Query 034808
Match_columns 82
No_of_seqs 100 out of 173
Neff 3.7
Searched_HMMs 46136
Date Fri Mar 29 06:38:26 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/034808.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/034808hhsearch_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 2.3E-56 5E-61 293.4 3.6 80 1-80 1-80 (81)
2 KOG3486 40S ribosomal protein 100.0 5.5E-50 1.2E-54 264.3 4.0 81 1-81 1-82 (83)
3 PF06079 Apyrase: Apyrase; In 74.5 1.3 2.8E-05 35.2 0.6 32 11-42 185-231 (291)
4 PTZ00486 apyrase Superfamily; 49.2 8 0.00017 31.6 0.9 31 11-41 248-292 (352)
5 KOG4207 Predicted splicing fac 44.2 9.4 0.0002 30.0 0.5 39 5-71 37-75 (256)
6 cd05759 Ig2_KIRREL3-like Secon 42.5 12 0.00026 22.2 0.7 21 16-36 62-82 (82)
7 PF13990 YjcZ: YjcZ-like prote 35.9 11 0.00023 29.9 -0.3 14 7-20 246-259 (270)
8 PF00970 FAD_binding_6: Oxidor 35.8 53 0.0011 20.0 2.9 39 4-46 31-76 (99)
9 PF10114 PocR: Sensory domain 34.7 44 0.00096 22.5 2.6 33 45-77 93-127 (173)
10 cd05732 Ig5_NCAM-1_like Fifth 29.5 24 0.00052 21.1 0.6 19 16-36 78-96 (96)
11 cd04977 Ig1_NCAM-1_like First 29.4 26 0.00057 21.5 0.8 20 16-36 73-92 (92)
12 cd04969 Ig5_Contactin_like Fif 26.4 28 0.0006 20.1 0.4 19 16-36 55-73 (73)
13 cd05870 Ig5_NCAM-2 Fifth immun 26.2 32 0.00069 21.1 0.7 19 16-36 80-98 (98)
14 smart00634 BID_1 Bacterial Ig- 24.7 1.6E+02 0.0035 18.2 3.8 36 22-57 10-46 (92)
15 cd04978 Ig4_L1-NrCAM_like Four 24.5 31 0.00067 19.6 0.4 19 16-36 57-75 (76)
16 PF07976 Phe_hydrox_dim: Pheno 24.2 50 0.0011 23.3 1.5 29 44-73 57-85 (169)
17 TIGR00223 panD L-aspartate-alp 23.4 93 0.002 22.2 2.7 21 33-57 43-63 (126)
18 PRK14890 putative Zn-ribbon RN 23.2 55 0.0012 20.5 1.4 18 13-30 6-23 (59)
19 cd05773 Ig8_hNephrin_like Eigh 22.4 42 0.0009 21.5 0.7 20 16-37 86-105 (109)
20 PRK05449 aspartate alpha-decar 22.2 1E+02 0.0022 21.9 2.7 21 33-57 43-63 (126)
21 COG2888 Predicted Zn-ribbon RN 21.5 56 0.0012 20.8 1.2 24 9-32 4-27 (61)
22 PRK00042 tpiA triosephosphate 21.2 1.5E+02 0.0032 22.5 3.6 49 30-78 56-121 (250)
23 KOG0280 Uncharacterized conser 21.2 61 0.0013 26.6 1.6 57 4-64 186-246 (339)
24 cd05854 Ig6_Contactin-2 Sixth 20.4 47 0.001 20.2 0.7 19 16-36 63-81 (85)
25 cd06919 Asp_decarbox Aspartate 20.1 1.2E+02 0.0026 21.1 2.7 21 33-57 42-62 (111)
26 cd04970 Ig6_Contactin_like Six 20.0 49 0.0011 19.6 0.7 20 16-37 63-82 (85)
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=2.3e-56 Score=293.42 Aligned_cols=80 Identities=56% Similarity=1.011 Sum_probs=75.2
Q ss_pred CccccCceeeeeeeccccCcCCcccCCCCcceEeEeeEeCCCceeeCceeEEEEehhhhhcccchHHHHHHHHhcccccc
Q 034808 1 MQNEEGQNMDLYIPRKCSATNRLITSKDHAAVQINIGHVDADGIYTGQFSTFALCGFVRAQGDGDSAIDRLWQKKKVEVR 80 (82)
Q Consensus 1 MqNd~g~~VDlYiPRKCS~TnriI~akDHaSVQInva~vd~~G~~tg~~~t~ai~G~iR~~GesD~~l~rL~~~~~~~~~ 80 (82)
||||+|+|||||||||||||||||+|||||||||||++||++|+|||+++||||||+||+|||||+||+|||+++|++++
T Consensus 1 MqNd~g~~VDlYiPRKCS~TnriI~aKDHaSvQinv~~vd~~G~~~g~~~t~ai~G~iR~~GesD~~l~rL~~~~g~l~~ 80 (81)
T PF01249_consen 1 MQNDAGEFVDLYIPRKCSATNRIISAKDHASVQINVADVDENGRFTGQFKTYAICGFIRRMGESDDALNRLAKKDGLLSK 80 (81)
T ss_dssp -CHCCCHC-SSSHHHCHTTTHHCHHTTSTTSEEEEEEEE-SSS-EEEEEEEEEEHHHHHHTTHHHHHHHHHHHHTCCCSS
T ss_pred CcCcCCcEEEEeccccccccCCccccCCceeEEEEeeeecCcccCcCCceEEEEechHhhCcchhHHHHHHHHHhCcccC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999975
No 2
>KOG3486 consensus 40S ribosomal protein S21 [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=5.5e-50 Score=264.29 Aligned_cols=81 Identities=69% Similarity=1.162 Sum_probs=78.3
Q ss_pred CccccCceeeeeeeccccCcCCcccCCCCcceEeEeeEeCCC-ceeeCceeEEEEehhhhhcccchHHHHHHHHhccccc
Q 034808 1 MQNEEGQNMDLYIPRKCSATNRLITSKDHAAVQINIGHVDAD-GIYTGQFSTFALCGFVRAQGDGDSAIDRLWQKKKVEV 79 (82)
Q Consensus 1 MqNd~g~~VDlYiPRKCS~TnriI~akDHaSVQInva~vd~~-G~~tg~~~t~ai~G~iR~~GesD~~l~rL~~~~~~~~ 79 (82)
||||+|+|||||||||||+|||||.||||+|||||+++||+. |.|+|+++||||||+||+|||||++++||++++|++.
T Consensus 1 MqNdaGe~v~LYvPrKcS~sNriI~aKDHaSVQ~N~~~vd~~g~~~~g~~ttyAlcg~vr~~gesd~~~~rl~~~~~~~~ 80 (83)
T KOG3486|consen 1 MQNDAGQFVELYVPRKCSATNRIITAKDHASVQLNIGHVDAEGGLYTGQFTTYALCGFVRRMGESDSGVDRLAQKDGVEA 80 (83)
T ss_pred CCCCCcceeEEEecccccccceeeecccchheeecccccccccCccCCceehHHHHHHHHHcCCCcchHHHHHHhccccc
Confidence 999999999999999999999999999999999999999998 5699999999999999999999999999999999987
Q ss_pred cc
Q 034808 80 RQ 81 (82)
Q Consensus 80 ~~ 81 (82)
.+
T Consensus 81 ~~ 82 (83)
T KOG3486|consen 81 KQ 82 (83)
T ss_pred cc
Confidence 64
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=74.47 E-value=1.3 Score=35.20 Aligned_cols=32 Identities=34% Similarity=0.842 Sum_probs=17.0
Q ss_pred eeeecccc------------CcCCcccC-CCCcceEeE-ee-EeCCC
Q 034808 11 LYIPRKCS------------ATNRLITS-KDHAAVQIN-IG-HVDAD 42 (82)
Q Consensus 11 lYiPRKCS------------~TnriI~a-kDHaSVQIn-va-~vd~~ 42 (82)
..+||+|| .+|-||.| .|..+|+.. |+ .++|+
T Consensus 185 fFLPRr~S~e~Y~e~~DE~~G~N~li~a~edF~~i~v~~ig~~~~p~ 231 (291)
T PF06079_consen 185 FFLPRRCSKEPYDETADERRGCNLLISADEDFSDIKVIRIGEQLDPT 231 (291)
T ss_dssp EE--SEEESS---HHHHTT-B--EEEEE-TTSSSEEEEE-S----TT
T ss_pred EEeccccccccccchhhhhcCccEEEEeccCcceeEEEEeCCccCcc
Confidence 36799999 58999888 566776643 56 67774
No 4
>PTZ00486 apyrase Superfamily; Provisional
Probab=49.23 E-value=8 Score=31.60 Aligned_cols=31 Identities=19% Similarity=0.442 Sum_probs=19.8
Q ss_pred eeeeccccC------------cCCcccCCCC-cceEe-EeeEeCC
Q 034808 11 LYIPRKCSA------------TNRLITSKDH-AAVQI-NIGHVDA 41 (82)
Q Consensus 11 lYiPRKCS~------------TnriI~akDH-aSVQI-nva~vd~ 41 (82)
..+||+||- +|.||.+.+| .+++. .++..+|
T Consensus 248 ~FlPRr~S~e~Yde~~DE~~G~N~ii~~de~F~~i~vi~i~~~~p 292 (352)
T PTZ00486 248 YFLPRRVSNEPYDEEKDEYRGSNYIIICDEDFQNPRVIKDPQYDP 292 (352)
T ss_pred EEeccccCcccccchhhhhcCCcEEEEecccccceEEEecCCCCC
Confidence 367999995 6888886644 44442 2445555
No 5
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]
Probab=44.22 E-value=9.4 Score=30.00 Aligned_cols=39 Identities=38% Similarity=0.641 Sum_probs=25.9
Q ss_pred cCceeeeeeeccccCcCCcccCCCCcceEeEeeEeCCCceeeCceeEEEEehhhhhcccchHHHHHH
Q 034808 5 EGQNMDLYIPRKCSATNRLITSKDHAAVQINIGHVDADGIYTGQFSTFALCGFVRAQGDGDSAIDRL 71 (82)
Q Consensus 5 ~g~~VDlYiPRKCS~TnriI~akDHaSVQInva~vd~~G~~tg~~~t~ai~G~iR~~GesD~~l~rL 71 (82)
-|+++|+||||. +||++..-|||--| --+-++++|+.+|
T Consensus 37 YG~vgDVyIPrd---------------------------r~Tr~sRgFaFVrf-~~k~daedA~dam 75 (256)
T KOG4207|consen 37 YGRVGDVYIPRD---------------------------RYTRQSRGFAFVRF-HDKRDAEDALDAM 75 (256)
T ss_pred hCcccceecccc---------------------------cccccccceeEEEe-eecchHHHHHHhh
Confidence 388999999984 56777777775522 2344566666665
No 6
>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=42.50 E-value=12 Score=22.20 Aligned_cols=21 Identities=19% Similarity=0.540 Sum_probs=17.1
Q ss_pred cccCcCCcccCCCCcceEeEe
Q 034808 16 KCSATNRLITSKDHAAVQINI 36 (82)
Q Consensus 16 KCS~TnriI~akDHaSVQInv 36 (82)
.|.++|.-+..-=++|++++|
T Consensus 62 ~C~a~n~~l~~~~~~s~~l~v 82 (82)
T cd05759 62 TCRARNEALPTGKETSVTLDV 82 (82)
T ss_pred EEEEcCccCCCCcEEEEEEcC
Confidence 488888888777788888876
No 7
>PF13990 YjcZ: YjcZ-like protein
Probab=35.93 E-value=11 Score=29.86 Aligned_cols=14 Identities=57% Similarity=0.869 Sum_probs=12.2
Q ss_pred ceeeeeeeccccCc
Q 034808 7 QNMDLYIPRKCSAT 20 (82)
Q Consensus 7 ~~VDlYiPRKCS~T 20 (82)
+.|-|++||-||+.
T Consensus 246 ~~v~l~mPrlcsA~ 259 (270)
T PF13990_consen 246 QNVALGMPRLCSAE 259 (270)
T ss_pred cccccCcchhccHH
Confidence 56889999999985
No 8
>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=35.80 E-value=53 Score=19.97 Aligned_cols=39 Identities=21% Similarity=0.365 Sum_probs=22.9
Q ss_pred ccCceeeeeee-------ccccCcCCcccCCCCcceEeEeeEeCCCceee
Q 034808 4 EEGQNMDLYIP-------RKCSATNRLITSKDHAAVQINIGHVDADGIYT 46 (82)
Q Consensus 4 d~g~~VDlYiP-------RKCS~TnriI~akDHaSVQInva~vd~~G~~t 46 (82)
..|++|.+.+| |--|.++.. .+...++|-|... ++|.++
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 35889999888 444444433 3445677777666 455544
No 9
>PF10114 PocR: Sensory domain found in PocR; InterPro: IPR018771 This entry is thought to act as a sensory domain in histidine kinases catalysing the reaction: ATP + protein L-histidine = ADP + protein N- phospho-L-histidine.
Probab=34.75 E-value=44 Score=22.50 Aligned_cols=33 Identities=24% Similarity=0.489 Sum_probs=26.6
Q ss_pred eeCceeEEEEehhhhhcccchHH--HHHHHHhccc
Q 034808 45 YTGQFSTFALCGFVRAQGDGDSA--IDRLWQKKKV 77 (82)
Q Consensus 45 ~tg~~~t~ai~G~iR~~GesD~~--l~rL~~~~~~ 77 (82)
+.|+..-|.++|.++-....++. +.+++++.++
T Consensus 93 ~~g~~iG~i~~G~v~~~~~~~~~~~~~~~a~~~~~ 127 (173)
T PF10114_consen 93 VDGEYIGYIICGQVLLEDPDDESELIRELAKKYGI 127 (173)
T ss_pred ECCEEEEEEEEEEeecCCCchhHHHHHHHHHHcCC
Confidence 45677778999999998888877 8888887665
No 10
>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=29.50 E-value=24 Score=21.13 Aligned_cols=19 Identities=26% Similarity=0.705 Sum_probs=11.2
Q ss_pred cccCcCCcccCCCCcceEeEe
Q 034808 16 KCSATNRLITSKDHAAVQINI 36 (82)
Q Consensus 16 KCS~TnriI~akDHaSVQInv 36 (82)
.|.++|.+ ..+.+|+++.|
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 57777765 23466666553
No 11
>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=29.37 E-value=26 Score=21.53 Aligned_cols=20 Identities=40% Similarity=0.549 Sum_probs=14.0
Q ss_pred cccCcCCcccCCCCcceEeEe
Q 034808 16 KCSATNRLITSKDHAAVQINI 36 (82)
Q Consensus 16 KCS~TnriI~akDHaSVQInv 36 (82)
+|.++|..-. +..+||.+.|
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 5567777754
No 12
>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=26.40 E-value=28 Score=20.12 Aligned_cols=19 Identities=21% Similarity=0.415 Sum_probs=12.2
Q ss_pred cccCcCCcccCCCCcceEeEe
Q 034808 16 KCSATNRLITSKDHAAVQINI 36 (82)
Q Consensus 16 KCS~TnriI~akDHaSVQInv 36 (82)
.|.+.|.+ ..++++++++|
T Consensus 55 ~C~a~N~~--G~~~~~~~l~V 73 (73)
T cd04969 55 TCFAENFF--GKANSTGSLSV 73 (73)
T ss_pred EEEEECCC--CceEEEEEEEC
Confidence 57777774 44566666654
No 13
>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=26.23 E-value=32 Score=21.15 Aligned_cols=19 Identities=21% Similarity=0.513 Sum_probs=10.6
Q ss_pred cccCcCCcccCCCCcceEeEe
Q 034808 16 KCSATNRLITSKDHAAVQINI 36 (82)
Q Consensus 16 KCS~TnriI~akDHaSVQInv 36 (82)
.|.|+|.+= .+++|++++|
T Consensus 80 ~C~A~N~~G--~~~~~~~l~~ 98 (98)
T cd05870 80 DCEAASRIG--GHQKSMYLDI 98 (98)
T ss_pred EEEEeccCC--cceeEEEEeC
Confidence 466666652 3455666554
No 14
>smart00634 BID_1 Bacterial Ig-like domain (group 1).
Probab=24.68 E-value=1.6e+02 Score=18.22 Aligned_cols=36 Identities=22% Similarity=0.205 Sum_probs=26.7
Q ss_pred CcccCCCCcceEeEeeEeCCCce-eeCceeEEEEehh
Q 034808 22 RLITSKDHAAVQINIGHVDADGI-YTGQFSTFALCGF 57 (82)
Q Consensus 22 riI~akDHaSVQInva~vd~~G~-~tg~~~t~ai~G~ 57 (82)
.-|.|......+|.+-.+|++|. ..+..-+|.+.|.
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 34566656677888888999887 7788888887754
No 15
>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=24.45 E-value=31 Score=19.64 Aligned_cols=19 Identities=21% Similarity=0.302 Sum_probs=9.6
Q ss_pred cccCcCCcccCCCCcceEeEe
Q 034808 16 KCSATNRLITSKDHAAVQINI 36 (82)
Q Consensus 16 KCS~TnriI~akDHaSVQInv 36 (82)
.|.++|.. ..+.++++++|
T Consensus 57 ~C~A~N~~--G~~~~~~~l~V 75 (76)
T cd04978 57 QCNASNVH--GYLLANAFVHV 75 (76)
T ss_pred EEEEEccC--CeEEEeEEEEE
Confidence 46666652 22345555544
No 16
>PF07976 Phe_hydrox_dim: Phenol hydroxylase, C-terminal dimerisation domain ; InterPro: IPR012941 Phenol hydroxylase is a homodimer which hydroxylates phenol to catechol, or similar products. The enzyme is comprised of three domains. The first two domains form the active site. The third domain, this domain, is involved in forming the dimerisation interface. The domain adopts a thioredoxin-like fold [].; PDB: 2DKH_A 2DKI_A 1PN0_A 1FOH_D.
Probab=24.25 E-value=50 Score=23.28 Aligned_cols=29 Identities=17% Similarity=0.228 Sum_probs=19.1
Q ss_pred eeeCceeEEEEehhhhhcccchHHHHHHHH
Q 034808 44 IYTGQFSTFALCGFVRAQGDGDSAIDRLWQ 73 (82)
Q Consensus 44 ~~tg~~~t~ai~G~iR~~GesD~~l~rL~~ 73 (82)
..+|+|..|.++|.++.... -..|..|+.
T Consensus 57 ~sdGrfri~vFagd~~~~~~-~~~l~~l~~ 85 (169)
T PF07976_consen 57 PSDGRFRILVFAGDISLPEQ-LSRLSALAD 85 (169)
T ss_dssp -SSS-EEEEEEEETTTTCHC-CCHHHHHHH
T ss_pred ccCCCEEEEEEeCCCccchh-HHHHHHHHH
Confidence 35789999999999999443 244555443
No 17
>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=23.40 E-value=93 Score=22.18 Aligned_cols=21 Identities=38% Similarity=0.782 Sum_probs=13.5
Q ss_pred EeEeeEeCCCceeeCceeEEEEehh
Q 034808 33 QINIGHVDADGIYTGQFSTFALCGF 57 (82)
Q Consensus 33 QInva~vd~~G~~tg~~~t~ai~G~ 57 (82)
|+.|..++ || .+|.||+|-|.
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 44455555 44 35789999875
No 18
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=23.25 E-value=55 Score=20.54 Aligned_cols=18 Identities=28% Similarity=0.545 Sum_probs=15.9
Q ss_pred eeccccCcCCcccCCCCc
Q 034808 13 IPRKCSATNRLITSKDHA 30 (82)
Q Consensus 13 iPRKCS~TnriI~akDHa 30 (82)
-|.+|+..|+.|+..+++
T Consensus 6 ~~~~CtSCg~~i~~~~~~ 23 (59)
T PRK14890 6 EPPKCTSCGIEIAPREKA 23 (59)
T ss_pred cCccccCCCCcccCCCcc
Confidence 477999999999999986
No 19
>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=22.45 E-value=42 Score=21.47 Aligned_cols=20 Identities=30% Similarity=0.516 Sum_probs=14.4
Q ss_pred cccCcCCcccCCCCcceEeEee
Q 034808 16 KCSATNRLITSKDHAAVQINIG 37 (82)
Q Consensus 16 KCS~TnriI~akDHaSVQInva 37 (82)
.|.|+|.+ ..|.+++|+.+.
T Consensus 86 ~C~A~N~~--G~~~~~i~L~~~ 105 (109)
T cd05773 86 TCTAHNSL--GEDSLDIQLVST 105 (109)
T ss_pred EEEEEeCC--ccCcEEEEEEec
Confidence 58888877 446777777765
No 20
>PRK05449 aspartate alpha-decarboxylase; Provisional
Probab=22.15 E-value=1e+02 Score=21.94 Aligned_cols=21 Identities=29% Similarity=0.706 Sum_probs=13.4
Q ss_pred EeEeeEeCCCceeeCceeEEEEehh
Q 034808 33 QINIGHVDADGIYTGQFSTFALCGF 57 (82)
Q Consensus 33 QInva~vd~~G~~tg~~~t~ai~G~ 57 (82)
|+.|..++ || .+|.||+|-|.
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 44455554 44 35789999875
No 21
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=21.54 E-value=56 Score=20.78 Aligned_cols=24 Identities=25% Similarity=0.444 Sum_probs=18.8
Q ss_pred eeeeeeccccCcCCcccCCCCcce
Q 034808 9 MDLYIPRKCSATNRLITSKDHAAV 32 (82)
Q Consensus 9 VDlYiPRKCS~TnriI~akDHaSV 32 (82)
+....|..|+..++.|+.-.++++
T Consensus 4 ~~~~~~~~CtSCg~~i~p~e~~v~ 27 (61)
T COG2888 4 MEMKDPPVCTSCGREIAPGETAVK 27 (61)
T ss_pred ccccCCceeccCCCEeccCCceeE
Confidence 334459999999999988887753
No 22
>PRK00042 tpiA triosephosphate isomerase; Provisional
Probab=21.21 E-value=1.5e+02 Score=22.55 Aligned_cols=49 Identities=18% Similarity=0.437 Sum_probs=34.3
Q ss_pred cceEeEeeEeCC--CceeeCcee---------EEEEehhhhh---cccchHHHHH---HHHhcccc
Q 034808 30 AAVQINIGHVDA--DGIYTGQFS---------TFALCGFVRA---QGDGDSAIDR---LWQKKKVE 78 (82)
Q Consensus 30 aSVQInva~vd~--~G~~tg~~~---------t~ai~G~iR~---~GesD~~l~r---L~~~~~~~ 78 (82)
..+.+---+++. .|.|||+.. .|+|-|-=-| .||+|+.+++ .|.+.|+.
T Consensus 56 ~~i~vgAQn~~~~~~Ga~TGevS~~mLkd~G~~~viiGHSERR~~f~Etd~~v~~K~~~a~~~gl~ 121 (250)
T PRK00042 56 SNIKLGAQNVHPEDSGAFTGEISAEMLKDLGVKYVIIGHSERRQYFGETDELVNKKVKAALKAGLT 121 (250)
T ss_pred CCeEEEecccccccCCCccCccCHHHHHHCCCCEEEeCcccccCccCcCHHHHHHHHHHHHHCCCE
Confidence 356666666776 699999974 5666665443 3999999998 55667764
No 23
>KOG0280 consensus Uncharacterized conserved protein [Amino acid transport and metabolism]
Probab=21.18 E-value=61 Score=26.58 Aligned_cols=57 Identities=19% Similarity=0.202 Sum_probs=37.2
Q ss_pred ccCce--eeeeeeccccCcCCcccCCCCcceEeEeeEeCC--CceeeCceeEEEEehhhhhcccc
Q 034808 4 EEGQN--MDLYIPRKCSATNRLITSKDHAAVQINIGHVDA--DGIYTGQFSTFALCGFVRAQGDG 64 (82)
Q Consensus 4 d~g~~--VDlYiPRKCS~TnriI~akDHaSVQInva~vd~--~G~~tg~~~t~ai~G~iR~~Ges 64 (82)
|+|.+ -|+=||-+|.|+|.-+. .|=-..|-.-.+ .=.+||++.-+.-.=..|.||+.
T Consensus 186 DD~~l~~~D~R~p~~~i~~n~kvH----~~GV~SI~ss~~~~~~I~TGsYDe~i~~~DtRnm~kP 246 (339)
T KOG0280|consen 186 DDGSLSCWDIRIPKTFIWHNSKVH----TSGVVSIYSSPPKPTYIATGSYDECIRVLDTRNMGKP 246 (339)
T ss_pred CCceEEEEEecCCcceeeecceee----ecceEEEecCCCCCceEEEeccccceeeeehhcccCc
Confidence 34444 47889999999987664 443333333343 45678888776666677888873
No 24
>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=20.36 E-value=47 Score=20.19 Aligned_cols=19 Identities=16% Similarity=0.408 Sum_probs=13.6
Q ss_pred cccCcCCcccCCCCcceEeEe
Q 034808 16 KCSATNRLITSKDHAAVQINI 36 (82)
Q Consensus 16 KCS~TnriI~akDHaSVQInv 36 (82)
+|.|+|.+ ..+.++.++.|
T Consensus 63 tC~A~n~~--g~~~~~~~L~V 81 (85)
T cd05854 63 TCTAQTVV--DSASASATLVV 81 (85)
T ss_pred EEEEecCC--CCEEEEEEEEE
Confidence 69999966 45666666665
No 25
>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=20.12 E-value=1.2e+02 Score=21.14 Aligned_cols=21 Identities=24% Similarity=0.577 Sum_probs=13.2
Q ss_pred EeEeeEeCCCceeeCceeEEEEehh
Q 034808 33 QINIGHVDADGIYTGQFSTFALCGF 57 (82)
Q Consensus 33 QInva~vd~~G~~tg~~~t~ai~G~ 57 (82)
|+.|..++ || .+|.||+|-|.
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 44445554 44 35789999874
No 26
>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=20.00 E-value=49 Score=19.59 Aligned_cols=20 Identities=15% Similarity=0.315 Sum_probs=13.9
Q ss_pred cccCcCCcccCCCCcceEeEee
Q 034808 16 KCSATNRLITSKDHAAVQINIG 37 (82)
Q Consensus 16 KCS~TnriI~akDHaSVQInva 37 (82)
+|.++|.+ ..+.++.+++|.
T Consensus 63 ~C~a~n~~--g~~~~~~~l~V~ 82 (85)
T cd04970 63 TCTAQTVV--DSLSASADLIVR 82 (85)
T ss_pred EEEEecCC--CcEEEEEEEEEE
Confidence 69999966 335667777664
Done!