Query 035336
Match_columns 67
No_of_seqs 109 out of 156
Neff 3.7
Searched_HMMs 46136
Date Fri Mar 29 11:03:16 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/035336.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/035336hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF01249 Ribosomal_S21e: Ribos 100.0 4.4E-49 9.6E-54 250.3 1.2 64 1-64 1-64 (81)
2 KOG3486 40S ribosomal protein 100.0 9.8E-45 2.1E-49 231.7 2.7 64 1-64 1-65 (83)
3 PF06079 Apyrase: Apyrase; In 66.9 2.5 5.5E-05 32.4 0.7 31 11-41 185-230 (291)
4 cd05822 TLP_HIUase HIUase (5-h 66.6 20 0.00043 23.5 4.9 37 31-67 31-79 (112)
5 PTZ00486 apyrase Superfamily; 56.9 5.2 0.00011 31.4 0.9 23 11-33 248-283 (352)
6 TIGR02962 hdxy_isourate hydrox 53.7 56 0.0012 21.4 5.3 51 5-67 17-79 (112)
7 PF00576 Transthyretin: HIUase 51.6 46 0.001 21.8 4.6 40 28-67 29-80 (112)
8 cd05759 Ig2_KIRREL3-like Secon 50.1 9.2 0.0002 21.8 1.0 21 16-36 62-82 (82)
9 PF00970 FAD_binding_6: Oxidor 46.0 41 0.00088 19.7 3.4 39 4-46 31-76 (99)
10 KOG4207 Predicted splicing fac 44.9 9 0.0002 29.1 0.5 13 5-17 37-49 (256)
11 cd05732 Ig5_NCAM-1_like Fifth 43.6 12 0.00027 21.6 0.9 19 16-36 78-96 (96)
12 PF13990 YjcZ: YjcZ-like prote 42.5 6.7 0.00014 29.8 -0.5 14 7-20 246-259 (270)
13 cd04977 Ig1_NCAM-1_like First 41.6 14 0.00031 21.9 0.9 20 16-36 73-92 (92)
14 PRK15036 hydroxyisourate hydro 40.8 61 0.0013 21.9 4.0 38 30-67 56-104 (137)
15 cd04969 Ig5_Contactin_like Fif 38.8 15 0.00033 20.4 0.7 19 16-36 55-73 (73)
16 cd04978 Ig4_L1-NrCAM_like Four 37.6 17 0.00036 20.0 0.7 19 16-36 57-75 (76)
17 cd05870 Ig5_NCAM-2 Fifth immun 36.9 19 0.0004 21.4 0.9 19 16-36 80-98 (98)
18 cd05773 Ig8_hNephrin_like Eigh 36.1 19 0.00042 22.1 1.0 21 16-38 86-106 (109)
19 smart00634 BID_1 Bacterial Ig- 35.5 89 0.0019 18.7 3.8 36 22-57 10-46 (92)
20 cd05854 Ig6_Contactin-2 Sixth 33.4 25 0.00054 20.6 1.1 20 16-37 63-82 (85)
21 TIGR00223 panD L-aspartate-alp 32.9 55 0.0012 22.5 2.8 21 33-57 43-63 (126)
22 cd04970 Ig6_Contactin_like Six 31.4 28 0.00062 19.9 1.1 20 16-37 63-82 (85)
23 PRK05449 aspartate alpha-decar 30.7 63 0.0014 22.2 2.8 21 33-57 43-63 (126)
24 cd05745 Ig3_Peroxidasin Third 30.3 24 0.00052 19.7 0.6 19 16-36 56-74 (74)
25 cd04972 Ig_TrkABC_d4 Fourth do 29.5 26 0.00055 20.3 0.7 20 15-36 71-90 (90)
26 cd06919 Asp_decarbox Aspartate 28.5 74 0.0016 21.4 2.8 21 33-57 42-62 (111)
27 PRK14890 putative Zn-ribbon RN 28.5 37 0.00081 20.6 1.3 18 13-30 6-23 (59)
28 cd05861 Ig1_PDGFR-alphabeta Fr 28.0 31 0.00068 20.1 0.9 22 16-37 62-83 (84)
29 COG2888 Predicted Zn-ribbon RN 27.1 39 0.00085 20.7 1.2 23 10-32 5-27 (61)
30 cd05723 Ig4_Neogenin Fourth im 26.1 25 0.00054 19.6 0.2 8 16-23 53-60 (71)
31 cd05856 Ig2_FGFRL1-like Second 25.9 32 0.00068 18.8 0.6 18 16-35 64-81 (82)
32 cd05748 Ig_Titin_like Immunogl 25.3 31 0.00068 19.0 0.5 17 16-34 56-72 (74)
33 cd05852 Ig5_Contactin-1 Fifth 25.0 24 0.00052 20.2 -0.0 17 16-32 55-71 (73)
34 PRK06789 flagellar motor switc 24.1 64 0.0014 20.0 1.8 33 3-35 38-70 (74)
35 cd05763 Ig_1 Subgroup of the i 24.1 36 0.00078 18.9 0.6 19 16-36 56-74 (75)
36 PF09765 WD-3: WD-repeat regio 23.6 50 0.0011 24.8 1.5 37 18-56 214-250 (291)
37 PHA02579 7 baseplate wedge sub 23.5 39 0.00084 30.1 0.9 36 29-64 271-310 (1030)
38 cd05876 Ig3_L1-CAM Third immun 23.4 42 0.00091 18.7 0.8 19 16-36 52-70 (71)
39 cd05821 TLP_Transthyretin Tran 23.1 2.4E+02 0.0052 18.9 5.3 36 32-67 39-85 (121)
40 PF11978 MVP_shoulder: Shoulde 23.1 65 0.0014 21.9 1.8 14 24-37 11-24 (118)
41 COG0853 PanD Aspartate 1-decar 23.1 1E+02 0.0023 21.2 2.8 11 47-57 52-62 (126)
42 cd05743 Ig_Perlecan_D2_like Im 23.1 26 0.00056 19.8 -0.1 20 16-35 58-77 (78)
43 smart00112 CA Cadherin repeats 23.0 53 0.0011 18.3 1.2 10 31-40 46-55 (79)
44 PF02261 Asp_decarbox: Asparta 22.2 94 0.002 21.0 2.4 21 33-57 43-63 (116)
45 cd05730 Ig3_NCAM-1_like Third 22.1 49 0.0011 19.1 1.0 19 16-36 74-92 (95)
46 cd05725 Ig3_Robo Third immunog 20.5 45 0.00097 18.2 0.5 18 16-35 51-68 (69)
No 1
>PF01249 Ribosomal_S21e: Ribosomal protein S21e ; InterPro: IPR001931 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. A number of eukaryotic ribosomal proteins can be grouped on the basis of sequence similarities. These proteins have 82 to 87 amino acids. The amino termini are all N alpha-acetylated. The N-terminal halves of the protein molecules are highly conserved in contrast to the carboxy-terminal parts [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 3U5G_V 3U5C_V 3IZB_T 2XZN_Z 2XZM_Z 3IZ6_T.
Probab=100.00 E-value=4.4e-49 Score=250.35 Aligned_cols=64 Identities=61% Similarity=1.067 Sum_probs=59.4
Q ss_pred CccccCceeeeeeeecccCCCCcccCCCceeeEEEEEEeCCcceecCceeEEEEehHhhhcccC
Q 035336 1 MQNEEGQNMDLYIPRKCSATNRLITSKDHAAVQINIGHVDADGIYTGQFSTFALCGFVRAQVRF 64 (67)
Q Consensus 1 MqNd~g~~VDlYiPRKCS~TnriI~akDHaSVQIni~~vd~~G~~tg~~~t~ai~G~iR~~Ge~ 64 (67)
||||+|+|||||||||||||||||+|||||||||||++||++|+|||+++||||||+||+|||+
T Consensus 1 MqNd~g~~VDlYiPRKCS~TnriI~aKDHaSvQinv~~vd~~G~~~g~~~t~ai~G~iR~~Ges 64 (81)
T PF01249_consen 1 MQNDAGEFVDLYIPRKCSATNRIISAKDHASVQINVADVDENGRFTGQFKTYAICGFIRRMGES 64 (81)
T ss_dssp -CHCCCHC-SSSHHHCHTTTHHCHHTTSTTSEEEEEEEE-SSS-EEEEEEEEEEHHHHHHTTHH
T ss_pred CcCcCCcEEEEeccccccccCCccccCCceeEEEEeeeecCcccCcCCceEEEEechHhhCcch
Confidence 9999999999999999999999999999999999999999999999999999999999999985
No 2
>KOG3486 consensus 40S ribosomal protein S21 [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=9.8e-45 Score=231.72 Aligned_cols=64 Identities=70% Similarity=1.192 Sum_probs=62.2
Q ss_pred CccccCceeeeeeeecccCCCCcccCCCceeeEEEEEEeCCc-ceecCceeEEEEehHhhhcccC
Q 035336 1 MQNEEGQNMDLYIPRKCSATNRLITSKDHAAVQINIGHVDAD-GIYTGQFSTFALCGFVRAQVRF 64 (67)
Q Consensus 1 MqNd~g~~VDlYiPRKCS~TnriI~akDHaSVQIni~~vd~~-G~~tg~~~t~ai~G~iR~~Ge~ 64 (67)
||||+|+|||||||||||+|||||.||||||||||+++||+. |.|+|+++||||||+||+|||+
T Consensus 1 MqNdaGe~v~LYvPrKcS~sNriI~aKDHaSVQ~N~~~vd~~g~~~~g~~ttyAlcg~vr~~ges 65 (83)
T KOG3486|consen 1 MQNDAGQFVELYVPRKCSATNRIITAKDHASVQLNIGHVDAEGGLYTGQFTTYALCGFVRRMGES 65 (83)
T ss_pred CCCCCcceeEEEecccccccceeeecccchheeecccccccccCccCCceehHHHHHHHHHcCCC
Confidence 999999999999999999999999999999999999999998 5599999999999999999996
No 3
>PF06079 Apyrase: Apyrase; InterPro: IPR009283 This family consists of several eukaryotic apyrase (or adenosine diphosphatase) proteins (3.6.1.5 from EC), and related nucleoside diphosphatases (3.6.1.6 from EC). The salivary apyrases of blood-feeding arthropods are nucleotide hydrolysing enzymes implicated in the inhibition of host platelet aggregation through the hydrolysis of extracellular adenosine diphosphate [].; GO: 0005509 calcium ion binding, 0016462 pyrophosphatase activity; PDB: 2H2N_A 1S18_A 2H2U_A 1S1D_B.
Probab=66.87 E-value=2.5 Score=32.36 Aligned_cols=31 Identities=39% Similarity=0.912 Sum_probs=15.8
Q ss_pred eeeeeccc------------CCCCcccC-CCceeeE-EEEE-EeCC
Q 035336 11 LYIPRKCS------------ATNRLITS-KDHAAVQ-INIG-HVDA 41 (67)
Q Consensus 11 lYiPRKCS------------~TnriI~a-kDHaSVQ-Ini~-~vd~ 41 (67)
..+||+|| .+|-||.| .|..+|+ +.|+ .++|
T Consensus 185 fFLPRr~S~e~Y~e~~DE~~G~N~li~a~edF~~i~v~~ig~~~~p 230 (291)
T PF06079_consen 185 FFLPRRCSKEPYDETADERRGCNLLISADEDFSDIKVIRIGEQLDP 230 (291)
T ss_dssp EE--SEEESS---HHHHTT-B--EEEEE-TTSSSEEEEE-S----T
T ss_pred EEeccccccccccchhhhhcCccEEEEeccCcceeEEEEeCCccCc
Confidence 36899999 58899988 5566665 2344 5666
No 4
>cd05822 TLP_HIUase HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU). HIUase has high sequence similarity with transthyretins and is a member of the transthyretin-like protein (TLP) family. HIUase is distinguished from transthyretins by a conserved signature motif at its C-terminus that forms part of the active site. In HIUase, this motif is YRGS, while transthyretins have a conserved TAVV sequence in the same location. Most HIUases are cytosolic but in plants and slime molds, they are peroxisomal based on the presence of N-terminal periplasmic localization sequences. HIUase forms a homotetramer with each subunit consisting of eight beta-strands arranged in two sheets and a short alpha-helix. The central channel of the tetramer contains two independent binding sites, each located betw
Probab=66.64 E-value=20 Score=23.55 Aligned_cols=37 Identities=22% Similarity=0.328 Sum_probs=28.9
Q ss_pred eeEEEEEEeCCcceecC-----------cee-EEEEehHhhhcccCCCC
Q 035336 31 AVQINIGHVDADGIYTG-----------QFS-TFALCGFVRAQVRFPFL 67 (67)
Q Consensus 31 SVQIni~~vd~~G~~tg-----------~~~-t~ai~G~iR~~Ge~~~~ 67 (67)
..+|..+..|.+||... .++ +|.+..+.+++|+.+|+
T Consensus 31 ~~~i~~~~Td~DGR~~~~~~~~~~~~~G~Y~l~F~~~~Yf~~~~~~~F~ 79 (112)
T cd05822 31 WTLLATGVTNADGRCDDLLPPGAQLAAGTYKLTFDTGAYFAARGQESFY 79 (112)
T ss_pred eEEEEEEEECCCCCccCcccccccCCCeeEEEEEEhhhhhhhcCCCccc
Confidence 57899999999999743 122 37888999999988875
No 5
>PTZ00486 apyrase Superfamily; Provisional
Probab=56.95 E-value=5.2 Score=31.44 Aligned_cols=23 Identities=22% Similarity=0.543 Sum_probs=16.0
Q ss_pred eeeeecccC------------CCCcccCCCc-eeeE
Q 035336 11 LYIPRKCSA------------TNRLITSKDH-AAVQ 33 (67)
Q Consensus 11 lYiPRKCS~------------TnriI~akDH-aSVQ 33 (67)
..+|||||- +|.||.+.++ .+++
T Consensus 248 ~FlPRr~S~e~Yde~~DE~~G~N~ii~~de~F~~i~ 283 (352)
T PTZ00486 248 YFLPRRVSNEPYDEEKDEYRGSNYIIICDEDFQNPR 283 (352)
T ss_pred EEeccccCcccccchhhhhcCCcEEEEecccccceE
Confidence 368999995 6888886654 4443
No 6
>TIGR02962 hdxy_isourate hydroxyisourate hydrolase. Members of this family, hydroxyisourate hydrolase, represent a distinct clade of transthyretin-related proteins. Bacterial members typically are encoded next to ureidoglycolate hydrolase and often near either xanthine dehydrogenase or xanthine/uracil permease genes and have been demonstrated to have hydroxyisourate hydrolase activity. In eukaryotes, a clade separate from the transthyretins (a family of thyroid-hormone binding proteins) has also been shown to have HIU hydrolase activity in urate catabolizing organisms. Transthyretin, then, would appear to be the recently diverged paralog of the more ancient HIUH family.
Probab=53.71 E-value=56 Score=21.35 Aligned_cols=51 Identities=20% Similarity=0.262 Sum_probs=34.5
Q ss_pred cCceeeeeeeecccCCCCcccCCCceeeEEEEEEeCCcceecC-----------cee-EEEEehHhhhcccCCCC
Q 035336 5 EGQNMDLYIPRKCSATNRLITSKDHAAVQINIGHVDADGIYTG-----------QFS-TFALCGFVRAQVRFPFL 67 (67)
Q Consensus 5 ~g~~VDlYiPRKCS~TnriI~akDHaSVQIni~~vd~~G~~tg-----------~~~-t~ai~G~iR~~Ge~~~~ 67 (67)
+|.-|.||-.- +-....|.-+..|++||+.. .++ +|....+.+++|..||+
T Consensus 17 agv~V~L~~~~------------~~~~~~i~~~~Tn~DGR~~~~l~~~~~~~~G~Y~l~F~~g~Yf~~~~~~~F~ 79 (112)
T TIGR02962 17 AGVPVTLYRLD------------GSGWTPLAEGVTNADGRCPDLLPEGETLAAGIYKLRFDTGDYFAARGVETFY 79 (112)
T ss_pred CCCEEEEEEec------------CCCeEEEEEEEECCCCCCcCcccCcccCCCeeEEEEEEhhhhhhhcCCCCCc
Confidence 56778887321 11246788888999999752 222 36778888888887774
No 7
>PF00576 Transthyretin: HIUase/Transthyretin family; InterPro: IPR023416 This family includes transthyretin that is a thyroid hormone-binding protein that transports thyroxine from the bloodstream to the brain. However, most of the sequences listed in this family do not bind thyroid hormones. They are actually enzymes of the purine catabolism that catalyse the conversion of 5-hydroxyisourate (HIU) to OHCU [, ]. HIU hydrolysis is the original function of the family and is conserved from bacteria to mammals; transthyretins arose by gene duplications in the vertebrate lineage [, ]. HIUases are distinguished in the alignment from the conserved C-terminal YRGS sequence. Transthyretin (formerly prealbumin) is one of 3 thyroid hormone-binding proteins found in the blood of vertebrates []. It is produced in the liver and circulates in the bloodstream, where it binds retinol and thyroxine (T4) []. It differs from the other 2 hormone-binding proteins (T4-binding globulin and albumin) in 3 distinct ways: (1) the gene is expressed at a high rate in the brain choroid plexus; (2) it is enriched in cerebrospinal fluid; and (3) no genetically caused absence has been observed, suggesting an essential role in brain function, distinct from that played in the bloodstream []. The protein consists of around 130 amino acids, which assemble as a homotetramer that contains an internal channel in which T4 is bound. Within this complex, T4 appears to be transported across the blood-brain barrier, where, in the choroid plexus, the hormone stimulates further synthesis of transthyretin. The protein then diffuses back into the bloodstream, where it binds T4 for transport back to the brain [].; PDB: 1TFP_B 1KGJ_D 1IE4_C 1GKE_C 1KGI_D 2H0J_B 2H0E_B 2H0F_B 1ZD6_A 3DGD_D ....
Probab=51.61 E-value=46 Score=21.76 Aligned_cols=40 Identities=28% Similarity=0.324 Sum_probs=31.4
Q ss_pred CceeeEEEEEEeCCccee-----------cCceeE-EEEehHhhhcccCCCC
Q 035336 28 DHAAVQINIGHVDADGIY-----------TGQFST-FALCGFVRAQVRFPFL 67 (67)
Q Consensus 28 DHaSVQIni~~vd~~G~~-----------tg~~~t-~ai~G~iR~~Ge~~~~ 67 (67)
+-.-..|.-+..|++||. .|.++. |.+..+.+++|..+|+
T Consensus 29 ~~~~~~l~~~~Td~DGR~~~~~~~~~~~~~G~Y~l~F~~~~Yf~~~~~~~F~ 80 (112)
T PF00576_consen 29 DGSWTLLAEGVTDADGRIKQPLLEGESLEPGIYKLVFDTGDYFAAQGIPSFY 80 (112)
T ss_dssp TSCEEEEEEEEBETTSEESSTSSETTTS-SEEEEEEEEHHHHHHHTTCSTSE
T ss_pred CCCcEEEEEEEECCCCcccccccccccccceEEEEEEEHHHhHhhcCCCeee
Confidence 556688899999999999 455554 8888899998887763
No 8
>cd05759 Ig2_KIRREL3-like Second immunoglobulin (Ig)-like domain of Kirrel (kin of irregular chiasm-like) 3 (also known as Neph2). Ig2_KIRREL3-like: domain similar to the second immunoglobulin (Ig)-like domain of Kirrel (kin of irregular chiasm-like) 3 (also known as Neph2). This protein has five Ig-like domains, one transmembrane domain, and a cytoplasmic tail. Included in this group is mammalian Kirrel (Neph1), Kirrel2 (Neph3), and Drosophila RST (irregular chiasm C-roughest) protein. These proteins contain multiple Ig domains, have properties of cell adhesion molecules, and are important in organ development.
Probab=50.07 E-value=9.2 Score=21.84 Aligned_cols=21 Identities=19% Similarity=0.540 Sum_probs=16.9
Q ss_pred cccCCCCcccCCCceeeEEEE
Q 035336 16 KCSATNRLITSKDHAAVQINI 36 (67)
Q Consensus 16 KCS~TnriI~akDHaSVQIni 36 (67)
.|.++|.-+..-=++|++++|
T Consensus 62 ~C~a~n~~l~~~~~~s~~l~v 82 (82)
T cd05759 62 TCRARNEALPTGKETSVTLDV 82 (82)
T ss_pred EEEEcCccCCCCcEEEEEEcC
Confidence 588888887777788888875
No 9
>PF00970 FAD_binding_6: Oxidoreductase FAD-binding domain; InterPro: IPR008333 These sequences contain an oxidoreductase FAD-binding domain. To date, the 3D-structures of the flavoprotein domain of Zea mays (Maize) nitrate reductase [] and of pig NADH:cytochrome b5 reductase [] have been solved. The overall fold is similar to that of ferredoxin:NADP+ reductase []: the FAD-binding domain (N-terminal) has the topology of an anti-parallel beta-barrel, while the NAD(P)-binding domain (C-terminal) has the topology of a classical pyridine dinucleotide-binding fold (i.e. a central parallel beta-sheet flanked by 2 helices on each side).; PDB: 1JB9_A 3LVB_A 3LO8_A 1FRN_A 1FND_A 1BX1_A 1FNC_A 1FNB_A 1BX0_A 1FRQ_A ....
Probab=45.99 E-value=41 Score=19.69 Aligned_cols=39 Identities=21% Similarity=0.365 Sum_probs=25.3
Q ss_pred ccCceeeeeee-------ecccCCCCcccCCCceeeEEEEEEeCCcceec
Q 035336 4 EEGQNMDLYIP-------RKCSATNRLITSKDHAAVQINIGHVDADGIYT 46 (67)
Q Consensus 4 d~g~~VDlYiP-------RKCS~TnriI~akDHaSVQIni~~vd~~G~~t 46 (67)
..|++|.|.+| |--|-++.. ++...++|-|... ++|.++
T Consensus 31 ~pGQ~v~v~~~~~~~~~~R~yS~~s~~---~~~~~~~~~ik~~-~~G~~S 76 (99)
T PF00970_consen 31 KPGQFVSVRVPINGKQVSRPYSPASSP---DDKGYLEFAIKRY-PNGRVS 76 (99)
T ss_dssp TTT-EEEEEEEETTEEEEEEEEBCSST---TSSSEEEEEEEEC-TTSHHH
T ss_pred CcceEEEEEEccCCcceecceeEeeec---CCCCcEEEEEEec-cCCHHH
Confidence 45999999999 445544433 4556788888776 466554
No 10
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]
Probab=44.86 E-value=9 Score=29.07 Aligned_cols=13 Identities=46% Similarity=0.733 Sum_probs=11.0
Q ss_pred cCceeeeeeeecc
Q 035336 5 EGQNMDLYIPRKC 17 (67)
Q Consensus 5 ~g~~VDlYiPRKC 17 (67)
-|++.|.||||.=
T Consensus 37 YG~vgDVyIPrdr 49 (256)
T KOG4207|consen 37 YGRVGDVYIPRDR 49 (256)
T ss_pred hCcccceeccccc
Confidence 4899999999963
No 11
>cd05732 Ig5_NCAM-1_like Fifth immunoglobulin (Ig)-like domain of Neural Cell Adhesion Molecule NCAM-1 (NCAM) and similar proteins. Ig5_NCAM-1 like: domain similar to the fifth immunoglobulin (Ig)-like domain of Neural Cell Adhesion Molecule NCAM-1 (NCAM). NCAM plays important roles in the development and regeneration of the central nervous system, in synaptogenesis and neural migration. NCAM mediates cell-cell and cell-substratum recognition and adhesion via homophilic (NCAM-NCAM), and heterophilic (NCAM-non-NCAM), interactions. NCAM is expressed as three major isoforms having different intracellular extensions. The extracellular portion of NCAM has five N-terminal Ig-like domains and two fibronectin type III domains. The double zipper adhesion complex model for NCAM homophilic binding involves Ig1, Ig2, and Ig3. By this model, Ig1 and Ig2 mediate dimerization of NCAM molecules situated on the same cell surface (cis interactions), and Ig3 domains mediate interactions between NCAM mole
Probab=43.60 E-value=12 Score=21.55 Aligned_cols=19 Identities=26% Similarity=0.705 Sum_probs=12.3
Q ss_pred cccCCCCcccCCCceeeEEEE
Q 035336 16 KCSATNRLITSKDHAAVQINI 36 (67)
Q Consensus 16 KCS~TnriI~akDHaSVQIni 36 (67)
.|.++|.+ -.|.+|+++.|
T Consensus 78 ~C~a~N~~--G~~~~s~~l~v 96 (96)
T cd05732 78 DCEASNRI--GGDQQSMYLEV 96 (96)
T ss_pred EEEEEeCC--CCcEEEEEEeC
Confidence 57777775 34567777654
No 12
>PF13990 YjcZ: YjcZ-like protein
Probab=42.51 E-value=6.7 Score=29.83 Aligned_cols=14 Identities=57% Similarity=0.869 Sum_probs=12.2
Q ss_pred ceeeeeeeecccCC
Q 035336 7 QNMDLYIPRKCSAT 20 (67)
Q Consensus 7 ~~VDlYiPRKCS~T 20 (67)
+.|-|++||-|||.
T Consensus 246 ~~v~l~mPrlcsA~ 259 (270)
T PF13990_consen 246 QNVALGMPRLCSAE 259 (270)
T ss_pred cccccCcchhccHH
Confidence 56889999999985
No 13
>cd04977 Ig1_NCAM-1_like First immunoglobulin (Ig)-like domain of neural cell adhesion molecule NCAM-1 and similar proteins. Ig1_NCAM-1 like: first immunoglobulin (Ig)-like domain of neural cell adhesion molecule NCAM-1. NCAM-1 plays important roles in the development and regeneration of the central nervous system, in synaptogenesis and neural migration. NCAM mediates cell-cell and cell-substratum recognition and adhesion via homophilic (NCAM-NCAM), and heterophilic (NCAM-nonNCAM), interactions. NCAM is expressed as three major isoforms having different intracellular extensions. The extracellular portion of NCAM has five N-terminal Ig-like domains and two fibronectin type III domains. The double zipper adhesion complex model for NCAM homophilic binding involves the Ig1, Ig2, and Ig3 domains. By this model, Ig1 and Ig2 mediate dimerization of NCAM molecules situated on the same cell surface (cis interactions), and Ig3 domains mediate interactions between NCAM molecules expressed on the s
Probab=41.60 E-value=14 Score=21.91 Aligned_cols=20 Identities=40% Similarity=0.549 Sum_probs=14.1
Q ss_pred cccCCCCcccCCCceeeEEEE
Q 035336 16 KCSATNRLITSKDHAAVQINI 36 (67)
Q Consensus 16 KCS~TnriI~akDHaSVQIni 36 (67)
+|.|+|..-. +..+|+.+.|
T Consensus 73 ~C~A~N~~g~-~~~~sv~l~~ 92 (92)
T cd04977 73 KCVATDAKGT-ESEATVNLKI 92 (92)
T ss_pred EEEEEcCCCC-cceeEEEEEC
Confidence 6999997644 5577777754
No 14
>PRK15036 hydroxyisourate hydrolase; Provisional
Probab=40.82 E-value=61 Score=21.86 Aligned_cols=38 Identities=24% Similarity=0.379 Sum_probs=28.5
Q ss_pred eeeEEEEEEeCCcceecC----c------e-eEEEEehHhhhcccCCCC
Q 035336 30 AAVQINIGHVDADGIYTG----Q------F-STFALCGFVRAQVRFPFL 67 (67)
Q Consensus 30 aSVQIni~~vd~~G~~tg----~------~-~t~ai~G~iR~~Ge~~~~ 67 (67)
.-.+|.-+..|.+||+.. + + -.|...++-+++|..||+
T Consensus 56 ~w~~l~~~~Td~dGR~~~l~~~~~~~~G~Y~L~F~t~~Yf~~~~~~~F~ 104 (137)
T PRK15036 56 GWLQLNTAKTDKDGRIKALWPEQTATTGDYRVVFKTGDYFKKQNLESFF 104 (137)
T ss_pred ceEEEEEEEECCCCCCccccCcccCCCeeEEEEEEcchhhhccCCCCCc
Confidence 347788889999999853 2 1 146788999988988874
No 15
>cd04969 Ig5_Contactin_like Fifth Ig domain of contactin. Ig5_Contactin_like: Fifth Ig domain of contactins. Contactins are neural cell adhesion molecules and are comprised of six Ig domains followed by four fibronectin type III(FnIII) domains anchored to the membrane by glycosylphosphatidylinositol. The first four Ig domains form the intermolecular binding fragment, which arranges as a compact U-shaped module via contacts between Ig domains 1 and 4, and between Ig domains 2 and 3. Contactin-2 (TAG-1, axonin-1) may play a part in the neuronal processes of neurite outgrowth, axon guidance and fasciculation, and neuronal migration. This group also includes contactin-1 and contactin-5. The different contactins show different expression patterns in the central nervous system. During development and in adulthood, contactin-2 is transiently expressed in subsets of central and peripheral neurons. Contactin-5 is expressed specifically in the rat postnatal nervous system, peaking at about 3 week
Probab=38.80 E-value=15 Score=20.44 Aligned_cols=19 Identities=21% Similarity=0.415 Sum_probs=12.7
Q ss_pred cccCCCCcccCCCceeeEEEE
Q 035336 16 KCSATNRLITSKDHAAVQINI 36 (67)
Q Consensus 16 KCS~TnriI~akDHaSVQIni 36 (67)
+|.+.|.+ ..++++++++|
T Consensus 55 ~C~a~N~~--G~~~~~~~l~V 73 (73)
T cd04969 55 TCFAENFF--GKANSTGSLSV 73 (73)
T ss_pred EEEEECCC--CceEEEEEEEC
Confidence 57788874 44666777664
No 16
>cd04978 Ig4_L1-NrCAM_like Fourth immunoglobulin (Ig)-like domain of L1, Ng-CAM (Neuron-glia CAM cell adhesion molecule), and NrCAM (Ng-CAM-related). Ig4_L1-NrCAM_like: fourth immunoglobulin (Ig)-like domain of L1, Ng-CAM (Neuron-glia CAM cell adhesion molecule), and NrCAM (Ng-CAM-related). These proteins belong to the L1 subfamily of cell adhesion molecules (CAMs) and are comprised of an extracellular region having six Ig-like domains and five fibronectin type III domains, a transmembrane region and an intracellular domain. These molecules are primarily expressed in the nervous system. L1 is associated with an X-linked recessive disorder, X-linked hydrocephalus, MASA syndrome, or spastic paraplegia type 1, that involves abnormalities of axonal growth.
Probab=37.56 E-value=17 Score=20.00 Aligned_cols=19 Identities=21% Similarity=0.302 Sum_probs=10.3
Q ss_pred cccCCCCcccCCCceeeEEEE
Q 035336 16 KCSATNRLITSKDHAAVQINI 36 (67)
Q Consensus 16 KCS~TnriI~akDHaSVQIni 36 (67)
.|.|+|.. ..+.++++++|
T Consensus 57 ~C~A~N~~--G~~~~~~~l~V 75 (76)
T cd04978 57 QCNASNVH--GYLLANAFVHV 75 (76)
T ss_pred EEEEEccC--CeEEEeEEEEE
Confidence 46666662 33455555554
No 17
>cd05870 Ig5_NCAM-2 Fifth immunoglobulin (Ig)-like domain of Neural Cell Adhesion Molecule NCAM-2 (also known as OCAM/mamFas II and RNCAM). Ig5_NCAM-2: the fifth immunoglobulin (Ig)-like domain of Neural Cell Adhesion Molecule NCAM-2 (also known as OCAM/mamFas II and RNCAM). NCAM-2 is organized similarly to NCAM , including five N-terminal Ig-like domains and two fibronectin type III domains. NCAM-2 is differentially expressed in the developing and mature olfactory epithelium (OE), and may function like NCAM, as an adhesion molecule.
Probab=36.88 E-value=19 Score=21.36 Aligned_cols=19 Identities=21% Similarity=0.513 Sum_probs=11.4
Q ss_pred cccCCCCcccCCCceeeEEEE
Q 035336 16 KCSATNRLITSKDHAAVQINI 36 (67)
Q Consensus 16 KCS~TnriI~akDHaSVQIni 36 (67)
.|.|+|.+= .+++|++++|
T Consensus 80 ~C~A~N~~G--~~~~~~~l~~ 98 (98)
T cd05870 80 DCEAASRIG--GHQKSMYLDI 98 (98)
T ss_pred EEEEeccCC--cceeEEEEeC
Confidence 477777652 4556666654
No 18
>cd05773 Ig8_hNephrin_like Eighth immunoglobulin-like domain of nephrin. Ig8_hNephrin_like: domain similar to the eighth immunoglobulin-like domain in human nephrin. Nephrin is an integral component of the slit diaphragm, and is a central component of the glomerular ultrafilter. Nephrin plays a structural role, and has a role in signaling. Nephrin is a transmembrane protein having a short intracellular portion, and an extracellular portion comprised of eight Ig-like domains, and one fibronectin type III-like domain. The extracellular portions of nephrin, from neighboring foot processes of separate podocyte cells, may interact with each other, and in association with other components of the slit diaphragm, form a porous molecular sieve within the slit pore. The intracellular portion of nephrin is associated with linker proteins, which connect nephrin to the actin cytoskeleton. The intracellular portion is tyrosine phosphorylated, and mediates signaling from the slit diaphragm into the p
Probab=36.08 E-value=19 Score=22.15 Aligned_cols=21 Identities=29% Similarity=0.488 Sum_probs=15.3
Q ss_pred cccCCCCcccCCCceeeEEEEEE
Q 035336 16 KCSATNRLITSKDHAAVQINIGH 38 (67)
Q Consensus 16 KCS~TnriI~akDHaSVQIni~~ 38 (67)
.|.|+|.+ ..|.+++|+.+..
T Consensus 86 ~C~A~N~~--G~~~~~i~L~~~~ 106 (109)
T cd05773 86 TCTAHNSL--GEDSLDIQLVSTS 106 (109)
T ss_pred EEEEEeCC--ccCcEEEEEEecC
Confidence 68888887 4467888877653
No 19
>smart00634 BID_1 Bacterial Ig-like domain (group 1).
Probab=35.45 E-value=89 Score=18.66 Aligned_cols=36 Identities=22% Similarity=0.205 Sum_probs=25.7
Q ss_pred CcccCCCceeeEEEEEEeCCcce-ecCceeEEEEehH
Q 035336 22 RLITSKDHAAVQINIGHVDADGI-YTGQFSTFALCGF 57 (67)
Q Consensus 22 riI~akDHaSVQIni~~vd~~G~-~tg~~~t~ai~G~ 57 (67)
.-|.|......+|.+--+|++|. ..+..-+|.+.|.
T Consensus 10 ~~~~Adg~d~~~i~v~v~D~~Gnpv~~~~V~f~~~~~ 46 (92)
T smart00634 10 DTAVANGSDAITLTATVTDANGNPVAGQEVTFTTPSG 46 (92)
T ss_pred CcEEEcCcccEEEEEEEECCCCCCcCCCEEEEEECCC
Confidence 34566655677777777999887 6777777887653
No 20
>cd05854 Ig6_Contactin-2 Sixth Ig domain of contactin-2. Ig6_Contactin-2: Sixth Ig domain of the neural cell adhesion molecule contactin-2-like. Contactins are comprised of six Ig domains followed by four fibronectin type III (FnIII) domains anchored to the membrane by glycosylphosphatidylinositol. Contactin-2 (TAG-1, axonin-1) facilitates cell adhesion by homophilic binding between molecules in apposed membranes. It may play a part in the neuronal processes of neurite outgrowth, axon guidance and fasciculation, and neuronal migration. The first four Ig domains form the intermolecular binding fragment, which arranges as a compact U-shaped module by contacts between IG domains 1 and 4, and domains 2 and 3. The different contactins show different expression patterns in the central nervous system. During development and in adulthood, contactin-2 is transiently expressed in subsets of central and peripheral neurons. Contactin-2 is also expressed in retinal amacrine cells in the developing c
Probab=33.41 E-value=25 Score=20.63 Aligned_cols=20 Identities=15% Similarity=0.371 Sum_probs=14.6
Q ss_pred cccCCCCcccCCCceeeEEEEE
Q 035336 16 KCSATNRLITSKDHAAVQINIG 37 (67)
Q Consensus 16 KCS~TnriI~akDHaSVQIni~ 37 (67)
+|.|+|.+ ..+.++.++.|-
T Consensus 63 tC~A~n~~--g~~~~~~~L~V~ 82 (85)
T cd05854 63 TCTAQTVV--DSASASATLVVR 82 (85)
T ss_pred EEEEecCC--CCEEEEEEEEEE
Confidence 79999976 566677777663
No 21
>TIGR00223 panD L-aspartate-alpha-decarboxylase. Members of this family are aspartate 1-decarboxylase, the enzyme that makes beta-alanine and C02 from aspartate. Beta-alanine is then used to make the vitamin pantothenate, from which coenzyme A is made. Aspartate 1-decarboxylase is synthesized as a proenzyme, then cleaved to an alpha (C-terminal) and beta (N-terminal) subunit with a pyruvoyl group.
Probab=32.92 E-value=55 Score=22.50 Aligned_cols=21 Identities=38% Similarity=0.782 Sum_probs=13.7
Q ss_pred EEEEEEeCCcceecCceeEEEEehH
Q 035336 33 QINIGHVDADGIYTGQFSTFALCGF 57 (67)
Q Consensus 33 QIni~~vd~~G~~tg~~~t~ai~G~ 57 (67)
|+.|..++ || .+|.||+|-|.
T Consensus 43 ~V~V~Nv~-NG---~Rf~TYvI~G~ 63 (126)
T TIGR00223 43 KVDIVNVN-NG---KRFSTYAIAGK 63 (126)
T ss_pred EEEEEECC-CC---cEEEEEEEEcC
Confidence 44555555 44 35789999875
No 22
>cd04970 Ig6_Contactin_like Sixth Ig domain of contactin. Ig6_Contactin_like: Sixth Ig domain of contactins. Contactins are neural cell adhesion molecules and are comprised of six Ig domains followed by four fibronectin type III(FnIII) domains anchored to the membrane by glycosylphosphatidylinositol. The first four Ig domains form the intermolecular binding fragment, which arranges as a compact U-shaped module via contacts between Ig domains 1 and 4, and between Ig domains 2 and 3. Contactin-2 (TAG-1, axonin-1) may play a part in the neuronal processes of neurite outgrowth, axon guidance and fasciculation, and neuronal migration. This group also includes contactin-1 and contactin-5. The different contactins show different expression patterns in the central nervous system. During development and in adulthood, contactin-2 is transiently expressed in subsets of central and peripheral neurons. Contactin-5 is expressed specifically in the rat postnatal nervous system, peaking at about 3 week
Probab=31.36 E-value=28 Score=19.86 Aligned_cols=20 Identities=15% Similarity=0.315 Sum_probs=14.3
Q ss_pred cccCCCCcccCCCceeeEEEEE
Q 035336 16 KCSATNRLITSKDHAAVQINIG 37 (67)
Q Consensus 16 KCS~TnriI~akDHaSVQIni~ 37 (67)
+|.++|.+ ..+.++.+|+|.
T Consensus 63 ~C~a~n~~--g~~~~~~~l~V~ 82 (85)
T cd04970 63 TCTAQTVV--DSLSASADLIVR 82 (85)
T ss_pred EEEEecCC--CcEEEEEEEEEE
Confidence 79999966 345677777764
No 23
>PRK05449 aspartate alpha-decarboxylase; Provisional
Probab=30.67 E-value=63 Score=22.16 Aligned_cols=21 Identities=29% Similarity=0.706 Sum_probs=13.6
Q ss_pred EEEEEEeCCcceecCceeEEEEehH
Q 035336 33 QINIGHVDADGIYTGQFSTFALCGF 57 (67)
Q Consensus 33 QIni~~vd~~G~~tg~~~t~ai~G~ 57 (67)
|+.|..++ || .+|.||+|-|.
T Consensus 43 ~V~V~Nv~-NG---~Rf~TYvI~g~ 63 (126)
T PRK05449 43 KVQIVNVN-NG---ARFETYVIAGE 63 (126)
T ss_pred EEEEEECC-CC---cEEEEEEEEcC
Confidence 44555555 44 35789999875
No 24
>cd05745 Ig3_Peroxidasin Third immunoglobulin (Ig)-like domain of peroxidasin. Ig3_Peroxidasin: the third immunoglobulin (Ig)-like domain in peroxidasin. Peroxidasin has a peroxidase domain and interacting extracellular motifs containing four Ig-like domains. It has been suggested that peroxidasin is secreted and has functions related to the stabilization of the extracellular matrix. It may play a part in various other important processes such as removal and destruction of cells which have undergone programmed cell death, and protection of the organism against non-self.
Probab=30.30 E-value=24 Score=19.71 Aligned_cols=19 Identities=21% Similarity=0.448 Sum_probs=11.1
Q ss_pred cccCCCCcccCCCceeeEEEE
Q 035336 16 KCSATNRLITSKDHAAVQINI 36 (67)
Q Consensus 16 KCS~TnriI~akDHaSVQIni 36 (67)
.|.|+|.+= .+.+++|++|
T Consensus 56 ~C~A~N~~G--~~~~~~~L~V 74 (74)
T cd05745 56 ECQAVNIVG--SQRTVAQLTV 74 (74)
T ss_pred EEEEEeCCC--ceeEEEEEeC
Confidence 577777752 3455555553
No 25
>cd04972 Ig_TrkABC_d4 Fourth domain (immunoglobulin-like) of Trk receptors TrkA, TrkB and TrkC. TrkABC_d4: the fourth domain of Trk receptors TrkA, TrkB and TrkC, this is an immunoglobulin (Ig)-like domain which binds to neurotrophin. The Trk family of receptors are tyrosine kinase receptors. They are activated by dimerization, leading to autophosphorylation of intracellular tyrosine residues, and triggering the signal transduction pathway. TrkA, TrkB, and TrkC share significant sequence homology and domain organization. The first three domains are leucine-rich domains. The fourth and fifth domains are Ig-like domains playing a part in ligand binding. TrkA, Band C mediate the trophic effects of the neurotrophin Nerve growth factor (NGF) family. TrkA is recognized by NGF. TrKB is recognized by brain-derived neurotrophic factor (BDNF) and neurotrophin (NT)-4. TrkC is recognized by NT-3. NT-3 is promiscuous as in some cell systems it activates TrkA and TrkB receptors. TrkA is a receptor fo
Probab=29.53 E-value=26 Score=20.35 Aligned_cols=20 Identities=25% Similarity=0.501 Sum_probs=12.1
Q ss_pred ecccCCCCcccCCCceeeEEEE
Q 035336 15 RKCSATNRLITSKDHAAVQINI 36 (67)
Q Consensus 15 RKCS~TnriI~akDHaSVQIni 36 (67)
=.|.|+|..= .+.++++++|
T Consensus 71 Y~C~A~N~~G--~~~~~~~L~v 90 (90)
T cd04972 71 VTCTAENPVG--QANVSVQVTV 90 (90)
T ss_pred EEEEEECCCC--ceeEEEEEeC
Confidence 3577777663 2555666654
No 26
>cd06919 Asp_decarbox Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production. Decarboxylation of aspartate is the major route of beta-alanine production in bacteria, and is catalyzed by the enzyme L-aspartate decarboxylase (ADC), EC:4.1.1.11 which requires a pyruvoyl group for its activity. The pyruvoyl cofactor is covalently bound to the enzyme. The protein is synthesized as a proenzyme and cleaved via self-processing at Gly23-Ser24 to yield an alpha chain (C-terminal fragment) and beta chain (N-terminal fragment), and the pyruvoyl group. Beta-alanine is required for the biosynthesis of pantothenate, in which the enzyme plays a critical regulatory role. The active site of the tetrameric enzyme is located at the interface of two subunits, with a Lysine and a Histidine from the beta chain of one subunit forming the active site with residues from the alpha chain of the adjacent subunit. This alignment
Probab=28.52 E-value=74 Score=21.41 Aligned_cols=21 Identities=24% Similarity=0.577 Sum_probs=13.5
Q ss_pred EEEEEEeCCcceecCceeEEEEehH
Q 035336 33 QINIGHVDADGIYTGQFSTFALCGF 57 (67)
Q Consensus 33 QIni~~vd~~G~~tg~~~t~ai~G~ 57 (67)
|+.|..++ || .+|.||+|-|.
T Consensus 42 ~V~I~Nv~-NG---~Rf~TYvI~g~ 62 (111)
T cd06919 42 KVLVVNVN-NG---ARFETYVIPGE 62 (111)
T ss_pred EEEEEECC-CC---cEEEEEEEEcC
Confidence 44555555 44 35789999875
No 27
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=28.48 E-value=37 Score=20.58 Aligned_cols=18 Identities=28% Similarity=0.545 Sum_probs=15.9
Q ss_pred eeecccCCCCcccCCCce
Q 035336 13 IPRKCSATNRLITSKDHA 30 (67)
Q Consensus 13 iPRKCS~TnriI~akDHa 30 (67)
-|.+|+..|+.|+..+++
T Consensus 6 ~~~~CtSCg~~i~~~~~~ 23 (59)
T PRK14890 6 EPPKCTSCGIEIAPREKA 23 (59)
T ss_pred cCccccCCCCcccCCCcc
Confidence 467999999999999986
No 28
>cd05861 Ig1_PDGFR-alphabeta Frst immunoglobulin (Ig)-like domain of platelet-derived growth factor (PDGF) receptors (R), alpha (CD140a), and beta (CD140b). Ig1_PDGFR-alphabeta: The first immunoglobulin (Ig)-like domain of platelet-derived growth factor (PDGF) receptors (R), alpha (CD140a), and beta (CD140b). PDGF is a potent mitogen for connective tissue cells. PDGF-stimulated processes are mediated by three different PDGFs (PDGF-A,-B, and C). PDGFRalpha binds to all three PDGFs, whereas the PDGFRbeta binds only to PDGF-B. PDGFRs alpha and beta have similar organization: an extracellular component with five Ig-like domains, a transmembrane segment, and a cytoplasmic portion having protein tyrosine kinase activity. In mice, PDGFRalpha and PDGFRbeta are essential for normal development.
Probab=28.04 E-value=31 Score=20.11 Aligned_cols=22 Identities=23% Similarity=0.394 Sum_probs=16.3
Q ss_pred cccCCCCcccCCCceeeEEEEE
Q 035336 16 KCSATNRLITSKDHAAVQINIG 37 (67)
Q Consensus 16 KCS~TnriI~akDHaSVQIni~ 37 (67)
+|.++|..=...+.+||.|.|-
T Consensus 62 ~C~a~n~~~~~~~~~sv~i~V~ 83 (84)
T cd05861 62 ECAAHESTQDQKAFKKVNITVH 83 (84)
T ss_pred EEEEEECccCcceeEEEEEEEe
Confidence 6888887555567888888764
No 29
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=27.07 E-value=39 Score=20.73 Aligned_cols=23 Identities=22% Similarity=0.401 Sum_probs=18.6
Q ss_pred eeeeeecccCCCCcccCCCceee
Q 035336 10 DLYIPRKCSATNRLITSKDHAAV 32 (67)
Q Consensus 10 DlYiPRKCS~TnriI~akDHaSV 32 (67)
....|..|+..++.|+.-.+++.
T Consensus 5 ~~~~~~~CtSCg~~i~p~e~~v~ 27 (61)
T COG2888 5 EMKDPPVCTSCGREIAPGETAVK 27 (61)
T ss_pred cccCCceeccCCCEeccCCceeE
Confidence 34458999999999998888764
No 30
>cd05723 Ig4_Neogenin Fourth immunoglobulin (Ig)-like domain in neogenin and similar proteins. Ig4_Neogenin: fourth immunoglobulin (Ig)-like domain in neogenin and related proteins. Neogenin is a cell surface protein which is expressed in the developing nervous system of vertebrate embryos in the growing nerve cells. It is also expressed in other embryonic tissues, and may play a general role in developmental processes such as cell migration, cell-cell recognition, and tissue growth regulation. Included in this group is the tumor suppressor protein DCC, which is deleted in colorectal carcinoma . DCC and neogenin each have four Ig-like domains followed by six fibronectin type III domains, a transmembrane domain, and an intracellular domain.
Probab=26.10 E-value=25 Score=19.61 Aligned_cols=8 Identities=38% Similarity=0.783 Sum_probs=4.5
Q ss_pred cccCCCCc
Q 035336 16 KCSATNRL 23 (67)
Q Consensus 16 KCS~Tnri 23 (67)
+|.|+|.+
T Consensus 53 ~C~A~N~~ 60 (71)
T cd05723 53 QCIAENDV 60 (71)
T ss_pred EEEEEcCC
Confidence 46666654
No 31
>cd05856 Ig2_FGFRL1-like Second immunoglobulin (Ig)-like domain of fibroblast growth factor (FGF) receptor_like-1(FGFRL1). Ig2_FGFRL1-like: second immunoglobulin (Ig)-like domain of fibroblast growth factor (FGF) receptor_like-1(FGFRL1). FGFRL1 is comprised of a signal peptide, three extracellular Ig-like modules, a transmembrane segment, and a short intracellular domain. FGFRL1 is expressed preferentially in skeletal tissues. Similar to FGF receptors, the expressed protein interacts specifically with heparin and with FGF2. FGFRL1 does not have a protein tyrosine kinase domain at its C terminus; neither does its cytoplasmic domain appear to interact with a signaling partner. It has been suggested that FGFRL1 may not have any direct signaling function, but instead acts as a decoy receptor trapping FGFs and preventing them from binding other receptors.
Probab=25.86 E-value=32 Score=18.83 Aligned_cols=18 Identities=22% Similarity=0.429 Sum_probs=8.2
Q ss_pred cccCCCCcccCCCceeeEEE
Q 035336 16 KCSATNRLITSKDHAAVQIN 35 (67)
Q Consensus 16 KCS~TnriI~akDHaSVQIn 35 (67)
.|.++|..= .+.++++++
T Consensus 64 ~C~a~N~~G--~~~~~~~v~ 81 (82)
T cd05856 64 TCHVSNRAG--EINATYKVD 81 (82)
T ss_pred EEEEEcCCc--cEEEEEEEe
Confidence 355555542 234444444
No 32
>cd05748 Ig_Titin_like Immunoglobulin (Ig)-like domain of titin and similar proteins. Ig_Titin_like: immunoglobulin (Ig)-like domain found in titin-like proteins. Titin (also called connectin) is a fibrous sarcomeric protein specifically found in vertebrate striated muscle. Titin is gigantic, depending on isoform composition it ranges from 2970 to 3700 kDa, and is of a length that spans half a sarcomere. Titin largely consists of multiple repeats of Ig-like and fibronectin type 3 (FN-III)-like domains. Titin connects the ends of myosin thick filaments to Z disks and extends along the thick filament to the H zone. It appears to function similarly to an elastic band, keeping the myosin filaments centered in the sarcomere during muscle contraction or stretching. Within the sarcomere, titin is also attached to or is associated with myosin binding protein C (MyBP-C). MyBP-C appears to contribute to the generation of passive tension by titin, and similar to titin has repeated Ig-like and FN-
Probab=25.34 E-value=31 Score=19.02 Aligned_cols=17 Identities=12% Similarity=0.247 Sum_probs=8.0
Q ss_pred cccCCCCcccCCCceeeEE
Q 035336 16 KCSATNRLITSKDHAAVQI 34 (67)
Q Consensus 16 KCS~TnriI~akDHaSVQI 34 (67)
+|.++|.. ..+.+++++
T Consensus 56 ~C~a~N~~--G~~~~~~~l 72 (74)
T cd05748 56 TLTLKNPA--GEKSATINV 72 (74)
T ss_pred EEEEECCC--ccEEEEEEE
Confidence 46666653 234444443
No 33
>cd05852 Ig5_Contactin-1 Fifth Ig domain of contactin-1. Ig5_Contactin-1: fifth Ig domain of the neural cell adhesion molecule contactin-1. Contactins are comprised of six Ig domains followed by four fibronectin type III (FnIII) domains anchored to the membrane by glycosylphosphatidylinositol. Contactin-1 is differentially expressed in tumor tissues and may through a RhoA mechanism, facilitate invasion and metastasis of human lung adenocarcinoma.
Probab=25.00 E-value=24 Score=20.25 Aligned_cols=17 Identities=18% Similarity=0.259 Sum_probs=10.5
Q ss_pred cccCCCCcccCCCceee
Q 035336 16 KCSATNRLITSKDHAAV 32 (67)
Q Consensus 16 KCS~TnriI~akDHaSV 32 (67)
.|.|+|..=.+...+.+
T Consensus 55 ~C~A~N~~G~~~~~~~l 71 (73)
T cd05852 55 TCFAENNRGKANSTGVL 71 (73)
T ss_pred EEEEECCCCceeEEEEE
Confidence 69999977444443333
No 34
>PRK06789 flagellar motor switch protein; Validated
Probab=24.13 E-value=64 Score=20.03 Aligned_cols=33 Identities=18% Similarity=0.283 Sum_probs=28.2
Q ss_pred cccCceeeeeeeecccCCCCcccCCCceeeEEE
Q 035336 3 NEEGQNMDLYIPRKCSATNRLITSKDHAAVQIN 35 (67)
Q Consensus 3 Nd~g~~VDlYiPRKCS~TnriI~akDHaSVQIn 35 (67)
...|+.||+|+--+|-+...++...|+--|.|.
T Consensus 38 k~~~epvdI~vNg~lia~GEvVvv~~~fGVRIt 70 (74)
T PRK06789 38 NSTKNTVRLMLENEEIGTGKILTKNGKMYVEIV 70 (74)
T ss_pred CcCCCCEEEEECCEEEeEEeEEEECCEEEEEEE
Confidence 457899999999999999999999988777764
No 35
>cd05763 Ig_1 Subgroup of the immunoglobulin (Ig) superfamily. Ig_1: subgroup of the immunoglobulin (Ig) domain found in the Ig superfamily. The Ig superfamily is a heterogenous group of proteins, built on a common fold comprised of a sandwich of two beta sheets. Members of the Ig superfamily are components of immunoglobulin, neuroglia, cell surface glycoproteins, such as T-cell receptors, CD2, CD4, CD8, and membrane glycoproteins, such as butyrophilin and chondroitin sulfate proteoglycan core protein. A predominant feature of most Ig domains is a disulfide bridge connecting the two beta-sheets with a tryptophan residue packed against the disulfide bond.
Probab=24.05 E-value=36 Score=18.89 Aligned_cols=19 Identities=21% Similarity=0.319 Sum_probs=9.4
Q ss_pred cccCCCCcccCCCceeeEEEE
Q 035336 16 KCSATNRLITSKDHAAVQINI 36 (67)
Q Consensus 16 KCS~TnriI~akDHaSVQIni 36 (67)
.|.|+|..= .+.++++++|
T Consensus 56 ~C~A~N~~G--~~~~~~~l~V 74 (75)
T cd05763 56 SCTAQNTAG--SISANATLTV 74 (75)
T ss_pred EEEEEcCCC--EEEeeEEEEE
Confidence 466666632 2444444443
No 36
>PF09765 WD-3: WD-repeat region; InterPro: IPR019162 This entry represents a region of approximately 100 residues containing three WD repeats and six cysteine residues- possibly as three cysteine-bridges associated with FancL. FancL is the ubiquitin ligase protein that mediates ubiquitination of FancD2, a key step in the DNA damage pathway [, ]. FancL belongs to the multisubunit Fanconi anemia (FA) complex, which is composed of subunits: FancA, FancB, FancC, FancE, FancF, FancG, FancL/PHF9 and FancM. The WD repeats are required for interaction of FancL with other subunits of the FA complex []. In humans defects in FancL are a cause of Fanconi anemia (FA) [MIM:227650], and the FA complex is not found in FA patients. FA is a genetically heterogeneous, autosomal recessive disorder characterised by progressive pancytopenia, a diverse assortment of congenital malformations, and a predisposition to the development of malignancies. At the cellular level it is associated with hypersensitivity to DNA-damaging agents, chromosomal instability (increased chromosome breakage), and defective DNA repair.; PDB: 3ZQS_B 3K1L_A.
Probab=23.55 E-value=50 Score=24.79 Aligned_cols=37 Identities=16% Similarity=0.196 Sum_probs=22.7
Q ss_pred cCCCCcccCCCceeeEEEEEEeCCcceecCceeEEEEeh
Q 035336 18 SATNRLITSKDHAAVQINIGHVDADGIYTGQFSTFALCG 56 (67)
Q Consensus 18 S~TnriI~akDHaSVQIni~~vd~~G~~tg~~~t~ai~G 56 (67)
|.|-|-|+-.+|.||||.|--. +.++-.+.....+.|
T Consensus 214 ~~~~RrI~l~~~~sl~i~vdP~--~P~~~p~~~~l~f~G 250 (291)
T PF09765_consen 214 SDTYRRIALGNNVSLKIEVDPR--HPRMLPECRFLGFIG 250 (291)
T ss_dssp T--EEEEEEETTEEEEEEE-TT--STTSTTCCEEECEES
T ss_pred cccEEEEEECCceEEEEEEcCC--CCccCcccccccccC
Confidence 3477999999999999988333 444434444444444
No 37
>PHA02579 7 baseplate wedge subunit; Provisional
Probab=23.46 E-value=39 Score=30.06 Aligned_cols=36 Identities=22% Similarity=0.360 Sum_probs=30.2
Q ss_pred ceeeEEEEEEeCC-cce-e-cCceeEEE-EehHhhhcccC
Q 035336 29 HAAVQINIGHVDA-DGI-Y-TGQFSTFA-LCGFVRAQVRF 64 (67)
Q Consensus 29 HaSVQIni~~vd~-~G~-~-tg~~~t~a-i~G~iR~~Ge~ 64 (67)
|+|.+|..++++- .|. | ...|.+|| +-|.||+.+||
T Consensus 271 fSsddiTFaKlg~~l~lgFdve~F~~ya~LP~~v~~~aEA 310 (1030)
T PHA02579 271 FSSDDITFAKLGDDLGLGFDVEIFGTYARLPGDVSRKAEA 310 (1030)
T ss_pred ecccceEEEeeccccCCCceeeeecchhhCCcchhhhhhh
Confidence 6899999999997 444 3 67788898 78999999887
No 38
>cd05876 Ig3_L1-CAM Third immunoglobulin (Ig)-like domain of the L1 cell adhesion molecule (CAM). Ig3_L1-CAM: third immunoglobulin (Ig)-like domain of the L1 cell adhesion molecule (CAM). L1 belongs to the L1 subfamily of cell adhesion molecules (CAMs) and is comprised of an extracellular region having six Ig-like domains, five fibronectin type III domains, a transmembrane region and an intracellular domain. L1 is primarily expressed in the nervous system and is involved in its development and function. L1 is associated with an X-linked recessive disorder, X-linked hydrocephalus, MASA syndrome, or spastic paraplegia type 1, that involves abnormalities of axonal growth. This group also contains the chicken neuron-glia cell adhesion molecule, Ng-CAM.
Probab=23.43 E-value=42 Score=18.66 Aligned_cols=19 Identities=16% Similarity=0.277 Sum_probs=10.8
Q ss_pred cccCCCCcccCCCceeeEEEE
Q 035336 16 KCSATNRLITSKDHAAVQINI 36 (67)
Q Consensus 16 KCS~TnriI~akDHaSVQIni 36 (67)
.|.|+|.+=. +-+++++.|
T Consensus 52 ~C~a~N~~G~--~~~~~~l~V 70 (71)
T cd05876 52 VCTAENSEGS--ARHHYTVTV 70 (71)
T ss_pred EEEEEcCCCe--EEEEEEEEE
Confidence 5777777633 334555544
No 39
>cd05821 TLP_Transthyretin Transthyretin (TTR) is a 55 kDa protein responsible for the transport of thyroid hormones and retinol in vertebrates. TTR distributes the two thyroid hormones T3 (3,5,3'-triiodo-L-thyronine) and T4 (Thyroxin, or 3,5,3',5'-tetraiodo-L-thyronine), as well as retinol (vitamin A) through the formation of a macromolecular complex that includes each of these as well as retinol-binding protein. Misfolded forms of TTR are implicated in the amyloid diseases familial amyloidotic polyneuropathy and senile systemic amyloidosis. TTR forms a homotetramer with each subunit consisting of eight beta-strands arranged in two sheets and a short alpha-helix. The central channel of the tetramer contains two independent binding sites, each located between a pair of subunits, which differ in their ligand binding affinity. A negative cooperativity has been observed for the binding of T4 and other TTR ligands. A fraction of plasma TTR is carried in high density lipoproteins by bindi
Probab=23.14 E-value=2.4e+02 Score=18.87 Aligned_cols=36 Identities=17% Similarity=0.257 Sum_probs=26.1
Q ss_pred eEEEEEEeCCcceecC----------cee-EEEEehHhhhcccCCCC
Q 035336 32 VQINIGHVDADGIYTG----------QFS-TFALCGFVRAQVRFPFL 67 (67)
Q Consensus 32 VQIni~~vd~~G~~tg----------~~~-t~ai~G~iR~~Ge~~~~ 67 (67)
..|.-+..|.+||... .++ +|....+.++.|+.+|+
T Consensus 39 ~~l~~~~Tn~DGR~~~ll~~~~~~~G~Y~l~F~tg~Yf~~~~~~~F~ 85 (121)
T cd05821 39 EPFASGKTTETGEIHGLTTDEQFTEGVYKVEFDTKAYWKKLGISPFH 85 (121)
T ss_pred EEEEEEEECCCCCCCCccCccccCCeeEEEEEehhHhhhhcCCCCCC
Confidence 6688889999999742 111 27778888888887774
No 40
>PF11978 MVP_shoulder: Shoulder domain; InterPro: IPR021870 This domain is found in the Major Vault Protein and has been called the shoulder domain []. This family includes two bacterial proteins A6FXE2 from SWISSPROT and A1ZGE7 from SWISSPROT. This suggests that some bacteria may possess vault particles. ; PDB: 2ZUO_G 2QZV_B 2ZV5_c 2ZV4_Y.
Probab=23.08 E-value=65 Score=21.93 Aligned_cols=14 Identities=29% Similarity=0.662 Sum_probs=10.4
Q ss_pred ccCCCceeeEEEEE
Q 035336 24 ITSKDHAAVQINIG 37 (67)
Q Consensus 24 I~akDHaSVQIni~ 37 (67)
++-.|||.+||.++
T Consensus 11 VET~DhArL~L~Ls 24 (118)
T PF11978_consen 11 VETADHARLQLQLS 24 (118)
T ss_dssp EE-TT-EEEEEEEE
T ss_pred EeecccceeeEEEE
Confidence 56789999999987
No 41
>COG0853 PanD Aspartate 1-decarboxylase [Coenzyme metabolism]
Probab=23.06 E-value=1e+02 Score=21.25 Aligned_cols=11 Identities=36% Similarity=0.754 Sum_probs=8.8
Q ss_pred CceeEEEEehH
Q 035336 47 GQFSTFALCGF 57 (67)
Q Consensus 47 g~~~t~ai~G~ 57 (67)
.+|.||+|.|.
T Consensus 52 aRf~TYvI~g~ 62 (126)
T COG0853 52 ARFSTYVIAGE 62 (126)
T ss_pred cEEEEEEEEcc
Confidence 35789999885
No 42
>cd05743 Ig_Perlecan_D2_like Immunoglobulin (Ig)-like domain II (D2) of the human basement membrane heparan sulfate proteoglycan perlecan, also known as HSPG2. Ig_Perlecan_D2_like: the immunoglobulin (Ig)-like domain II (D2) of the human basement membrane heparan sulfate proteoglycan perlecan, also known as HSPG2. Perlecan consists of five domains. Domain I has three putative heparan sulfate attachment sites; domain II has four LDL receptor-like repeats, and one Ig-like repeat; domain III resembles the short arm of laminin chains; domain IV has multiple Ig-like repeats (21 repeats in human perlecan); and domain V resembles the globular G domain of the laminin A chain and internal repeats of EGF. Perlecan may participate in a variety of biological functions including cell binding, LDL-metabolism, basement membrane assembly and selective permeability, calcium binding, and growth- and neurite-promoting activities.
Probab=23.05 E-value=26 Score=19.83 Aligned_cols=20 Identities=15% Similarity=0.029 Sum_probs=10.7
Q ss_pred cccCCCCcccCCCceeeEEE
Q 035336 16 KCSATNRLITSKDHAAVQIN 35 (67)
Q Consensus 16 KCS~TnriI~akDHaSVQIn 35 (67)
.|.++|.+=.+.-.+++++.
T Consensus 58 ~C~a~N~~G~~~~~~~~~~~ 77 (78)
T cd05743 58 TCEAINTRGMVFGIPDGILT 77 (78)
T ss_pred EEEEEecCCEEEecccEEEE
Confidence 46666655555555555544
No 43
>smart00112 CA Cadherin repeats. Cadherins are glycoproteins involved in Ca2+-mediated cell-cell adhesion. Cadherin domains occur as repeats in the extracellular regions which are thought to mediate cell-cell contact when bound to calcium.
Probab=23.02 E-value=53 Score=18.31 Aligned_cols=10 Identities=10% Similarity=0.282 Sum_probs=4.0
Q ss_pred eeEEEEEEeC
Q 035336 31 AVQINIGHVD 40 (67)
Q Consensus 31 SVQIni~~vd 40 (67)
..++.|.-.|
T Consensus 46 ~y~l~v~a~D 55 (79)
T smart00112 46 EYTLTVEATD 55 (79)
T ss_pred eEEEEEEEEE
Confidence 3344444444
No 44
>PF02261 Asp_decarbox: Aspartate decarboxylase; InterPro: IPR003190 Decarboxylation of aspartate is the major route of alanine production in bacteria, and is catalysed by the enzyme aspartate decarboxylase. The enzyme is translated as an inactive proenzyme of two chains, A and B. This family contains both chains of aspartate decarboxylase.; GO: 0004068 aspartate 1-decarboxylase activity, 0006523 alanine biosynthetic process; PDB: 1PYU_C 1AW8_A 1PYQ_B 3TM7_C 1PT1_A 1PQH_A 1PPY_B 1PT0_B 1PQF_A 1PQE_A ....
Probab=22.25 E-value=94 Score=21.04 Aligned_cols=21 Identities=29% Similarity=0.634 Sum_probs=12.5
Q ss_pred EEEEEEeCCcceecCceeEEEEehH
Q 035336 33 QINIGHVDADGIYTGQFSTFALCGF 57 (67)
Q Consensus 33 QIni~~vd~~G~~tg~~~t~ai~G~ 57 (67)
|+.|..++ || .+|.||+|-|.
T Consensus 43 ~V~V~Nv~-nG---~Rf~TYvI~g~ 63 (116)
T PF02261_consen 43 QVQVVNVN-NG---ERFETYVIPGE 63 (116)
T ss_dssp EEEEEETT-T-----EEEEEEEEES
T ss_pred EEEEEECC-CC---cEEEEEEEEcc
Confidence 44555555 44 35789999764
No 45
>cd05730 Ig3_NCAM-1_like Third immunoglobulin (Ig)-like domain of Neural Cell Adhesion Molecule NCAM-1 (NCAM). Ig3_NCAM-1_like: domain similar to the third immunoglobulin (Ig)-like domain of Neural Cell Adhesion Molecule NCAM-1 (NCAM). NCAM plays important roles in the development and regeneration of the central nervous system, in synaptogenesis and neural migration. NCAM mediates cell-cell and cell-substratum recognition and adhesion via homophilic (NCAM-NCAM), and heterophilic (NCAM-non-NCAM), interactions. NCAM is expressed as three major isoforms having different intracellular extensions. The extracellular portion of NCAM has five N-terminal Ig-like domains and two fibronectin type III domains. The double zipper adhesion complex model for NCAM homophilic binding involves Ig1, Ig2, and Ig3. By this model, Ig1,and Ig2 mediate dimerization of NCAM molecules situated on the same cell surface (cis interactions), and Ig3 domains mediate interactions between NCAM molecules expressed on the
Probab=22.05 E-value=49 Score=19.10 Aligned_cols=19 Identities=21% Similarity=0.506 Sum_probs=11.2
Q ss_pred cccCCCCcccCCCceeeEEEE
Q 035336 16 KCSATNRLITSKDHAAVQINI 36 (67)
Q Consensus 16 KCS~TnriI~akDHaSVQIni 36 (67)
.|.|+|..= .+.+++++.|
T Consensus 74 ~C~a~N~~G--~~~~~~~L~V 92 (95)
T cd05730 74 TCIAENKAG--EQEAEIHLKV 92 (95)
T ss_pred EEEEEcCCC--eEEEEEEEEE
Confidence 577777763 3455555554
No 46
>cd05725 Ig3_Robo Third immunoglobulin (Ig)-like domain in Robo (roundabout) receptors. Ig3_Robo: domain similar to the third immunoglobulin (Ig)-like domain in Robo (roundabout) receptors. Robo receptors play a role in the development of the central nervous system (CNS), and are receptors of Slit protein. Slit is a repellant secreted by the neural cells in the midline. Slit acts through Robo to prevent most neurons from crossing the midline from either side. Three mammalian Robo homologs (robo1, -2, and -3), and three mammalian Slit homologs (Slit-1,-2, -3), have been identified. Commissural axons, which cross the midline, express low levels of Robo; longitudinal axons, which avoid the midline, express high levels of Robo. robo1, -2, and -3 are expressed by commissural neurons in the vertebrate spinal cord and Slits 1, -2, -3 are expressed at the ventral midline. Robo-3 is a divergent member of the Robo family which instead of being a positive regulator of slit responsiveness, antagoni
Probab=20.46 E-value=45 Score=18.19 Aligned_cols=18 Identities=28% Similarity=0.379 Sum_probs=10.2
Q ss_pred cccCCCCcccCCCceeeEEE
Q 035336 16 KCSATNRLITSKDHAAVQIN 35 (67)
Q Consensus 16 KCS~TnriI~akDHaSVQIn 35 (67)
.|.++|.+= .+.+++++.
T Consensus 51 ~C~a~N~~G--~~~~~~~l~ 68 (69)
T cd05725 51 TCEAENMVG--KIEASASLT 68 (69)
T ss_pred EEEEEcCCC--cEEEEEEEE
Confidence 577887653 344555443
Done!