Query psy7368
Match_columns 93
No_of_seqs 102 out of 547
Neff 7.5
Searched_HMMs 46136
Date Sat Aug 17 00:55:41 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy7368.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/7368hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 TIGR01257 rim_protein retinal- 99.9 3.6E-25 7.7E-30 188.0 10.2 90 3-93 785-874 (2272)
2 PF12698 ABC2_membrane_3: ABC- 73.0 1.1 2.4E-05 31.1 0.0 53 3-74 292-344 (344)
3 PF09955 DUF2189: Predicted in 70.3 25 0.00055 22.4 6.2 63 20-82 16-78 (128)
4 TIGR02230 ATPase_gene1 F0F1-AT 67.4 17 0.00037 22.6 4.4 29 54-82 45-73 (100)
5 PHA02839 Il-24-like protein; P 56.1 9 0.0002 25.5 1.8 16 65-80 69-84 (156)
6 TIGR01257 rim_protein retinal- 54.5 34 0.00074 32.0 5.5 68 7-77 1828-1898(2272)
7 PF15179 Myc_target_1: Myc tar 49.8 24 0.00052 24.5 3.1 22 52-74 25-46 (197)
8 PF00726 IL10: Interleukin 10 39.1 19 0.00042 24.4 1.4 17 65-81 77-93 (170)
9 COG4042 Predicted membrane pro 37.9 56 0.0012 20.2 3.1 19 63-81 82-100 (104)
10 PF09527 ATPase_gene1: Putativ 37.2 68 0.0015 17.0 4.5 23 58-80 7-29 (55)
11 smart00188 IL10 Interleukin-10 36.2 26 0.00056 23.0 1.6 18 65-82 45-62 (137)
12 PF06422 PDR_CDR: CDR ABC tran 36.1 79 0.0017 19.3 3.7 34 36-77 42-75 (103)
13 COG0382 UbiA 4-hydroxybenzoate 35.8 1.6E+02 0.0035 21.0 8.0 62 13-77 55-116 (289)
14 PF07664 FeoB_C: Ferrous iron 28.2 1E+02 0.0023 16.4 3.6 25 58-82 3-28 (54)
15 COG0575 CdsA CDP-diglyceride s 27.8 1.3E+02 0.0028 21.4 4.2 28 66-93 211-238 (265)
16 COG4392 Predicted membrane pro 26.0 1.2E+02 0.0027 19.1 3.3 39 3-41 32-70 (107)
17 KOG4040|consensus 25.2 1.7E+02 0.0036 20.0 4.0 30 51-80 124-153 (186)
18 KOG2927|consensus 24.5 1.6E+02 0.0034 22.6 4.2 29 57-93 232-260 (372)
19 KOG3713|consensus 23.0 1.6E+02 0.0034 23.4 4.1 30 53-82 344-373 (477)
20 PF11120 DUF2636: Protein of u 22.7 1.6E+02 0.0035 16.7 3.8 28 53-80 2-29 (62)
21 PF04178 Got1: Got1/Sft2-like 22.6 1.5E+02 0.0033 18.5 3.4 18 63-80 89-106 (118)
22 PF11712 Vma12: Endoplasmic re 22.4 1.9E+02 0.0042 18.5 3.9 23 52-74 115-137 (142)
23 TIGR03732 lanti_perm_MutE lant 21.3 2.9E+02 0.0063 19.2 6.0 64 14-79 49-115 (241)
24 PF06609 TRI12: Fungal trichot 21.3 1.2E+02 0.0025 24.7 3.1 22 53-74 269-290 (599)
25 PHA03164 hypothetical protein; 21.3 1.5E+02 0.0033 17.7 2.9 25 57-81 62-86 (88)
26 PF04253 TFR_dimer: Transferri 20.4 60 0.0013 20.2 1.2 19 73-91 49-67 (125)
27 PF09041 Aurora-A_bind: Aurora 20.4 34 0.00073 19.7 0.0 14 74-87 39-52 (67)
28 PF05283 MGC-24: Multi-glycosy 20.1 1.3E+02 0.0028 20.8 2.8 21 54-74 164-184 (186)
No 1
>TIGR01257 rim_protein retinal-specific rim ABC transporter. This model describes the photoreceptor protein (rim protein) in eukaryotes. It is the member of ABC transporter superfamily. Rim protein is a membrane glycoprotein which is localized in the photoreceptor outer segment discs. Mutation/s in its genetic loci is implicated in the recessive Stargardt's disease.
Probab=99.92 E-value=3.6e-25 Score=187.99 Aligned_cols=90 Identities=29% Similarity=0.520 Sum_probs=86.2
Q ss_pred CCchhhHHHHhhccHHHHHHHHHHHHHHhhhcCCCCCCCCCCCCCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHhcCCC
Q psy7368 3 QCFSANVSFGCFSANVSFGVGAFVIATWEEAGLGVQWDNWDKKLSPSDPFSLYDIVWFLYVDSAIYLILVWYIEAVFPDG 82 (93)
Q Consensus 3 ~~~~~~k~~~sL~~~~a~~~g~~~i~~~E~~~~G~~w~~~~~~~~~~~~~s~~~~~~~l~~d~~ly~ll~wYld~V~Pg~ 82 (93)
.++.+.|+++||+||+|+++|+..++.+|.++.|+||+|+.+++..+|+++++.+++||++|+++|++|+||+|+|+|||
T Consensus 785 ~~~~~~~~~~sL~sp~af~~g~~~i~~~e~~~~G~~w~n~~~~~~~~d~~s~~~~~~ml~~d~~lY~lL~~Yld~V~Pge 864 (2272)
T TIGR01257 785 RMTADLKTAVSLLSPVAFGFGTEYLVRFEEQGLGLQWSNIGNSPLEGDEFSFLLSMKMMLLDAALYGLLAWYLDQVFPGD 864 (2272)
T ss_pred ccCHHHHHHHHhcCHHHHHHHHHHHHHHhhhCCCcccccccccccCCCCccHHHHHHHHHHHHHHHHHHHHHHhhcCcCC
Confidence 35678899999999999999999999999999999999999988889999999999999999999999999999999999
Q ss_pred CCCCCCCCCCC
Q psy7368 83 VGVFSQPLNQP 93 (93)
Q Consensus 83 ~Gv~~~pw~Fp 93 (93)
||+|| |||||
T Consensus 865 yG~~k-pw~F~ 874 (2272)
T TIGR01257 865 YGTPL-PWYFL 874 (2272)
T ss_pred CCCCC-Ccccc
Confidence 99998 99997
No 2
>PF12698 ABC2_membrane_3: ABC-2 family transporter protein; PDB: 2P0S_B 3CNI_A.
Probab=73.03 E-value=1.1 Score=31.12 Aligned_cols=53 Identities=21% Similarity=0.194 Sum_probs=0.0
Q ss_pred CCchhhHHHHhhccHHHHHHHHHHHHHHhhhcCCCCCCCCCCCCCCCCCchHHHHHHHHHHHHHHHHHHHHH
Q psy7368 3 QCFSANVSFGCFSANVSFGVGAFVIATWEEAGLGVQWDNWDKKLSPSDPFSLYDIVWFLYVDSAIYLILVWY 74 (93)
Q Consensus 3 ~~~~~~k~~~sL~~~~a~~~g~~~i~~~E~~~~G~~w~~~~~~~~~~~~~s~~~~~~~l~~d~~ly~ll~wY 74 (93)
+++...+.+.+++|...+..++..+. .|- | .++...++.+++.+++|.++++|
T Consensus 292 ~~~~~~~~i~~~~P~~~~~~~~~~~~------~~~-~------------~~~~~~~~~l~~~~~v~~~l~~~ 344 (344)
T PF12698_consen 292 SLPSFLQWISSFLPFYWFIQGLRNII------YGD-W------------SEIWISLIILLLFAVVYLLLAIL 344 (344)
T ss_dssp ------------------------------------------------------------------------
T ss_pred hhHHHHHHHHHHhhHHHHHHHHHHHH------Hhc-H------------HHHHHHHHHHHHHHHHHHHHHhC
Confidence 35566777888888888888877765 111 1 12456788899999999999987
No 3
>PF09955 DUF2189: Predicted integral membrane protein (DUF2189); InterPro: IPR018692 This family includes several hypothetical prokaryotic proteins. Some are described as putative cytochrome c oxidases.
Probab=70.33 E-value=25 Score=22.45 Aligned_cols=63 Identities=22% Similarity=0.200 Sum_probs=42.4
Q ss_pred HHHHHHHHHHHhhhcCCCCCCCCCCCCCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHhcCCC
Q psy7368 20 FGVGAFVIATWEEAGLGVQWDNWDKKLSPSDPFSLYDIVWFLYVDSAIYLILVWYIEAVFPDG 82 (93)
Q Consensus 20 ~~~g~~~i~~~E~~~~G~~w~~~~~~~~~~~~~s~~~~~~~l~~d~~ly~ll~wYld~V~Pg~ 82 (93)
.+.|+..+++.-++|+..+|.+..+.....+.-+....-.++++-.+++...+.++=+.+.|.
T Consensus 16 ~A~GlYeiSrr~e~G~~~~~~~~l~~~~~~~~~~l~~~~~vl~l~~~~W~~~a~~i~a~~~G~ 78 (128)
T PF09955_consen 16 LAVGLYEISRRRERGEPPSWGDSLSALWRRNLRQLAGFGLVLILIFLIWLRVAALIFALFFGP 78 (128)
T ss_pred HHHHHHHHHHHHhCCCCCCHHHHHhhhhccccccHHHHHHHHHHHHHHHHHHHHHHHHHHcCC
Confidence 577889999988889999998866552222333444444556666667777777777776653
No 4
>TIGR02230 ATPase_gene1 F0F1-ATPase subunit, putative. This model represents a protein found encoded in F1F0-ATPase operons in several genomes, including Methanosarcina barkeri (archaeal) and Chlorobium tepidum (bacterial). It is a small protein (about 100 amino acids) with long hydrophic stretches and is presumed to be a subunit of the enzyme.
Probab=67.38 E-value=17 Score=22.58 Aligned_cols=29 Identities=10% Similarity=0.272 Sum_probs=22.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcCCC
Q psy7368 54 LYDIVWFLYVDSAIYLILVWYIEAVFPDG 82 (93)
Q Consensus 54 ~~~~~~~l~~d~~ly~ll~wYld~V~Pg~ 82 (93)
++.+=..+++-+++-..++.|||+.+|++
T Consensus 45 ~g~IG~~~v~pil~G~~lG~WLD~~~~t~ 73 (100)
T TIGR02230 45 FGLIGWSVAIPTLLGVAVGIWLDRHYPSP 73 (100)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhcCCC
Confidence 34444466778888999999999999864
No 5
>PHA02839 Il-24-like protein; Provisional
Probab=56.10 E-value=9 Score=25.49 Aligned_cols=16 Identities=31% Similarity=0.509 Sum_probs=14.3
Q ss_pred HHHHHHHHHHHHHhcC
Q psy7368 65 SAIYLILVWYIEAVFP 80 (93)
Q Consensus 65 ~~ly~ll~wYld~V~P 80 (93)
|+++.+|..|+|.||+
T Consensus 69 Cflr~LLrFYLDrVFK 84 (156)
T PHA02839 69 FFIYDMFELYLNDVFV 84 (156)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 4688999999999997
No 6
>TIGR01257 rim_protein retinal-specific rim ABC transporter. This model describes the photoreceptor protein (rim protein) in eukaryotes. It is the member of ABC transporter superfamily. Rim protein is a membrane glycoprotein which is localized in the photoreceptor outer segment discs. Mutation/s in its genetic loci is implicated in the recessive Stargardt's disease.
Probab=54.51 E-value=34 Score=31.96 Aligned_cols=68 Identities=12% Similarity=0.088 Sum_probs=41.6
Q ss_pred hhHHHHhhccHHHHHHHHHHHHHHhhhcC---CCCCCCCCCCCCCCCCchHHHHHHHHHHHHHHHHHHHHHHHH
Q psy7368 7 ANVSFGCFSANVSFGVGAFVIATWEEAGL---GVQWDNWDKKLSPSDPFSLYDIVWFLYVDSAIYLILVWYIEA 77 (93)
Q Consensus 7 ~~k~~~sL~~~~a~~~g~~~i~~~E~~~~---G~~w~~~~~~~~~~~~~s~~~~~~~l~~d~~ly~ll~wYld~ 77 (93)
..+++..++|+-|++.|+..++..+.... ... .+...+...-+ ..+.-++.|++.+++|+++.+++|.
T Consensus 1828 ~l~~if~i~P~f~lg~gl~~l~~~~~~~~~~~~~~-~~~~~~~~~~~--~~g~~ll~m~~~~iv~flLl~~ie~ 1898 (2272)
T TIGR01257 1828 MLRKLLIVFPHFCLGRGLIDLALSQAVTDVYAQFG-EEHSANPFQWD--LIGKNLVAMAVEGVVYFLLTLLIQH 1898 (2272)
T ss_pred HHHHHHeeCchhhhHHHHHHHHHhHHHHHHHHhhc-ccccCCccchh--hccHHHHHHHHHHHHHHHHHHHHHh
Confidence 45666778999999999988876543110 000 00000000000 1345678888999999999999983
No 7
>PF15179 Myc_target_1: Myc target protein 1
Probab=49.84 E-value=24 Score=24.51 Aligned_cols=22 Identities=23% Similarity=0.549 Sum_probs=16.8
Q ss_pred chHHHHHHHHHHHHHHHHHHHHH
Q psy7368 52 FSLYDIVWFLYVDSAIYLILVWY 74 (93)
Q Consensus 52 ~s~~~~~~~l~~d~~ly~ll~wY 74 (93)
+++...++ +++..++|++++|-
T Consensus 25 F~vSm~iG-LviG~li~~Lltwl 46 (197)
T PF15179_consen 25 FCVSMAIG-LVIGALIWALLTWL 46 (197)
T ss_pred HHHHHHHH-HHHHHHHHHHHHHH
Confidence 45555555 78899999999995
No 8
>PF00726 IL10: Interleukin 10 This family is a subset of the SCOP family; InterPro: IPR020443 Interleukin-10 (IL-10) is a protein that inhibits the synthesis of a number of cytokines, including IFN-gamma, IL-2, IL-3, TNF and GM-CSF produced by activated macrophages and by helper T cells. Structurally, IL-10 is a protein of about 160 amino acids that contains four conserved cysteines involved in disulphide bonds []. IL-10 is highly similar to the Epstein-Barr virus (strain GD1) (HHV-4) (Human herpesvirus 4) BCRF1 protein which inhibits the synthesis of gamma-interferon and to Equid herpesvirus 2 (Equine herpesvirus 2) protein E7. It is also similar, but to a lesser degree, with human protein mda-7 [], a protein which has antiproliferative properties in human melanoma cells. Mda-7 only contains two of the four cysteines of IL-10.; PDB: 1VLK_A 1Y6N_L 1Y6M_L 2ILK_A 1LK3_A 2H24_A 1J7V_L 1ILK_A 1Y6K_L 1INR_A ....
Probab=39.11 E-value=19 Score=24.36 Aligned_cols=17 Identities=29% Similarity=0.729 Sum_probs=14.6
Q ss_pred HHHHHHHHHHHHHhcCC
Q psy7368 65 SAIYLILVWYIEAVFPD 81 (93)
Q Consensus 65 ~~ly~ll~wYld~V~Pg 81 (93)
+++--+|..|+|.|+|.
T Consensus 77 ~~~~~lL~FYLd~Vfp~ 93 (170)
T PF00726_consen 77 CFLSELLRFYLDRVFPN 93 (170)
T ss_dssp HHHHHHHHHHHHTHHHH
T ss_pred HHHHHHHHHHHHHHccc
Confidence 56778899999999985
No 9
>COG4042 Predicted membrane protein [Function unknown]
Probab=37.88 E-value=56 Score=20.16 Aligned_cols=19 Identities=32% Similarity=0.553 Sum_probs=15.3
Q ss_pred HHHHHHHHHHHHHHHhcCC
Q psy7368 63 VDSAIYLILVWYIEAVFPD 81 (93)
Q Consensus 63 ~d~~ly~ll~wYld~V~Pg 81 (93)
+-.++-.+++-|+|++||.
T Consensus 82 vaG~lsA~~taY~ek~Fpr 100 (104)
T COG4042 82 VAGLLSALLTAYAEKLFPR 100 (104)
T ss_pred HHHHHHHHHHHHHHHhcCC
Confidence 3456778899999999985
No 10
>PF09527 ATPase_gene1: Putative F0F1-ATPase subunit (ATPase_gene1)
Probab=37.17 E-value=68 Score=17.05 Aligned_cols=23 Identities=9% Similarity=0.205 Sum_probs=18.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHhcC
Q psy7368 58 VWFLYVDSAIYLILVWYIEAVFP 80 (93)
Q Consensus 58 ~~~l~~d~~ly~ll~wYld~V~P 80 (93)
-..+...+++...+++|+|+.+.
T Consensus 7 g~~~~~~i~~g~~~G~~lD~~~~ 29 (55)
T PF09527_consen 7 GFTMAAPILVGFFLGYWLDKWFG 29 (55)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcC
Confidence 34566677788999999999984
No 11
>smart00188 IL10 Interleukin-10 family. Interleukin-10 inhibits the synthesis of a number of cytokines, including IFN-gamma, IL-2, IL-3, TNF and GM-CSF produced by activated macrophages and by helper T cells.
Probab=36.20 E-value=26 Score=23.04 Aligned_cols=18 Identities=28% Similarity=0.672 Sum_probs=14.2
Q ss_pred HHHHHHHHHHHHHhcCCC
Q psy7368 65 SAIYLILVWYIEAVFPDG 82 (93)
Q Consensus 65 ~~ly~ll~wYld~V~Pg~ 82 (93)
+++--+|-.|+|.|+|.-
T Consensus 45 ~~l~ell~FYLd~V~p~a 62 (137)
T smart00188 45 QALSEMIQFYLEEVMPQA 62 (137)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 345678899999999854
No 12
>PF06422 PDR_CDR: CDR ABC transporter; InterPro: IPR010929 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems. ABC transporters minimally consist of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain []. The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyse ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarise the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site [, , ]. The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis [, , , , , ]. The ATP-Binding Cassette (ABC) superfamily forms one of the largest of all protein families with a diversity of physiological functions []. Several studies have shown that there is a correlation between the functional characterisation and the phylogenetic classification of the ABC cassette [, ]. More than 50 subfamilies have been described based on a phylogenetic and functional classification [, , ]; (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). In yeast, the PDR and CDR ABC transporters display extensive sequence homology, and confer resistance to several anti-fungal compounds by actively transporting their substrates out of the cell. These transporters have two homologous halves, each with an N-terminal intracellular hydrophilic region that contains an ATP-binding site, followed by a C-terminal membrane-associated region containing six transmembrane segments []. This entry represents a domain of the PDR/CDR ABC transporter comprising extracellular loop 3, transmembrane segment 6 and a linker region.; GO: 0005524 ATP binding, 0042626 ATPase activity, coupled to transmembrane movement of substances, 0006810 transport, 0016021 integral to membrane
Probab=36.12 E-value=79 Score=19.31 Aligned_cols=34 Identities=12% Similarity=0.144 Sum_probs=23.9
Q ss_pred CCCCCCCCCCCCCCCCchHHHHHHHHHHHHHHHHHHHHHHHH
Q psy7368 36 GVQWDNWDKKLSPSDPFSLYDIVWFLYVDSAIYLILVWYIEA 77 (93)
Q Consensus 36 G~~w~~~~~~~~~~~~~s~~~~~~~l~~d~~ly~ll~wYld~ 77 (93)
|..++++|+ .++.++++.++-.+++++..-|++.
T Consensus 42 ~y~~sh~WR--------N~GIli~f~i~f~~~~~~~~e~~~~ 75 (103)
T PF06422_consen 42 GYSYSHRWR--------NFGILIAFWIFFIVLTLLATEFIKF 75 (103)
T ss_pred cccccchhh--------hHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 555566653 4677788888888888888877653
No 13
>COG0382 UbiA 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]
Probab=35.80 E-value=1.6e+02 Score=20.98 Aligned_cols=62 Identities=16% Similarity=0.092 Sum_probs=46.9
Q ss_pred hhccHHHHHHHHHHHHHHhhhcCCCCCCCCCCCCCCCCCchHHHHHHHHHHHHHHHHHHHHHHHH
Q psy7368 13 CFSANVSFGVGAFVIATWEEAGLGVQWDNWDKKLSPSDPFSLYDIVWFLYVDSAIYLILVWYIEA 77 (93)
Q Consensus 13 sL~~~~a~~~g~~~i~~~E~~~~G~~w~~~~~~~~~~~~~s~~~~~~~l~~d~~ly~ll~wYld~ 77 (93)
..+.-.+.++.++.+.+.|.+..-.. ..+.+.+.+..|......+.++..++.++++|.++.
T Consensus 55 ~~~~~~~ag~~iND~~D~eiD~~n~r---t~~RPl~sG~vS~~~a~~~~~~~~~~~~~~a~~l~~ 116 (289)
T COG0382 55 AFFLARSAGYVINDLADREIDRINPR---TKNRPLPSGRVSVKEALLLAILLLLLGLALALLLNP 116 (289)
T ss_pred HHHHHHHHhHHHHHHhhhhccCCCCC---ccCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHhH
Confidence 34455667788888888888665333 123356778899999999999999999999998874
No 14
>PF07664 FeoB_C: Ferrous iron transport protein B C terminus; InterPro: IPR011640 Escherichia coli has an iron(II) transport system (feo) which may make an important contribution to the iron supply of the cell under anaerobic conditions []. FeoB has been identified as part of this transport system. FeoB is a large 700-800 amino acid integral membrane protein. The N terminus has been previously erroneously described as being ATP-binding []. Recent work shows that it is similar to eukaryotic G-proteins and that it is a GTPase [].; GO: 0015093 ferrous iron transmembrane transporter activity, 0015684 ferrous iron transport, 0016021 integral to membrane
Probab=28.23 E-value=1e+02 Score=16.42 Aligned_cols=25 Identities=4% Similarity=0.147 Sum_probs=20.3
Q ss_pred HHHHHHHHHHHHHHHHHHH-HhcCCC
Q psy7368 58 VWFLYVDSAIYLILVWYIE-AVFPDG 82 (93)
Q Consensus 58 ~~~l~~d~~ly~ll~wYld-~V~Pg~ 82 (93)
+.+-+++.++.++.++-+. .+++|+
T Consensus 3 ~~~y~~~~~~~l~~~~il~~~~~~~~ 28 (54)
T PF07664_consen 3 FSLYLLGILVALLVGLILKKTILKGE 28 (54)
T ss_pred HHHHHHHHHHHHHHHHHHHhhccCCC
Confidence 4566778888899999999 888887
No 15
>COG0575 CdsA CDP-diglyceride synthetase [Lipid metabolism]
Probab=27.84 E-value=1.3e+02 Score=21.36 Aligned_cols=28 Identities=14% Similarity=0.027 Sum_probs=22.7
Q ss_pred HHHHHHHHHHHHhcCCCCCCCCCCCCCC
Q psy7368 66 AIYLILVWYIEAVFPDGVGVFSQPLNQP 93 (93)
Q Consensus 66 ~ly~ll~wYld~V~Pg~~Gv~~~pw~Fp 93 (93)
.+-..+...+|..+..++|+|.++|.-|
T Consensus 211 ~l~~~lGDL~eS~iKR~~gvKDsg~liP 238 (265)
T COG0575 211 VLTSQLGDLFESYIKRLLGIKDSGWLIP 238 (265)
T ss_pred HHHHHHhhHHHHHHHHccCCCCcCCCCC
Confidence 3455667788889999999999998766
No 16
>COG4392 Predicted membrane protein [Function unknown]
Probab=26.04 E-value=1.2e+02 Score=19.09 Aligned_cols=39 Identities=15% Similarity=0.080 Sum_probs=28.5
Q ss_pred CCchhhHHHHhhccHHHHHHHHHHHHHHhhhcCCCCCCC
Q psy7368 3 QCFSANVSFGCFSANVSFGVGAFVIATWEEAGLGVQWDN 41 (93)
Q Consensus 3 ~~~~~~k~~~sL~~~~a~~~g~~~i~~~E~~~~G~~w~~ 41 (93)
|.+...+-.++..|...++.-+.-..-....|...+|+|
T Consensus 32 ~LP~~v~~~L~fvP~a~ltAL~~p~vl~~~~g~~~s~~~ 70 (107)
T COG4392 32 RLPPWVRRFLSFVPVAILTALIAPDVLMPHGGLDPSWNN 70 (107)
T ss_pred cCCHHHHHHHhhccHHHHHHHHhhhHhccCCCcchhhcc
Confidence 456777888888999888877666555555677777776
No 17
>KOG4040|consensus
Probab=25.15 E-value=1.7e+02 Score=20.02 Aligned_cols=30 Identities=13% Similarity=0.411 Sum_probs=24.1
Q ss_pred CchHHHHHHHHHHHHHHHHHHHHHHHHhcC
Q psy7368 51 PFSLYDIVWFLYVDSAIYLILVWYIEAVFP 80 (93)
Q Consensus 51 ~~s~~~~~~~l~~d~~ly~ll~wYld~V~P 80 (93)
.++--.+++|.++..+-..+++||+..+.|
T Consensus 124 ~y~~w~~~~mcl~g~~~~~l~~~y~~d~~p 153 (186)
T KOG4040|consen 124 DYTTWNSIVMCLRGLVPMALLAWYFTDEHP 153 (186)
T ss_pred CcccHHHHHHHHHHHHHHHHHHHHHccccc
Confidence 345556788888888888999999988776
No 18
>KOG2927|consensus
Probab=24.47 E-value=1.6e+02 Score=22.57 Aligned_cols=29 Identities=17% Similarity=0.186 Sum_probs=13.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCCCCC
Q psy7368 57 IVWFLYVDSAIYLILVWYIEAVFPDGVGVFSQPLNQP 93 (93)
Q Consensus 57 ~~~~l~~d~~ly~ll~wYld~V~Pg~~Gv~~~pw~Fp 93 (93)
++...++.+++|.+. |- |.+| .+ +=|+||
T Consensus 232 IlvLaIvRlILF~I~-~i---l~~g---~~-g~W~FP 260 (372)
T KOG2927|consen 232 ILVLAIVRLILFGIT-WI---LTGG---KH-GFWLFP 260 (372)
T ss_pred HHHHHHHHHHHHHHH-HH---HhCC---CC-ceEecc
Confidence 334444455554433 32 3332 33 378887
No 19
>KOG3713|consensus
Probab=23.02 E-value=1.6e+02 Score=23.38 Aligned_cols=30 Identities=33% Similarity=0.451 Sum_probs=25.2
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHhcCCC
Q psy7368 53 SLYDIVWFLYVDSAIYLILVWYIEAVFPDG 82 (93)
Q Consensus 53 s~~~~~~~l~~d~~ly~ll~wYld~V~Pg~ 82 (93)
.++..++++.+.++++..+.+|+|+.-|+.
T Consensus 344 ElglLllfL~~GI~iFStlvY~~Ek~~~~~ 373 (477)
T KOG3713|consen 344 ELGLLLLFLAVGIVIFSTLVYFAEKDEPDT 373 (477)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhcCCCC
Confidence 345566777889999999999999999887
No 20
>PF11120 DUF2636: Protein of unknown function (DUF2636); InterPro: IPR019995 Members of this protein family are found invariably together with genes of bacterial cellulose biosynthesis, and are presumed to be involved in the process []. Members average about 63 amino acids in length and are not uncharacterised. The gene has been designated both YhjT and BcsF (bacterial cellulose synthesis F).
Probab=22.73 E-value=1.6e+02 Score=16.71 Aligned_cols=28 Identities=18% Similarity=0.380 Sum_probs=20.8
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHhcC
Q psy7368 53 SLYDIVWFLYVDSAIYLILVWYIEAVFP 80 (93)
Q Consensus 53 s~~~~~~~l~~d~~ly~ll~wYld~V~P 80 (93)
++.+++=..++-.++.+.|+|++-+.+|
T Consensus 2 ~i~DiiQii~l~AlI~~pLGyl~~~~~~ 29 (62)
T PF11120_consen 2 NISDIIQIIILCALIFFPLGYLARRWLP 29 (62)
T ss_pred CHHHHHHHHHHHHHHHHhHHHHHHHHhH
Confidence 4555666677778888999999877665
No 21
>PF04178 Got1: Got1/Sft2-like family ; InterPro: IPR007305 Traffic through the yeast Golgi complex depends on a member of the syntaxin family of SNARE proteins, Sed5, present in early Golgi cisternae. Got1 is thought to facilitate Sed5-dependent fusion events []. This is a family of sequences derived from eukaryotic proteins. They are similar to a region of a SNARE-like protein required for traffic through the Golgi complex, SFT2 protein (P38166 from SWISSPROT) []. This is a conserved protein with four putative transmembrane helices, thought to be involved in vesicular transport in later Golgi compartments []. ; GO: 0016192 vesicle-mediated transport
Probab=22.61 E-value=1.5e+02 Score=18.49 Aligned_cols=18 Identities=22% Similarity=0.635 Sum_probs=13.9
Q ss_pred HHHHHHHHHHHHHHHhcC
Q psy7368 63 VDSAIYLILVWYIEAVFP 80 (93)
Q Consensus 63 ~d~~ly~ll~wYld~V~P 80 (93)
+-.+-+..+.||+-..+|
T Consensus 89 f~~~q~~al~wy~~s~iP 106 (118)
T PF04178_consen 89 FSIFQFPALIWYLLSYIP 106 (118)
T ss_pred HHHHHHHHHHHHHHHhCC
Confidence 344446889999999999
No 22
>PF11712 Vma12: Endoplasmic reticulum-based factor for assembly of V-ATPase; InterPro: IPR021013 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. V-ATPases (also known as V1V0-ATPase or vacuolar ATPase) (3.6.3.14 from EC) are found in the eukaryotic endomembrane system, and in the plasma membrane of prokaryotes and certain specialised eukaryotic cells. V-ATPases hydrolyse ATP to drive a proton pump, and are involved in a variety of vital intra- and inter-cellular processes such as receptor mediated endocytosis, protein trafficking, active transport of metabolites, homeostasis and neurotransmitter release []. V-ATPases are composed of two linked complexes: the V1 complex (subunits A-H) contains the catalytic core that hydrolyses ATP, while the V0 complex (subunits a, c, c', c'', d) forms the membrane-spanning pore. V-ATPases may have an additional role in membrane fusion through binding to t-SNARE proteins []. The yeast vacuolar proton-translocating ATPase (V-ATPase) is the best characterised member of the V-ATPase family. A total of thirteen genes are required for encoding the subunits of the enzyme complex itself and an additional three for providing factors necessary for the assembly of the whole. Vma12 is one of these latter, all three of which are localised to the endoplasmic reticulum [].
Probab=22.40 E-value=1.9e+02 Score=18.49 Aligned_cols=23 Identities=13% Similarity=0.377 Sum_probs=14.7
Q ss_pred chHHHHHHHHHHHHHHHHHHHHH
Q psy7368 52 FSLYDIVWFLYVDSAIYLILVWY 74 (93)
Q Consensus 52 ~s~~~~~~~l~~d~~ly~ll~wY 74 (93)
.++...+++++.+.++|..-..-
T Consensus 115 lgl~~al~vlvAEv~l~~~y~~k 137 (142)
T PF11712_consen 115 LGLFGALLVLVAEVVLYIRYLRK 137 (142)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhh
Confidence 35566666777788877664333
No 23
>TIGR03732 lanti_perm_MutE lantibiotic protection ABC transporter permease subunit, MutE/EpiE family. Model TIGR03731 represents the family of all lantibiotics related to gallidermin, including epidermin, mutatin, and nisin. This protein family is largely restricted to gallidermin-family lantibiotic cassettes, but also include orphan transporter cassettes in species that lack candidate lantibiotic precursor and synthetase genes. In most species, this subunit is paralogous to an adjacent gene, modeled separately.
Probab=21.33 E-value=2.9e+02 Score=19.17 Aligned_cols=64 Identities=11% Similarity=0.006 Sum_probs=36.3
Q ss_pred hccHHHHHHHHHHHHHHhhhcCCCCCCCCCCCCCCCCCchHH---HHHHHHHHHHHHHHHHHHHHHHhc
Q psy7368 14 FSANVSFGVGAFVIATWEEAGLGVQWDNWDKKLSPSDPFSLY---DIVWFLYVDSAIYLILVWYIEAVF 79 (93)
Q Consensus 14 L~~~~a~~~g~~~i~~~E~~~~G~~w~~~~~~~~~~~~~s~~---~~~~~l~~d~~ly~ll~wYld~V~ 79 (93)
++-|...+.-+..+.+.|.++. +|+++...+.+....-.+ ....+.++.+++..++..-...+.
T Consensus 49 ~~lP~~iaii~~~~~~~E~~~~--~~k~lls~pvs~~~~~~aK~l~~~~~~~~s~~i~~i~~~~~g~l~ 115 (241)
T TIGR03732 49 IFLPGMIALICALLHKKEKKAS--NYRAILSLPVDLKKVWIAKILVIAIYLLISCIILFIGLVLIGFVI 115 (241)
T ss_pred HHHHHHHHHHHHHHHHHHHhcc--CcceEeecCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4677888889999999999763 677776554322222222 222344444554444444444444
No 24
>PF06609 TRI12: Fungal trichothecene efflux pump (TRI12); InterPro: IPR010573 This family consists of several fungal specific trichothecene efflux pump proteins. Many of the genes involved in trichothecene toxin biosynthesis in Fusarium sporotrichioides are present within a gene cluster. It has been suggested that TRI12 may play a role in F. sporotrichioides self-protection against trichothecenes [].
Probab=21.29 E-value=1.2e+02 Score=24.68 Aligned_cols=22 Identities=9% Similarity=0.140 Sum_probs=16.5
Q ss_pred hHHHHHHHHHHHHHHHHHHHHH
Q psy7368 53 SLYDIVWFLYVDSAIYLILVWY 74 (93)
Q Consensus 53 s~~~~~~~l~~d~~ly~ll~wY 74 (93)
+=.+++.++++..++..+.+.|
T Consensus 269 ~Sa~VIa~lviG~~~Lv~F~~w 290 (599)
T PF06609_consen 269 KSAHVIAPLVIGFVLLVAFVVW 290 (599)
T ss_pred CCccchhhHHHHHHHHHHHHHh
Confidence 3355788888888877777777
No 25
>PHA03164 hypothetical protein; Provisional
Probab=21.26 E-value=1.5e+02 Score=17.69 Aligned_cols=25 Identities=20% Similarity=0.324 Sum_probs=18.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhcCC
Q psy7368 57 IVWFLYVDSAIYLILVWYIEAVFPD 81 (93)
Q Consensus 57 ~~~~l~~d~~ly~ll~wYld~V~Pg 81 (93)
++.-+++..++++++.+|+=+|.-|
T Consensus 62 vLtgLaIamILfiifvlyvFnVnr~ 86 (88)
T PHA03164 62 VLTGLAIAMILFIIFVLYVFNVNRG 86 (88)
T ss_pred HHHHHHHHHHHHHHHHHHheeeccC
Confidence 4455677778888999997777543
No 26
>PF04253 TFR_dimer: Transferrin receptor-like dimerisation domain; InterPro: IPR007365 This entry represents the dimerisation domain found in the transferrin receptor, as well as in a number of other proteins including glutamate carboxypeptidase II and N-acetylated-alpha-linked acidic dipeptidase like protein. The transferrin receptor (TfR) assists iron uptake into vertebrate cells through a cycle of endo- and exocytosis of the iron transport protein transferrin (Tf). TfR binds iron-loaded (diferric) Tf at the cell surface and carries it to the endosome, where the iron dissociates from Tf. The apo-Tf remains bound to TfR until it reaches the cell surface, where apo-Tf is replaced by diferric Tf from the serum to begin the cycle again. Human TfR is a homodimeric type II transmembrane protein. The crystal structure of a TfR monomer reveals a 3-domain structure: a protease-like domain that closely resembles carboxy- and amino-peptidases; an apical domain consisting of a beta-sandwich; and a helical dimerisation domain. The dimerisation domain consists of a 4-helical bundle that makes contact with each of the three domains in the dimer partner [].; PDB: 3FF3_A 3FEC_A 3FED_A 3FEE_A 3BXM_A 2C6P_A 1Z8L_C 3SJF_A 3BHX_A 2C6G_A ....
Probab=20.45 E-value=60 Score=20.16 Aligned_cols=19 Identities=26% Similarity=0.338 Sum_probs=15.2
Q ss_pred HHHHHhcCCCCCCCCCCCC
Q psy7368 73 WYIEAVFPDGVGVFSQPLN 91 (93)
Q Consensus 73 wYld~V~Pg~~Gv~~~pw~ 91 (93)
-.+|+-|=.+.|.|.+|||
T Consensus 49 ~~~Er~Fl~~~Glp~r~~~ 67 (125)
T PF04253_consen 49 MQFERAFLDPRGLPGRPWY 67 (125)
T ss_dssp HHHHHCTB-TTSBTTBTT-
T ss_pred HHHHHHHhCcCCCCCCccc
Confidence 4789999999999999997
No 27
>PF09041 Aurora-A_bind: Aurora-A binding ; InterPro: IPR015128 The Aurora-A binding domain binds to two distinct sites on the Aurora kinase: the upstream residues bind at the N-terminal lobe, whilst the downstream residues bind in an alpha-helical conformation between the N- and C-terminal lobes. The two Aurora-A binding motifs are connected by a flexible linker that is variable in length and sequence across species. Binding of the domain results strong activation of Aurora-A and protection from deactivating dephosphorylation by phosphatase PP1 []. ; PDB: 3HA6_B 3E5A_B 1OL5_B.
Probab=20.44 E-value=34 Score=19.72 Aligned_cols=14 Identities=21% Similarity=0.126 Sum_probs=0.4
Q ss_pred HHHHhcCCCCCCCC
Q psy7368 74 YIEAVFPDGVGVFS 87 (93)
Q Consensus 74 Yld~V~Pg~~Gv~~ 87 (93)
=+|+++||+-|+.+
T Consensus 39 nlEn~~p~~~~~~~ 52 (67)
T PF09041_consen 39 NLENKPPGKNGTGE 52 (67)
T ss_dssp H-------------
T ss_pred ccccCCcccccccc
Confidence 46889999998876
No 28
>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=20.12 E-value=1.3e+02 Score=20.78 Aligned_cols=21 Identities=24% Similarity=0.293 Sum_probs=17.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q psy7368 54 LYDIVWFLYVDSAIYLILVWY 74 (93)
Q Consensus 54 ~~~~~~~l~~d~~ly~ll~wY 74 (93)
+|.|++.+-+.+|+|++.-.|
T Consensus 164 iGGIVL~LGv~aI~ff~~KF~ 184 (186)
T PF05283_consen 164 IGGIVLTLGVLAIIFFLYKFC 184 (186)
T ss_pred hhHHHHHHHHHHHHHHHhhhc
Confidence 578888899999999887765
Done!