transport and metabolism; General function prediction only]
Probab=34.29 E-value=45 Score=36.10 Aligned_cols=56 Identities=25% Similarity=0.375 Sum_probs=39.2
Q ss_pred cHHHHhhccCCCCcceEEEEEeccCCccccccccccccccccccC------HHHHHHHHHHHHHHHHHHHc
Q 044152 49 SFMYWVNHFQFSNFFYVLVLISEDFDIAFTNKFYHSHLDDMANIN------SSAAVAAASLIARSLYILAS 113 (300)
Q Consensus 49 Sl~SFLr~~~i~g~~~~~~vVltd~d~~F~Nk~Y~S~lD~~~ni~------~~~i~~vAt~vArsLy~lA~ 113 (300)
+.-+|+.-.+||+ +=++ |.. .+++|||.+|+.++++ -+..+++|.++.-.+..++.
T Consensus 484 d~~~F~~~~GIps------v~~~-f~~--~yP~yhs~~dt~~~~~k~~D~~~~~~~~~a~~~~~~~l~l~~ 545 (702)
T KOG2195|consen 484 DYASFLQFAGIPS------VDFA-FNR--TYPFYHSTYDTYEWLDKLLDPKFKQHLAAAGVLGLELLILAD 545 (702)
T ss_pred cchhhccccCcce------eeee-ecC--CcceeecccCcHHHHHHhcchhHHHHHHHHHHHHHHHHHHhc
Confidence 4667777667777 3222 222 7899999999977764 45666777777777777777
No 15
>PF05745 CRPA: Chlamydia 15 kDa cysteine-rich outer membrane protein (CRPA); InterPro: IPR008436 Chlamydia is a genus of bacteria, which causes the most common bacterial sexually transmitted diseases. They are obligate intracellular bacterial pathogens. Members of this genus lack a peptidoglycan layer, but as a substitute, it has been proposed that they have several cysteine rich membrane proteins. This includes the major outer membrane protein (MOMP). These form disulphide bonds to provide rigidity to the cell wall. The alignment of the amino acid sequences of the MOMP from various serovars of Chlamydia show that they have between seven and ten cysteine residues; seven of which are highly conserved []. The MOMP has been the focus of efforts to produce a vaccine for Chlamydia trachomatis []. The 15 kDa cysteine-rich protein in this entry is a multi-pass outer membrane protein. They are associated with the differentiation of reticulate bodies (RBs) into elementary bodies (EBs) []. They immunolocalise to the inclusion membrane, which is the membrane that surrounds the intracellular parasite. These proteins are recognised by CD8+ T cells in both human and mouse infections, suggesting they gain access to the host cytoplasm.; GO: 0019867 outer membrane
Probab=33.97 E-value=34 Score=29.68 Aligned_cols=33 Identities=18% Similarity=0.332 Sum_probs=27.8
Q ss_pred EecCcchhhhHHHHHHHHHHHHHHHHHHHHHHH
Q 044152 261 TIQNGAYDHLILIGGIAVTISAYFMIALARSFI 293 (300)
Q Consensus 261 l~~s~~~e~~~L~~Gi~v~ilS~~~i~~i~~~~ 293 (300)
++.|.+.++.++++|+++.+.++.++|.+.+.+
T Consensus 58 iv~SrAfqItl~VlGiiLviagl~l~fil~~~l 90 (150)
T PF05745_consen 58 IVQSRAFQITLVVLGIILVIAGLALTFILHSQL 90 (150)
T ss_pred HhhhhhhhhhHHHHHHHHHHHHHHHHhhehhhh
Confidence 456778999999999999999999988876654
No 16
>PF13974 YebO: YebO-like protein
Probab=33.53 E-value=39 Score=26.79 Aligned_cols=24 Identities=8% Similarity=0.116 Sum_probs=19.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 044152 273 IGGIAVTISAYFMIALARSFITKA 296 (300)
Q Consensus 273 ~~Gi~v~ilS~~~i~~i~~~~~k~ 296 (300)
+++++++++++++-||++++..++
T Consensus 2 ~~~~~~~lv~livWFFVnRaSvRA 25 (80)
T PF13974_consen 2 VVSVLVLLVGLIVWFFVNRASVRA 25 (80)
T ss_pred eehHHHHHHHHHHHHHHHHHHHhH
Confidence 456778889999999999987764
No 17
>PF04246 RseC_MucC: Positive regulator of sigma(E), RseC/MucC; InterPro: IPR007359 This bacterial family of integral membrane proteins represents a positive regulator of the sigma(E) transcription factor, namely RseC/MucC. The sigma(E) transcription factor is up-regulated by cell envelope protein misfolding, and regulates the expression of genes that are collectively termed ECF (devoted to Extra-Cellular Functions) []. In Pseudomonas aeruginosa, derepression of sigma(E) is associated with the alginate-overproducing phenotype characteristic of chronic respiratory tract colonization in cystic fibrosis patients. The mechanism by which RseC/MucC positively regulates the sigma(E) transcription factor is unknown. RseC is also thought to have a role in thiamine biosynthesis in Salmonella typhimurium []. In addition, this family also includes an N-terminal part of RnfF, a Rhodobacter capsulatus protein, of unknown function, that is essential for nitrogen fixation. This protein also contains a domain found in ApbE protein IPR003374 from INTERPRO, which is itself involved in thiamine biosynthesis.
Probab=30.87 E-value=66 Score=26.82 Aligned_cols=29 Identities=14% Similarity=0.326 Sum_probs=20.7
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044152 268 DHLILIGGIAVTISAYFMIALARSFITKA 296 (300)
Q Consensus 268 e~~~L~~Gi~v~ilS~~~i~~i~~~~~k~ 296 (300)
|.+.++.|++.++++++++.+.++...|+
T Consensus 96 e~~~~l~~l~~l~~~~~~~~~~~~~~~~~ 124 (135)
T PF04246_consen 96 ELWAILGGLLGLALGFLILRLFDRRLKKK 124 (135)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhccC
Confidence 67777777777777777777776666654
No 18
>PF08923 MAPKK1_Int: Mitogen-activated protein kinase kinase 1 interacting; InterPro: IPR015019 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases. Protein kinases catalyse the transfer of the gamma phosphate from nucleotide triphosphates (often ATP) to one or more amino acid residues in a protein substrate side chain, resulting in a conformational change affecting protein function. Phosphoprotein phosphatases catalyse the reverse process. Protein kinases fall into three broad classes, characterised with respect to substrate specificity []: Serine/threonine-protein kinases Tyrosine-protein kinases Dual specific protein kinases (e.g. MEK - phosphorylates both Thr and Tyr on target proteins) Protein kinase function has been evolutionarily conserved from Escherichia coli to human []. Protein kinases play a role in a multitude of cellular processes, including division, proliferation, apoptosis, and differentiation []. Phosphorylation usually results in a functional change of the target protein by changing enzyme activity, cellular location, or association with other proteins. The catalytic subunits of protein kinases are highly conserved, and several structures have been solved [], leading to large screens to develop kinase-specific inhibitors for the treatments of a number of diseases []. This entry represents Mitogen-activated protein kinase kinase 1 interacting protein, which is a small subcellular adaptor protein required for MAPK signalling and ERK1/2 activation. The overall topology of this domain has a central five-stranded beta-sheet sandwiched between a two alpha-helix and a one alpha-helix layer []. ; PDB: 1VEU_A 1VET_A 1SKO_A 2ZL1_A 3CPT_A.
Probab=27.92 E-value=49 Score=27.74 Aligned_cols=23 Identities=9% Similarity=0.164 Sum_probs=16.4
Q ss_pred HHHHhhc--cCCCCcceEEEEEeccCCc
Q 044152 50 FMYWVNH--FQFSNFFYVLVLISEDFDI 75 (300)
Q Consensus 50 l~SFLr~--~~i~g~~~~~~vVltd~d~ 75 (300)
+++||++ ..++| +..++++|+|+
T Consensus 3 l~~~L~~ll~~v~G---l~~I~itDrDG 27 (119)
T PF08923_consen 3 LKRFLQKLLSRVDG---LQAIVITDRDG 27 (119)
T ss_dssp HHHHHHHHGGGSTT---EEEEEEEETTS
T ss_pred HHHHHHHHHhccCC---eEEEEEECCCC
Confidence 5677766 45555 44499999998
No 19
>COG1585 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
Probab=27.52 E-value=72 Score=27.43 Aligned_cols=26 Identities=23% Similarity=0.376 Sum_probs=21.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhc
Q 044152 274 GGIAVTISAYFMIALARSFITKALKR 299 (300)
Q Consensus 274 ~Gi~v~ilS~~~i~~i~~~~~k~~k~ 299 (300)
-++.++++|++.+++.+++++|+.|+
T Consensus 50 q~v~f~~lsv~~~~l~rr~~~~~~~~ 75 (140)
T COG1585 50 QLVLFAILSVLLALLGRRFVRRRLKP 75 (140)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhccCC
Confidence 34667888999999999999998775
No 20
>PF05283 MGC-24: Multi-glycosylated core protein 24 (MGC-24); InterPro: IPR007947 CD164 is a mucin-like receptor, or sialomucin, with specificity in receptor/ ligand interactions that depends on the structural characteristics of the mucin-like receptor. Its functions include mediating, or regulating, haematopoietic progenitor cell adhesion and the negative regulation of their growth and/or-differentiation. It exists in the native state as a disulphide- linked homodimer of two 80-85kDa subunits. It is usually expressed by CD34+ and CD341o/- haematopoietic stem cells and associated microenvironmental cells. It contains, in its extracellular region, two mucin domains (I and II) linked by a non-mucin domain, which has been predicted to contain intra- disulphide bridges. This receptor may play a key role in haematopoiesis by facilitating the adhesion of human CD34+ cells to bone marrow stroma and by negatively regulating CD34+ CD341o/- haematopoietic progenitor cell proliferation. These effects involve the CD164 class I and/or II epitopes recognised by the monoclonal antibodies (mAbs) 105A5 and 103B2/9E10. These epitopes are carbohydrate-dependent and are located on the N-terminal mucin domain I [, ]. It has been found that murine MGC-24v and rat endolyn share significant sequence similarities with human CD164. However, CD164 lacks the consensus glycosaminoglycan (GAG)-attachment site found in MGC-24; it is possible that GAG-association is responsible for the high molecular weight of the epithelial-derived MGC-24 glycoprotein []. Genomic structure studies have placed CD164 within the mucin-subgroup that comprises multiple exons, and demonstrate the diverse chromosomal distribution of this family of molecules. Molecules with such multiple exons may have sophisticated regulatory mechanisms that involve not only post-translational modifications of the oligosaccharide side chains, but also differential exon usage. Although differences in the intron and exon sizes are seen between the mouse and human genes, the predicted proteins are similar in size and structure, maintaining functionally important motifs that regulate cell proliferation or subcellular distribution []. CD164 is a gene whose expression depends on differential usage of poly- adenylation sites within the 3'-UTR. The conserved distribution of the 3.2- and 1.2-kb CD164 transcripts between mouse and human suggests that (i) a mechanism may exist to regulate tissue-specific polyadenylation, and (ii) differences in polyadenylation are important for the expression and function of CD164 in different tissues. Two other aspects of the structure of CD164 are of particular interest. First, it shares one of several conserved features of a cytokine-binding pocket - in this respect, it is notable that evidence exists for a class of cell-surface sialomucin modulators that directly interact with growth factor receptors to regulate their response to physiological ligands. Second, its cytoplasmic tail contains a C-terminal YHTL motif found in many endocytic membrane proteins or receptors. These Tyr-based motifs bind to adaptor proteins, which mediate the sorting of membrane proteins into transport vesicles from the plasma membrane to the endosomes, and between intracellular compartments.
Probab=25.63 E-value=76 Score=28.84 Aligned_cols=31 Identities=26% Similarity=0.492 Sum_probs=26.3
Q ss_pred CcchhhhHHHHHHHHHHHHHHHHHHHHHHHH
Q 044152 264 NGAYDHLILIGGIAVTISAYFMIALARSFIT 294 (300)
Q Consensus 264 s~~~e~~~L~~Gi~v~ilS~~~i~~i~~~~~ 294 (300)
...+|..-++.|||+++--+.++||+-+|++
T Consensus 155 ~s~FD~~SFiGGIVL~LGv~aI~ff~~KF~k 185 (186)
T PF05283_consen 155 KSTFDAASFIGGIVLTLGVLAIIFFLYKFCK 185 (186)
T ss_pred CCCCchhhhhhHHHHHHHHHHHHHHHhhhcc
Confidence 3469999999999999888888998888764
No 21
>PF15048 OSTbeta: Organic solute transporter subunit beta protein
Probab=25.46 E-value=76 Score=27.19 Aligned_cols=31 Identities=19% Similarity=0.649 Sum_probs=22.9
Q ss_pred eEEEEecCcc-hhhhHHHHHHHHHHHHHHHHH
Q 044152 257 LWVYTIQNGA-YDHLILIGGIAVTISAYFMIA 287 (300)
Q Consensus 257 ~rifl~~s~~-~e~~~L~~Gi~v~ilS~~~i~ 287 (300)
+..|.+++++ .-+.+|+...+|+++|+++.-
T Consensus 24 lW~fR~ED~tpWNysiL~Ls~vvlvi~~~LLg 55 (125)
T PF15048_consen 24 LWFFRVEDATPWNYSILALSFVVLVISFFLLG 55 (125)
T ss_pred HHheecCCCCCcchHHHHHHHHHHHHHHHHHH
Confidence 4578888885 566777888888888877643
No 22
>PF01102 Glycophorin_A: Glycophorin A; InterPro: IPR001195 Proteins in this group are responsible for the molecular basis of the blood group antigens, surface markers on the outside of the red blood cell membrane. Most of these markers are proteins, but some are carbohydrates attached to lipids or proteins [Reid M.E., Lomas-Francis C. The Blood Group Antigen FactsBook Academic Press, London / San Diego, (1997)]. Glycophorin A (PAS-2) and glycophorin B (PAS-3) belong to the MNS blood group system and are associated with antigens that include M/N, S/s, U, He, Mi(a), M(c), Vw, Mur, M(g), Vr, M(e), Mt(a), St(a), Ri(a), Cl(a), Ny(a), Hut, Hil, M(v), Far, Mit, Dantu, Hop, Nob, En(a), ENKT, amongst others. Glycophorin A is the major sialoglycoprotein of the erythrocyte membrane []. Structurally, glycophorin A consists of an N-terminal extracellular domain, heavily glycosylated on serine and threonine residues, followed by a transmembrane region and a C-terminal cytoplasmic domain. Other glycophorins in this entry such as Glycophorin B and Glycophorin E represent minor sialoglycoproteins in the erythrocyte membrane.; GO: 0016021 integral to membrane; PDB: 2KPF_B 1AFO_B 2KPE_A.
Probab=25.04 E-value=1e+02 Score=26.20 Aligned_cols=10 Identities=10% Similarity=0.158 Sum_probs=4.5
Q ss_pred HHHHHHHHHH
Q 044152 283 YFMIALARSF 292 (300)
Q Consensus 283 ~~~i~~i~~~ 292 (300)
+++.|++++.
T Consensus 82 lli~y~irR~ 91 (122)
T PF01102_consen 82 LLISYCIRRL 91 (122)
T ss_dssp HHHHHHHHHH
T ss_pred HHHHHHHHHH
Confidence 3445555443
No 23
>TIGR02976 phageshock_pspB phage shock protein B. This model describes the PspB protein of the psp (phage shock protein) operon, as found in Escherichia coli and many related species. Expression of a phage protein called secretin protein IV, and a number of other stresses including ethanol, heat shock, and defects in protein secretion trigger sigma-54-dependent expression of the phage shock regulon. PspB is both a regulator and an effector protein of the phage shock response.
Probab=24.50 E-value=1.4e+02 Score=23.30 Aligned_cols=27 Identities=11% Similarity=0.039 Sum_probs=22.5
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044152 270 LILIGGIAVTISAYFMIALARSFITKA 296 (300)
Q Consensus 270 ~~L~~Gi~v~ilS~~~i~~i~~~~~k~ 296 (300)
.++++.++++++-...++.+.-|.+|+
T Consensus 4 ~fl~~Pliif~ifVap~wl~lHY~~k~ 30 (75)
T TIGR02976 4 FFLAIPLIIFVIFVAPLWLILHYRSKR 30 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 567888888888888899999888875
No 24
>PF02009 Rifin_STEVOR: Rifin/stevor family; InterPro: IPR002858 Malaria is still a major cause of mortality in many areas of the world. Plasmodium falciparum causes the most severe human form of the disease and is responsible for most fatalities. Severe cases of malaria can occur when the parasite invades and then proliferates within red blood cell erythrocytes. The parasite produces many variant antigenic proteins, encoded by multigene families, which are present on the surface of the infected erythrocyte and play important roles in virulence. A crucial survival mechanism for the malaria parasite is its ability to evade the immune response by switching these variant surface antigens. The high virulence of P. falciparum relative to other malarial parasites is in large part due to the fact that in this organism many of these surface antigens mediate the binding of infected erythrocytes to the vascular endothelium (cytoadherence) and non-infected erythrocytes (rosetting). This can lead to the accumulation of infected cells in the vasculature of a variety of organs, blocking the blood flow and reducing the oxygen supply. Clinical symptoms of severe infection can include fever, progressive anaemia, multi-organ dysfunction and coma. For more information see []. Several multicopy gene families have been described in Plasmodium falciparum, including the stevor family of subtelomeric open reading frames and the rif interspersed repetitive elements. Both families contain three predicted transmembrane segments. It has been proposed that stevor and rif are members of a larger superfamily that code for variant surface antigens [].
Probab=23.60 E-value=1.2e+02 Score=29.43 Aligned_cols=31 Identities=19% Similarity=0.208 Sum_probs=22.3
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHH-HHhh
Q 044152 268 DHLILIGGIAVTISAYFMIALARSFIT-KALK 298 (300)
Q Consensus 268 e~~~L~~Gi~v~ilS~~~i~~i~~~~~-k~~k 298 (300)
-++.-++.|++.++-+++||+|-+|-| |+.|
T Consensus 257 ~I~aSiiaIliIVLIMvIIYLILRYRRKKKmk 288 (299)
T PF02009_consen 257 AIIASIIAILIIVLIMVIIYLILRYRRKKKMK 288 (299)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Confidence 345556666677778888999999988 4444
No 25
>PF15102 TMEM154: TMEM154 protein family
Probab=22.74 E-value=16 Score=32.03 Aligned_cols=31 Identities=13% Similarity=0.206 Sum_probs=18.7
Q ss_pred hhHHHHHHHH-HHHHHHHHHHHHHHHHHHhhc
Q 044152 269 HLILIGGIAV-TISAYFMIALARSFITKALKR 299 (300)
Q Consensus 269 ~~~L~~Gi~v-~ilS~~~i~~i~~~~~k~~k~ 299 (300)
+++.++.+++ .++-+++|+++..+=|||.|+
T Consensus 58 iLmIlIP~VLLvlLLl~vV~lv~~~kRkr~K~ 89 (146)
T PF15102_consen 58 ILMILIPLVLLVLLLLSVVCLVIYYKRKRTKQ 89 (146)
T ss_pred EEEEeHHHHHHHHHHHHHHHheeEEeecccCC
Confidence 4555555333 344555566666677788876
No 26
>COG3763 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=22.14 E-value=2.1e+02 Score=22.25 Aligned_cols=16 Identities=31% Similarity=0.200 Sum_probs=8.8
Q ss_pred HHHHHHHHHHHHHHhh
Q 044152 283 YFMIALARSFITKALK 298 (300)
Q Consensus 283 ~~~i~~i~~~~~k~~k 298 (300)
++..|+.++++.|-+|
T Consensus 19 ~~G~fiark~~~k~lk 34 (71)
T COG3763 19 IGGFFIARKQMKKQLK 34 (71)
T ss_pred HHHHHHHHHHHHHHHh
Confidence 3345555666666555
No 27
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=22.07 E-value=1.7e+02 Score=21.06 Aligned_cols=13 Identities=8% Similarity=0.008 Sum_probs=6.7
Q ss_pred hhhHHHHHHHHHH
Q 044152 268 DHLILIGGIAVTI 280 (300)
Q Consensus 268 e~~~L~~Gi~v~i 280 (300)
-.+.+++|+++..
T Consensus 24 il~~f~~G~llg~ 36 (68)
T PF06305_consen 24 ILIAFLLGALLGW 36 (68)
T ss_pred HHHHHHHHHHHHH
Confidence 3455556655533
No 28
>PHA02955 hypothetical protein; Provisional
Probab=22.02 E-value=77 Score=29.48 Aligned_cols=25 Identities=4% Similarity=-0.039 Sum_probs=17.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhh
Q 044152 274 GGIAVTISAYFMIALARSFITKALK 298 (300)
Q Consensus 274 ~Gi~v~ilS~~~i~~i~~~~~k~~k 298 (300)
+++++.++.+++++.+++-++=|||
T Consensus 184 i~~v~ii~~~v~l~yikR~i~~ky~ 208 (213)
T PHA02955 184 IYIVLCLLILIILGYIYRTVRIKYI 208 (213)
T ss_pred HHHHHHHHHHHHHHHHHHHheeeEe
Confidence 3444446667778888888877765
No 29
>PF15110 TMEM141: TMEM141 protein family; PDB: 2LOR_A.
Probab=21.97 E-value=69 Score=26.13 Aligned_cols=28 Identities=11% Similarity=0.096 Sum_probs=25.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 044152 271 ILIGGIAVTISAYFMIALARSFITKALK 298 (300)
Q Consensus 271 ~L~~Gi~v~ilS~~~i~~i~~~~~k~~k 298 (300)
.+.-|++-+++....+|++..+++||+.
T Consensus 27 Af~kG~~tFv~G~~~~f~~Q~~iqrrlp 54 (94)
T PF15110_consen 27 AFMKGLFTFVLGTGATFFLQKAIQRRLP 54 (94)
T ss_dssp HHHHHHHHHHGGGGHHHHHHHHHHTTSS
T ss_pred HHHHHHHHHHHhhHHHHHHHHHHHHhCC
Confidence 5678999999999999999999999975
No 30
>PF00528 BPD_transp_1: Binding-protein-dependent transport system inner membrane component; InterPro: IPR000515 Bacterial binding protein-dependent transport systems [, ] are multicomponent systems typically composed of a periplasmic substrate-binding protein, one or two reciprocally homologous integral inner-membrane proteins and one or two peripheral membrane ATP-binding proteins that couple energy to the active transport system. The integral inner-membrane proteins translocate the substrate across the membrane. It has been shown [, ] that most of these proteins contain a conserved region located about 80 to 100 residues from their C-terminal extremity. This region seems [] to be located in a cytoplasmic loop between two transmembrane domains. Apart from the conserved region, the sequence of these proteins is quite divergent, and they have a variable number of transmembrane helices, however they can be classified into seven families which have been respectively termed: araH, cysTW, fecCD, hisMQ, livHM, malFG and oppBC.; GO: 0005215 transporter activity, 0006810 transport, 0016020 membrane; PDB: 2ONK_H 3PUX_G 3PUY_G 2R6G_G 3PV0_G 3RLF_G 3PUW_G 3PUV_G 3PUZ_G 3TUI_E ....
Probab=21.43 E-value=83 Score=25.98 Aligned_cols=30 Identities=3% Similarity=0.177 Sum_probs=17.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 044152 270 LILIGGIAVTISAYFMIALARSFITKALKR 299 (300)
Q Consensus 270 ~~L~~Gi~v~ilS~~~i~~i~~~~~k~~k~ 299 (300)
...+..++.+++..++...+..++.||+||
T Consensus 156 ~~~~~~~~~~~~~~~i~~~l~~~~~~r~~~ 185 (185)
T PF00528_consen 156 AAAAALALIIILLNLILNILQRLLERRVRK 185 (185)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHCT-S----
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhccccCC
Confidence 444555555666777788888999999887
No 31
>PF10966 DUF2768: Protein of unknown function (DUF2768); InterPro: IPR020076 This entry contains proteins with no known function.
Probab=20.40 E-value=1.7e+02 Score=21.91 Aligned_cols=27 Identities=19% Similarity=0.295 Sum_probs=22.4
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 044152 270 LILIGGIAVTISAYFMIALARSFITKA 296 (300)
Q Consensus 270 ~~L~~Gi~v~ilS~~~i~~i~~~~~k~ 296 (300)
++-..|+..+++|.+.+++.|..++.|
T Consensus 3 WiS~~~iglMfisv~~i~~sR~Klk~~ 29 (58)
T PF10966_consen 3 WISFGAIGLMFISVILIYFSRYKLKGK 29 (58)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHhCh
Confidence 556789999999999999998777663
No 32
>PF04277 OAD_gamma: Oxaloacetate decarboxylase, gamma chain ; InterPro: IPR005899 This family comprises distantly related, low complexity, hydrophobic small subunits of several related sodium ion-pumping decarboxylases. These include oxaloacetate decarboxylase gamma subunit and methylmalonyl-CoA decarboxylase delta subunit [].; GO: 0008948 oxaloacetate decarboxylase activity, 0015081 sodium ion transmembrane transporter activity, 0071436 sodium ion export, 0016020 membrane
Probab=20.04 E-value=2.4e+02 Score=21.10 Aligned_cols=12 Identities=25% Similarity=0.274 Sum_probs=5.5
Q ss_pred hhhHHHHHHHHH
Q 044152 268 DHLILIGGIAVT 279 (300)
Q Consensus 268 e~~~L~~Gi~v~ 279 (300)
..+++..|++++
T Consensus 6 ~i~i~Gm~iVF~ 17 (79)
T PF04277_consen 6 QIMIIGMGIVFL 17 (79)
T ss_pred HHHHHHHHHHHH
Confidence 344444454443
Done!