Query psy14251
Match_columns 76
No_of_seqs 6 out of 8
Neff 1.7
Searched_HMMs 46136
Date Fri Aug 16 23:13:22 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy14251.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/14251hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd04272 ZnMc_salivary_gland_MP 92.2 0.19 4.2E-06 34.7 3.3 50 8-59 58-107 (220)
2 PF01328 Peroxidase_2: Peroxid 74.0 1.8 3.9E-05 33.5 1.3 14 32-45 228-241 (317)
3 cd04898 ACT_ACR-like_4 ACT dom 70.7 0.92 2E-05 30.0 -0.8 14 46-59 14-27 (77)
4 PF14331 ImcF-related_N: ImcF- 69.2 2.4 5.3E-05 30.8 1.0 26 30-58 47-81 (266)
5 cd04273 ZnMc_ADAMTS_like Zinc- 64.2 8.9 0.00019 26.2 2.9 35 25-59 67-106 (207)
6 PF07056 DUF1335: Protein of u 61.7 3 6.6E-05 30.0 0.3 31 21-51 39-73 (131)
7 PRK14022 UDP-N-acetylmuramoyla 54.3 9.8 0.00021 29.1 2.0 28 26-55 90-119 (481)
8 PRK00139 murE UDP-N-acetylmura 51.2 12 0.00026 28.5 2.0 28 26-55 75-104 (460)
9 PF00009 GTP_EFTU: Elongation 46.8 12 0.00026 24.4 1.3 18 39-59 118-135 (188)
10 TIGR01143 murF UDP-N-acetylmur 46.3 20 0.00043 26.8 2.5 28 26-55 56-83 (417)
11 cd04269 ZnMc_adamalysin_II_lik 45.4 26 0.00057 23.3 2.8 33 26-58 65-98 (194)
12 PF14698 ASL_C2: Argininosucci 45.3 12 0.00027 22.6 1.1 16 31-47 4-19 (70)
13 PF09439 SRPRB: Signal recogni 44.8 23 0.00049 25.3 2.5 38 23-60 81-126 (181)
14 PRK11235 bifunctional antitoxi 44.6 21 0.00045 23.0 2.1 24 24-47 24-47 (80)
15 cd04105 SR_beta Signal recogni 44.3 23 0.0005 24.0 2.4 32 29-60 87-123 (203)
16 TIGR02384 RelB_DinJ addiction 39.3 28 0.00062 21.8 2.1 23 25-47 26-48 (83)
17 cd01828 sialate_O-acetylestera 38.4 19 0.00041 22.6 1.2 41 28-72 113-154 (169)
18 PRK14093 UDP-N-acetylmuramoyla 38.1 30 0.00066 26.6 2.5 27 26-54 90-116 (479)
19 TIGR00231 small_GTP small GTP- 37.7 19 0.00041 20.4 1.0 15 43-60 108-122 (161)
20 PRK11930 putative bifunctional 35.7 35 0.00076 28.2 2.6 28 26-55 89-116 (822)
21 cd00882 Ras_like_GTPase Ras-li 35.4 59 0.0013 17.8 2.8 22 42-63 98-119 (157)
22 PF04221 RelB: RelB antitoxin; 35.3 35 0.00075 20.9 2.0 23 25-47 25-47 (83)
23 cd04127 Rab27A Rab27a subfamil 35.2 51 0.0011 20.5 2.7 17 45-61 119-135 (180)
24 cd00880 Era_like Era (E. coli 35.0 22 0.00048 20.1 1.0 13 49-61 107-119 (163)
25 PF09865 DUF2092: Predicted pe 33.5 26 0.00056 25.6 1.4 20 26-45 1-20 (214)
26 KOG0463|consensus 31.8 23 0.0005 30.7 1.0 15 44-61 274-288 (641)
27 PF11502 BCL9: B-cell lymphoma 30.9 32 0.0007 20.4 1.3 16 28-43 14-29 (40)
28 cd01834 SGNH_hydrolase_like_2 30.5 23 0.00051 21.9 0.6 35 38-72 142-178 (191)
29 cd01879 FeoB Ferrous iron tran 30.0 26 0.00056 20.9 0.7 13 49-61 104-116 (158)
30 PF00674 DUP: DUP family; Int 28.8 62 0.0013 20.6 2.4 29 20-48 55-87 (108)
31 smart00177 ARF ARF-like small 28.2 56 0.0012 20.9 2.2 14 48-61 116-129 (175)
32 COG3077 RelB DNA-damage-induci 26.8 57 0.0012 21.7 2.0 22 25-46 28-49 (88)
33 TIGR03348 VI_IcmF type VI secr 26.7 31 0.00068 30.3 1.0 16 41-59 241-256 (1169)
34 PF08477 Miro: Miro-like prote 26.0 61 0.0013 18.8 1.9 12 43-57 108-119 (119)
35 COG4917 EutP Ethanolamine util 25.4 34 0.00074 25.1 0.8 21 40-60 77-104 (148)
36 cd04175 Rap1 Rap1 subgroup. T 24.3 1.1E+02 0.0024 18.7 2.9 13 49-61 109-121 (164)
37 smart00174 RHO Rho (Ras homolo 24.0 78 0.0017 19.5 2.2 33 28-60 82-116 (174)
38 cd01829 SGNH_hydrolase_peri2 S 23.9 79 0.0017 20.1 2.2 35 38-72 138-184 (200)
39 PF13472 Lipase_GDSL_2: GDSL-l 23.4 30 0.00066 20.3 0.2 37 36-72 136-173 (179)
40 cd04154 Arl2 Arl2 subfamily. 23.2 91 0.002 19.5 2.4 14 48-61 117-130 (173)
41 PF01584 CheW: CheW-like domai 22.4 9.7 0.00021 22.8 -2.1 20 34-53 39-58 (138)
42 PF13688 Reprolysin_5: Metallo 21.8 64 0.0014 21.2 1.6 40 21-60 67-106 (196)
43 cd01865 Rab3 Rab3 subfamily. 21.8 1.2E+02 0.0025 18.8 2.6 17 46-62 106-122 (165)
44 KOG3944|consensus 21.2 41 0.00089 27.0 0.6 22 30-51 5-26 (291)
45 cd04161 Arl2l1_Arl13_like Arl2 21.1 1.2E+02 0.0026 19.2 2.6 22 40-61 94-115 (167)
46 PRK11929 putative bifunctional 20.9 88 0.0019 26.1 2.5 28 26-55 585-612 (958)
47 TIGR03598 GTPase_YsxC ribosome 20.8 72 0.0016 20.4 1.6 17 40-59 126-142 (179)
48 cd01870 RhoA_like RhoA-like su 20.3 81 0.0018 19.4 1.7 37 25-61 82-120 (175)
49 cd04176 Rap2 Rap2 subgroup. T 20.2 1.4E+02 0.0031 18.0 2.8 13 49-61 109-121 (163)
50 cd04129 Rho2 Rho2 subfamily. 20.0 94 0.002 20.0 2.0 36 25-60 82-119 (187)
51 cd04145 M_R_Ras_like M-Ras/R-R 20.0 65 0.0014 19.4 1.2 15 48-62 109-123 (164)
No 1
>cd04272 ZnMc_salivary_gland_MPs Zinc-dependent metalloprotease, salivary_gland_MPs. Metalloproteases secreted by the salivary glands of arthropods.
Probab=92.17 E-value=0.19 Score=34.70 Aligned_cols=50 Identities=26% Similarity=0.356 Sum_probs=36.6
Q ss_pred CCCCCchhhhcccccchhchhHHHHHhhhhhhhhcCCcceeeeeeeeecccc
Q psy14251 8 GRDATPYLERNRVGRDAIDSAAALTDMGKYLFRERRLPVYDIAVAVTKKERS 59 (76)
Q Consensus 8 ~~dAtpylE~nrv~~~~iDa~~AL~~Mg~YlyRE~RlP~YDiAia~T~lDmc 59 (76)
..|..|+.... ....+|+...|....+|..+..-..-+|+|+-+|++|++
T Consensus 58 ~~~~~~~~~~~--~~~~~~~~~tL~~F~~~~~~~~~~~~~D~~~LlT~~~~~ 107 (220)
T cd04272 58 DPDFEPYIHPI--NYGYIDAAETLENFNEYVKKKRDYFNPDVVFLVTGLDMS 107 (220)
T ss_pred CcccceeeccC--CcccccHHHHHHHHHHHHhccCCCCcccEEEEEecccee
Confidence 44555544322 335578999999999997766544489999999999984
No 2
>PF01328 Peroxidase_2: Peroxidase, family 2; InterPro: IPR000028 Chloroperoxidase (CPO), also known as Heme haloperoxidase, is a ~250 residue heme-containing glycoprotein that is secreted by various fungi. Chloroperoxidase was first identified in Caldariomyces fumago where it catalyzes the hydrogen peroxide-dependent chlorination of cyclopentanedione during the biosynthesis of the antibiotic caldarioymcin. Additionally, heme haloperoxidase catalyzes the iodination and bromination of a wide range of substrates. Besides performing H2O2-dependent halogenation reactions, the enzyme catalyzes dehydrogenation reactions. Chloroperoxidase also functions as a catalase, facilitating the decomposition of hydrogen peroxide to oxygen and water. Furthermore, chloroperoxidase catalyzes P450-like oxygen insertion reactions. The capability of chloroperoxidase to perform these diverse reactions makes it one of the most versatile of all known heme proteins [, ]. Despite functional similarities with other heme enzymes, chloroperoxidase folds into a novel tertiary structure dominated by eight helical segments []. Structurally, chloroperoxidase is unique, but it shares features with both peroxidases and P450 enzymes. As in cytochrome P450 enzymes, the proximal heme ligand is a cysteine, but similar to peroxidases, the distal side of the heme is polar. However, unlike other peroxidases, the normally conserved distal arginine is lacking and the catalytic acid base is a glutamic acid and not a histidine [].; GO: 0004601 peroxidase activity; PDB: 2J5M_A 2J19_A 2CIW_A 2CJ0_A 2CIV_A 2CPO_A 1CPO_A 2CJ2_A 2J18_A 2CIZ_A ....
Probab=74.04 E-value=1.8 Score=33.49 Aligned_cols=14 Identities=43% Similarity=0.738 Sum_probs=10.3
Q ss_pred HHhhhhhhhhcCCc
Q psy14251 32 TDMGKYLFRERRLP 45 (76)
Q Consensus 32 ~~Mg~YlyRE~RlP 45 (76)
++.-|+||+|+|||
T Consensus 228 ~d~vr~fF~eERLP 241 (317)
T PF01328_consen 228 KDWVRSFFEEERLP 241 (317)
T ss_dssp HHHHHHHHHHSS--
T ss_pred HHHHHHHHhcccCC
Confidence 36778999999999
No 3
>cd04898 ACT_ACR-like_4 ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). This CD includes the C-terminal ACT domain, of a novel type of ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). ACR proteins, found only in Arabidopsis and Oryza, as yet, are proposed to function as novel regulatory or sensor proteins in plants. Nine ACR gene products (ACR1-8 in Arabidopsis and OsARC1-9 in Oryza) have been described, however, the ACR-like sequences in this CD are distinct from those characterized. This CD includes the Oryza sativa ACR-like protein (Os05g0113000) encoded on chromosome 5 and the Arabidopsis thaliana predicted gene product, At2g39570. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=70.71 E-value=0.92 Score=30.04 Aligned_cols=14 Identities=36% Similarity=0.508 Sum_probs=13.6
Q ss_pred ceeeeeeeeecccc
Q psy14251 46 VYDIAVAVTKKERS 59 (76)
Q Consensus 46 ~YDiAia~T~lDmc 59 (76)
||||..|+.+|+.|
T Consensus 14 fyDvTlALK~L~i~ 27 (77)
T cd04898 14 FYDITLALKKLGIC 27 (77)
T ss_pred eeehHHHHHHhccE
Confidence 99999999999998
No 4
>PF14331 ImcF-related_N: ImcF-related N-terminal domain
Probab=69.21 E-value=2.4 Score=30.77 Aligned_cols=26 Identities=38% Similarity=0.531 Sum_probs=18.8
Q ss_pred HHHHhhhhhhh---------hcCCcceeeeeeeeeccc
Q psy14251 30 ALTDMGKYLFR---------ERRLPVYDIAVAVTKKER 58 (76)
Q Consensus 30 AL~~Mg~YlyR---------E~RlP~YDiAia~T~lDm 58 (76)
+|..+++-+-+ .-|+||| |++||+|+
T Consensus 47 ~l~~~a~~lR~rL~el~~~lg~~~PVY---vv~Tk~D~ 81 (266)
T PF14331_consen 47 ELEALARALRQRLEELQRTLGVRLPVY---VVFTKCDL 81 (266)
T ss_pred HHHHHHHHHHHHHHHHHHHhCCCCCeE---eeeECCCc
Confidence 56666665432 3599999 88999996
No 5
>cd04273 ZnMc_ADAMTS_like Zinc-dependent metalloprotease, ADAMTS_like subgroup. ADAMs (A Disintegrin And Metalloprotease) are glycoproteins, which play roles in cell signaling, cell fusion, and cell-cell interactions. This particular subfamily represents domain architectures that combine ADAM-like metalloproteinases with thrombospondin type-1 repeats. ADAMTS (a disintegrin and metalloproteinase with thrombospondin motifs) proteinases are inhibited by TIMPs (tissue inhibitors of metalloproteinases), and they play roles in coagulation, angiogenesis, development and progression of arthritis. They hydrolyze the von Willebrand factor precursor and various components of the extracellular matrix.
Probab=64.16 E-value=8.9 Score=26.22 Aligned_cols=35 Identities=11% Similarity=0.130 Sum_probs=25.8
Q ss_pred hchhHHHHHhhhhhhhhcCC-----cceeeeeeeeecccc
Q psy14251 25 IDSAAALTDMGKYLFRERRL-----PVYDIAVAVTKKERS 59 (76)
Q Consensus 25 iDa~~AL~~Mg~YlyRE~Rl-----P~YDiAia~T~lDmc 59 (76)
-|+.+.|....+|-.+.-.. .-+|+|+-+|+.|+|
T Consensus 67 ~~~~~~L~~F~~w~~~~~~~~~~~~~~~D~a~llt~~d~~ 106 (207)
T cd04273 67 GNAQKSLKSFCRWQKKLNPPNDSDPEHHDHAILLTRQDIC 106 (207)
T ss_pred CCHHHHHHHHHHHHHHcCCcccccccccceEEEEeeeccc
Confidence 36778898888884332221 269999999999997
No 6
>PF07056 DUF1335: Protein of unknown function (DUF1335); InterPro: IPR009766 This family represents a conserved region approximately 130 residues long within a number of proteins of unknown function that seem to be specific to the white spot syndrome virus (WSSV).
Probab=61.69 E-value=3 Score=30.01 Aligned_cols=31 Identities=26% Similarity=0.290 Sum_probs=25.9
Q ss_pred ccchhchhHHHHHhhhhh----hhhcCCcceeeee
Q psy14251 21 GRDAIDSAAALTDMGKYL----FRERRLPVYDIAV 51 (76)
Q Consensus 21 ~~~~iDa~~AL~~Mg~Yl----yRE~RlP~YDiAi 51 (76)
|-+.-+-.++|..|+.-+ +.+.++|+|||+=
T Consensus 39 G~s~~~v~~~L~~me~~l~~~g~~~~~v~v~dICh 73 (131)
T PF07056_consen 39 GFSPRNVTKKLKSMEQNLVKHGGKYSMVPVVDICH 73 (131)
T ss_pred CCChHHHHHHHHHHHHHHHHccCCcceeeHHHHHH
Confidence 455667789999999888 8899999999863
No 7
>PRK14022 UDP-N-acetylmuramoylalanyl-D-glutamate--L-lysine ligase; Provisional
Probab=54.32 E-value=9.8 Score=29.13 Aligned_cols=28 Identities=21% Similarity=0.337 Sum_probs=22.5
Q ss_pred chhHHHHHhhhhhhhh--cCCcceeeeeeeee
Q psy14251 26 DSAAALTDMGKYLFRE--RRLPVYDIAVAVTK 55 (76)
Q Consensus 26 Da~~AL~~Mg~YlyRE--~RlP~YDiAia~T~ 55 (76)
|+.+||..+++++|.. .++|+ |+|+-|+
T Consensus 90 d~~~al~~la~~~~~~p~~~~~v--IgITGTn 119 (481)
T PRK14022 90 DIKKAMSLIAMEFYDNPQHKLKL--LAFTGTK 119 (481)
T ss_pred CHHHHHHHHHHHHhcChhhccEE--EEEeCCC
Confidence 6789999999999976 67775 6777664
No 8
>PRK00139 murE UDP-N-acetylmuramoylalanyl-D-glutamate--2,6-diaminopimelate ligase; Provisional
Probab=51.20 E-value=12 Score=28.50 Aligned_cols=28 Identities=25% Similarity=0.326 Sum_probs=22.2
Q ss_pred chhHHHHHhhhhhhhhc--CCcceeeeeeeee
Q psy14251 26 DSAAALTDMGKYLFRER--RLPVYDIAVAVTK 55 (76)
Q Consensus 26 Da~~AL~~Mg~YlyRE~--RlP~YDiAia~T~ 55 (76)
|+.+||..+++++|+.- ++|+ |+|+-|+
T Consensus 75 d~~~al~~la~~~~~~~~~~~~v--I~ITGTn 104 (460)
T PRK00139 75 DLRKALALLAAAFYGHPSDKLKL--IGVTGTN 104 (460)
T ss_pred CHHHHHHHHHHHHhcChhhccEE--EEEECCC
Confidence 78899999999999765 6675 6777653
No 9
>PF00009 GTP_EFTU: Elongation factor Tu GTP binding domain; InterPro: IPR000795 Elongation factors belong to a family of proteins that promote the GTP-dependent binding of aminoacyl tRNA to the A site of ribosomes during protein biosynthesis, and catalyse the translocation of the synthesised protein chain from the A to the P site. The proteins are all relatively similar in the vicinity of their C-termini, and are also highly similar to a range of proteins that includes the nodulation Q protein from Rhizobium meliloti (Sinorhizobium meliloti), bacterial tetracycline resistance proteins [] and the omnipotent suppressor protein 2 from yeast. In both prokaryotes and eukaryotes, there are three distinct types of elongation factors, EF-1alpha (EF-Tu), which binds GTP and an aminoacyl-tRNAand delivers the latter to the A site of ribosomes; EF-1beta (EF-Ts), which interacts with EF-1a/EF-Tu to displace GDP and thus allows the regeneration of GTP-EF-1a; and EF-2 (EF-G), which binds GTP and peptidyl-tRNA and translocates the latter from the A site to the P site. In EF-1-alpha, a specific region has been shown [] to be involved in a conformational change mediated by the hydrolysis of GTP to GDP. This region is conserved in both EF-1alpha/EF-Tu as well as EF-2/EF-G and thus seems typical for GTP-dependent proteins which bind non-initiator tRNAs to the ribosome. The GTP-binding protein synthesis factor family also includes the eukaryotic peptide chain release factor GTP-binding subunits [] and prokaryotic peptide chain release factor 3 (RF-3) []; the prokaryotic GTP-binding protein lepA and its homologue in yeast (GUF1) and Caenorhabditis elegans (ZK1236.1); yeast HBS1 []; rat statin S1 []; and the prokaryotic selenocysteine-specific elongation factor selB [].; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 3IZW_C 1DG1_G 2BVN_B 3IZV_C 3MMP_C 1OB2_A 1EFU_A 3FIH_Z 3TR5_A 1TUI_C ....
Probab=46.83 E-value=12 Score=24.39 Aligned_cols=18 Identities=33% Similarity=0.501 Sum_probs=14.9
Q ss_pred hhhcCCcceeeeeeeeecccc
Q psy14251 39 FRERRLPVYDIAVAVTKKERS 59 (76)
Q Consensus 39 yRE~RlP~YDiAia~T~lDmc 59 (76)
-++.++| +.|++||.|++
T Consensus 118 ~~~~~~p---~ivvlNK~D~~ 135 (188)
T PF00009_consen 118 LRELGIP---IIVVLNKMDLI 135 (188)
T ss_dssp HHHTT-S---EEEEEETCTSS
T ss_pred ccccccc---eEEeeeeccch
Confidence 4677899 89999999998
No 10
>TIGR01143 murF UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase. This family consists of the strictly bacterial MurF gene of peptidoglycan biosynthesis. This enzyme is almost always UDP-N-acetylmuramoylalanyl-D-glutamyl-2,6-diaminopimelate--D-alanyl-D-alanyl ligase, but in a few species, MurE adds lysine rather than diaminopimelate. This enzyme acts on the product from MurE activity, and so is also subfamily rather than equivalog. Staphylococcus aureus is an example of species in this MurF protein would differ.
Probab=46.31 E-value=20 Score=26.80 Aligned_cols=28 Identities=18% Similarity=0.111 Sum_probs=22.2
Q ss_pred chhHHHHHhhhhhhhhcCCcceeeeeeeee
Q psy14251 26 DSAAALTDMGKYLFRERRLPVYDIAVAVTK 55 (76)
Q Consensus 26 Da~~AL~~Mg~YlyRE~RlP~YDiAia~T~ 55 (76)
|..+||..+++++|++-..|+ |+|+-|+
T Consensus 56 d~~~al~~la~~~~~~~~~~v--I~VTGTn 83 (417)
T TIGR01143 56 DTLEALQALASAKRAKFSGKV--IGITGSS 83 (417)
T ss_pred CHHHHHHHHHHHHHhhCCCCE--EEEcCCC
Confidence 788999999999998766665 6776653
No 11
>cd04269 ZnMc_adamalysin_II_like Zinc-dependent metalloprotease; adamalysin_II_like subfamily. Adamalysin II is a snake venom zinc endopeptidase. This subfamily contains other snake venom metalloproteinases, as well as membrane-anchored metalloproteases belonging to the ADAM family. ADAMs (A Disintegrin And Metalloprotease) are glycoproteins, which play roles in cell signaling, cell fusion, and cell-cell interactions.
Probab=45.38 E-value=26 Score=23.26 Aligned_cols=33 Identities=15% Similarity=0.043 Sum_probs=24.8
Q ss_pred chhHHHHHhhhhhhhhcCC-cceeeeeeeeeccc
Q psy14251 26 DSAAALTDMGKYLFRERRL-PVYDIAVAVTKKER 58 (76)
Q Consensus 26 Da~~AL~~Mg~YlyRE~Rl-P~YDiAia~T~lDm 58 (76)
|+...|....+|--++.-. .-+|+|+.+|+.|+
T Consensus 65 ~~~~~L~~f~~w~~~~~~~~~~~D~a~Llt~~~~ 98 (194)
T cd04269 65 DAGETLNRFLDWKRSNLLPRKPHDNAQLLTGRDF 98 (194)
T ss_pred CHHHHHHHHHHHHHHhhccccCCCceEEEEeeec
Confidence 5667788888875444332 46999999999997
No 12
>PF14698 ASL_C2: Argininosuccinate lyase C-terminal; PDB: 1XWO_A 2E9F_A 1TJW_C 1TJU_A 1DCN_B 1K7W_B 1HY1_C 1TJV_B 1AUW_A 1U15_B ....
Probab=45.34 E-value=12 Score=22.65 Aligned_cols=16 Identities=38% Similarity=0.735 Sum_probs=12.8
Q ss_pred HHHhhhhhhhhcCCcce
Q psy14251 31 LTDMGKYLFRERRLPVY 47 (76)
Q Consensus 31 L~~Mg~YlyRE~RlP~Y 47 (76)
-|++++||-|+ .+||=
T Consensus 4 ATdlAD~LVr~-GipFR 19 (70)
T PF14698_consen 4 ATDLADYLVRK-GIPFR 19 (70)
T ss_dssp HHHHHHHHHHT-TS-HH
T ss_pred HHHHHHHHHHc-CCCHH
Confidence 37899999999 99973
No 13
>PF09439 SRPRB: Signal recognition particle receptor beta subunit; InterPro: IPR019009 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]. SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. The SR receptor is a monomer consisting of the loosely membrane-associated SR-alpha homologue FtsY, while the eukaryotic SR receptor is a heterodimer of SR-alpha (70 kDa) and SR-beta (25 kDa), both of which contain a GTP-binding domain []. SR-alpha regulates the targeting of SRP-ribosome-nascent polypeptide complexes to the translocon []. SR-alpha binds to the SRP54 subunit of the SRP complex. The SR-beta subunit is a transmembrane GTPase that anchors the SR-alpha subunit (a peripheral membrane GTPase) to the ER membrane []. SR-beta interacts with the N-terminal SRX-domain of SR-alpha, which is not present in the bacterial FtsY homologue. SR-beta also functions in recruiting the SRP-nascent polypeptide to the protein-conducting channel. The beta subunit of the signal recognition particle receptor (SRP) is a transmembrane GTPase, which anchors the alpha subunit to the endoplasmic reticulum membrane []. ; PDB: 2GED_B 1NRJ_B 2GO5_2 2FH5_B.
Probab=44.79 E-value=23 Score=25.26 Aligned_cols=38 Identities=24% Similarity=0.312 Sum_probs=25.5
Q ss_pred chhchh---HHHHHhhhhhhh----hcCCc-ceeeeeeeeeccccc
Q psy14251 23 DAIDSA---AALTDMGKYLFR----ERRLP-VYDIAVAVTKKERSG 60 (76)
Q Consensus 23 ~~iDa~---~AL~~Mg~YlyR----E~RlP-~YDiAia~T~lDmc~ 60 (76)
=.|||. +.+++.|.|||. ....+ -.+|.||..|-|+..
T Consensus 81 fvvDSs~~~~~~~~~Ae~Ly~iL~~~~~~~~~~piLIacNK~Dl~~ 126 (181)
T PF09439_consen 81 FVVDSSTDQKELRDVAEYLYDILSDTEVQKNKPPILIACNKQDLFT 126 (181)
T ss_dssp EEEETTTHHHHHHHHHHHHHHHHHHHHCCTT--EEEEEEE-TTSTT
T ss_pred EEEeCccchhhHHHHHHHHHHHHHhhhhccCCCCEEEEEeCccccc
Confidence 346663 679999999995 22223 678999999999854
No 14
>PRK11235 bifunctional antitoxin/transcriptional repressor RelB; Provisional
Probab=44.60 E-value=21 Score=23.00 Aligned_cols=24 Identities=25% Similarity=0.405 Sum_probs=20.6
Q ss_pred hhchhHHHHHhhhhhhhhcCCcce
Q psy14251 24 AIDSAAALTDMGKYLFRERRLPVY 47 (76)
Q Consensus 24 ~iDa~~AL~~Mg~YlyRE~RlP~Y 47 (76)
-++...|++-.-+|+=+|.++||-
T Consensus 24 Gls~S~Ai~~fl~qi~~~~~iPF~ 47 (80)
T PRK11235 24 GVTPSEALRLLLQYVAENGRLPFK 47 (80)
T ss_pred CCCHHHHHHHHHHHHHHhCCCCCC
Confidence 356678899999999999999985
No 15
>cd04105 SR_beta Signal recognition particle receptor, beta subunit (SR-beta). SR-beta and SR-alpha form the heterodimeric signal recognition particle (SRP or SR) receptor that binds SRP to regulate protein translocation across the ER membrane. Nascent polypeptide chains are synthesized with an N-terminal hydrophobic signal sequence that binds SRP54, a component of the SRP. SRP directs targeting of the ribosome-nascent chain complex (RNC) to the ER membrane via interaction with the SR, which is localized to the ER membrane. The RNC is then transferred to the protein-conducting channel, or translocon, which facilitates polypeptide translation across the ER membrane or integration into the ER membrane. SR-beta is found only in eukaryotes; it is believed to control the release of the signal sequence from SRP54 upon binding of the ribosome to the translocon. High expression of SR-beta has been observed in human colon cancer, suggesting it may play a role in the development of this typ
Probab=44.26 E-value=23 Score=23.97 Aligned_cols=32 Identities=19% Similarity=0.342 Sum_probs=23.0
Q ss_pred HHHHHhhhhhhh-----hcCCcceeeeeeeeeccccc
Q psy14251 29 AALTDMGKYLFR-----ERRLPVYDIAVAVTKKERSG 60 (76)
Q Consensus 29 ~AL~~Mg~YlyR-----E~RlP~YDiAia~T~lDmc~ 60 (76)
..++....|||. +.+-|--.+.|+.+|.|+++
T Consensus 87 ~~~~~~~~~l~~il~~~~~~~~~~pvliv~NK~Dl~~ 123 (203)
T cd04105 87 KNLKDVAEFLYDILTDLEKVKNKIPVLIACNKQDLFT 123 (203)
T ss_pred hHHHHHHHHHHHHHHHHhhccCCCCEEEEecchhhcc
Confidence 467888888875 22224456789999999986
No 16
>TIGR02384 RelB_DinJ addiction module antitoxin, RelB/DinJ family. Plasmids may be maintained stably in bacterial populations through the action of addiction modules, in which a toxin and antidote are encoded in a cassette on the plasmid. In any daughter cell that lacks the plasmid, the toxin persists and is lethal after the antidote protein is depleted. Toxin/antitoxin pairs are also found on main chromosomes, and likely represent selfish DNA. Sequences in the seed for this alignment all were found adjacent to toxin genes. The resulting model appears to describe a narrower set of proteins than Pfam model pfam04221, although many in the scope of this model are not obviously paired with toxin proteins. Several toxin/antitoxin pairs may occur in a single species.
Probab=39.34 E-value=28 Score=21.83 Aligned_cols=23 Identities=26% Similarity=0.379 Sum_probs=19.7
Q ss_pred hchhHHHHHhhhhhhhhcCCcce
Q psy14251 25 IDSAAALTDMGKYLFRERRLPVY 47 (76)
Q Consensus 25 iDa~~AL~~Mg~YlyRE~RlP~Y 47 (76)
++-..|++..-+++=+|++|||.
T Consensus 26 l~~s~ai~~fl~qvv~~~~lPF~ 48 (83)
T TIGR02384 26 LTPSTAIRMFLKQVIREQGLPFD 48 (83)
T ss_pred CCHHHHHHHHHHHHHHhCCCCCC
Confidence 56677889999999999999973
No 17
>cd01828 sialate_O-acetylesterase_like2 sialate_O-acetylesterase_like subfamily of the SGNH-hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad found in other serine hydrolases.
Probab=38.42 E-value=19 Score=22.55 Aligned_cols=41 Identities=12% Similarity=0.259 Sum_probs=26.5
Q ss_pred hHHHHHhhhhhhhhcCCcceeeeeeeeeccc-ccceEeccceeecc
Q psy14251 28 AAALTDMGKYLFRERRLPVYDIAVAVTKKER-SGMIWLSNQFHLTS 72 (76)
Q Consensus 28 ~~AL~~Mg~YlyRE~RlP~YDiAia~T~lDm-c~m~~~s~~~~~~~ 72 (76)
..+++.+++ |...+|.|+.-.+.+-+- +...+..|.+|++.
T Consensus 113 n~~l~~~a~----~~~~~~id~~~~~~~~~~~~~~~~~~DgiHpn~ 154 (169)
T cd01828 113 NRQLAQLAQ----QEGVTFLDLWAVFTNADGDLKNEFTTDGLHLNA 154 (169)
T ss_pred HHHHHHHHH----HCCCEEEechhhhcCCCCCcchhhccCccccCH
Confidence 344555555 789999998766544432 33456678899874
No 18
>PRK14093 UDP-N-acetylmuramoylalanyl-D-glutamyl-2,6-diaminopimelate--D-alanyl-D-alanine ligase; Provisional
Probab=38.13 E-value=30 Score=26.62 Aligned_cols=27 Identities=37% Similarity=0.365 Sum_probs=21.7
Q ss_pred chhHHHHHhhhhhhhhcCCcceeeeeeee
Q psy14251 26 DSAAALTDMGKYLFRERRLPVYDIAVAVT 54 (76)
Q Consensus 26 Da~~AL~~Mg~YlyRE~RlP~YDiAia~T 54 (76)
|.-+||..++.++|+...+|+ |+|+-|
T Consensus 90 d~~~al~~la~~~~~~~~~~v--IgVTGS 116 (479)
T PRK14093 90 DVLAALRDLGRAARARLEAKV--IAVTGS 116 (479)
T ss_pred CHHHHHHHHHHHHHHhcCCCE--EEEcCC
Confidence 678999999999998766665 677765
No 19
>TIGR00231 small_GTP small GTP-binding protein domain. This model recognizes a large number of small GTP-binding proteins and related domains in larger proteins. Note that the alpha chains of heterotrimeric G proteins are larger proteins in which the NKXD motif is separated from the GxxxxGK[ST] motif (P-loop) by a long insert and are not easily detected by this model.
Probab=37.74 E-value=19 Score=20.44 Aligned_cols=15 Identities=20% Similarity=0.302 Sum_probs=12.3
Q ss_pred CCcceeeeeeeeeccccc
Q psy14251 43 RLPVYDIAVAVTKKERSG 60 (76)
Q Consensus 43 RlP~YDiAia~T~lDmc~ 60 (76)
..| +.|+++|.|++.
T Consensus 108 ~~p---~ivv~nK~D~~~ 122 (161)
T TIGR00231 108 NVP---IILVGNKIDLRD 122 (161)
T ss_pred CCc---EEEEEEcccCCc
Confidence 456 579999999987
No 20
>PRK11930 putative bifunctional UDP-N-acetylmuramoyl-tripeptide:D-alanyl-D-alanine ligase/alanine racemase; Provisional
Probab=35.73 E-value=35 Score=28.20 Aligned_cols=28 Identities=25% Similarity=0.444 Sum_probs=22.3
Q ss_pred chhHHHHHhhhhhhhhcCCcceeeeeeeee
Q psy14251 26 DSAAALTDMGKYLFRERRLPVYDIAVAVTK 55 (76)
Q Consensus 26 Da~~AL~~Mg~YlyRE~RlP~YDiAia~T~ 55 (76)
|..+||..+++++|.+...|+ |||+-|+
T Consensus 89 d~~~al~~la~~~~~~~~~~v--IgVTGT~ 116 (822)
T PRK11930 89 DPLKALQELAAYHRSQFDIPV--IGITGSN 116 (822)
T ss_pred CHHHHHHHHHHHHHHhCCCCE--EEEeCCC
Confidence 778999999999998766665 7777653
No 21
>cd00882 Ras_like_GTPase Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras, Rho, Rab, and Sar1/Arf families. This superfamily also includes proteins like the GTP translation factors, Era-like GTPases, and G-alpha chain of the heterotrimeric G proteins. Members of the Ras superfamily regulate a wide variety of cellular functions: the Ras family regulates gene expression, the Rho family regulates cytoskeletal reorganization and gene expression, the Rab and Sar1/Arf families regulate vesicle trafficking, and the Ran family regulates nucleocytoplasmic transport and microtubule organization. The GTP translation factor family regulate initiation, elongation, termination, and release in translation, and the Era-like GTPase family regulates cell division, sporulation, and DNA replication. Memb
Probab=35.42 E-value=59 Score=17.83 Aligned_cols=22 Identities=9% Similarity=-0.132 Sum_probs=15.7
Q ss_pred cCCcceeeeeeeeecccccceE
Q psy14251 42 RRLPVYDIAVAVTKKERSGMIW 63 (76)
Q Consensus 42 ~RlP~YDiAia~T~lDmc~m~~ 63 (76)
...+-.-+.|++||.|+++...
T Consensus 98 ~~~~~~~~ivv~nk~D~~~~~~ 119 (157)
T cd00882 98 KEGENIPIILVGNKIDLPEERV 119 (157)
T ss_pred hccCCCcEEEEEeccccccccc
Confidence 3344555689999999987654
No 22
>PF04221 RelB: RelB antitoxin; InterPro: IPR007337 Plasmids may be maintained stably in bacterial populations through the action of addiction modules, in which a toxin and antidote are encoded in a cassette on the plasmid. In any daughter cell that lacks the plasmid, the toxin persists and is lethal after the antidote protein is depleted. Toxin/antitoxin pairs are also found on main chromosomes, and likely represent selfish DNA. Sequences in the seed for this alignment all were found adjacent to toxin genes. Several toxin/antitoxin pairs may occur in a single species. RelE and RelB form a toxin-antitoxin system; RelE represses translation, probably through binding ribosomes [, ]. RelB stably binds RelE, presumably deactivating it.; PDB: 2KC8_B 2K29_A.
Probab=35.32 E-value=35 Score=20.90 Aligned_cols=23 Identities=22% Similarity=0.290 Sum_probs=16.2
Q ss_pred hchhHHHHHhhhhhhhhcCCcce
Q psy14251 25 IDSAAALTDMGKYLFRERRLPVY 47 (76)
Q Consensus 25 iDa~~AL~~Mg~YlyRE~RlP~Y 47 (76)
++-..|++-+-+++=+|.++||.
T Consensus 25 lt~s~ai~~fl~qiv~~~~iPF~ 47 (83)
T PF04221_consen 25 LTLSDAINMFLKQIVREGGIPFE 47 (83)
T ss_dssp --HHHHHHHHHHHHHHHSS-S--
T ss_pred CCHHHHHHHHHHHHHHhCCCCcc
Confidence 55667888889999999999973
No 23
>cd04127 Rab27A Rab27a subfamily. The Rab27a subfamily consists of Rab27a and its highly homologous isoform, Rab27b. Unlike most Rab proteins whose functions remain poorly defined, Rab27a has many known functions. Rab27a has multiple effector proteins, and depending on which effector it binds, Rab27a has different functions as well as tissue distribution and/or cellular localization. Putative functions have been assigned to Rab27a when associated with the effector proteins Slp1, Slp2, Slp3, Slp4, Slp5, DmSlp, rabphilin, Dm/Ce-rabphilin, Slac2-a, Slac2-b, Slac2-c, Noc2, JFC1, and Munc13-4. Rab27a has been associated with several human diseases, including hemophagocytic syndrome (Griscelli syndrome or GS), Hermansky-Pudlak syndrome, and choroidermia. In the case of GS, a rare, autosomal recessive disease, a Rab27a mutation is directly responsible for the disorder. When Rab27a is localized to the secretory granules of pancreatic beta cells, it is believed to mediate glucose-stimulated
Probab=35.23 E-value=51 Score=20.50 Aligned_cols=17 Identities=18% Similarity=0.102 Sum_probs=12.8
Q ss_pred cceeeeeeeeecccccc
Q psy14251 45 PVYDIAVAVTKKERSGM 61 (76)
Q Consensus 45 P~YDiAia~T~lDmc~m 61 (76)
|-.-|+|+.+|.|+++.
T Consensus 119 ~~~piiiv~nK~Dl~~~ 135 (180)
T cd04127 119 ENPDIVLCGNKADLEDQ 135 (180)
T ss_pred CCCcEEEEEeCccchhc
Confidence 33457899999999864
No 24
>cd00880 Era_like Era (E. coli Ras-like protein)-like. This family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngG), Era, and EngA/YfgK) that generally show sequence conservation in the region between the Walker A and B motifs (G1 and G3 box motifs), to the exclusion of other GTPases. TrmE is ubiquitous in bacteria and is a widespread mitochondrial protein in eukaryotes, but is absent from archaea. The yeast member of TrmE family, MSS1, is involved in mitochondrial translation; bacterial members are often present in translation-related operons. FeoB represents an unusual adaptation of GTPases for high-affinity iron (II) transport. YihA (EngB) family of GTPases is typified by the E. coli YihA, which is an essential protein involved in cell division control. Era is characterized by a distinct derivative of the KH domain (the pseudo-KH domain) which is located C-terminal to the GTPase domain. EngA and its orthologs are composed of two GTPase domains and, since the se
Probab=35.04 E-value=22 Score=20.10 Aligned_cols=13 Identities=8% Similarity=0.054 Sum_probs=11.1
Q ss_pred eeeeeeecccccc
Q psy14251 49 IAVAVTKKERSGM 61 (76)
Q Consensus 49 iAia~T~lDmc~m 61 (76)
+.|++||.|++..
T Consensus 107 ~ivv~nK~D~~~~ 119 (163)
T cd00880 107 VLLVLNKIDLLPE 119 (163)
T ss_pred EEEEEEccccCCh
Confidence 6899999999864
No 25
>PF09865 DUF2092: Predicted periplasmic protein (DUF2092); InterPro: IPR019207 This entry represents various hypothetical prokaryotic proteins of unknown function.
Probab=33.46 E-value=26 Score=25.59 Aligned_cols=20 Identities=20% Similarity=0.340 Sum_probs=17.0
Q ss_pred chhHHHHHhhhhhhhhcCCc
Q psy14251 26 DSAAALTDMGKYLFRERRLP 45 (76)
Q Consensus 26 Da~~AL~~Mg~YlyRE~RlP 45 (76)
||.+.|+.|++||=--.+|-
T Consensus 1 ~A~~iL~~m~~~L~~~k~fs 20 (214)
T PF09865_consen 1 KADQILKAMSDYLAALKSFS 20 (214)
T ss_pred CHHHHHHHHHHHHhhCcEEE
Confidence 68899999999997777766
No 26
>KOG0463|consensus
Probab=31.85 E-value=23 Score=30.66 Aligned_cols=15 Identities=40% Similarity=0.605 Sum_probs=11.8
Q ss_pred Ccceeeeeeeeecccccc
Q psy14251 44 LPVYDIAVAVTKKERSGM 61 (76)
Q Consensus 44 lP~YDiAia~T~lDmc~m 61 (76)
.||| |++||.|||--
T Consensus 274 VPVf---vVVTKIDMCPA 288 (641)
T KOG0463|consen 274 VPVF---VVVTKIDMCPA 288 (641)
T ss_pred CcEE---EEEEeeccCcH
Confidence 5654 88999999964
No 27
>PF11502 BCL9: B-cell lymphoma 9 protein; InterPro: IPR024670 The Wnt pathway plays a role in embryonic development, stem cell growth and tumorigenesis. B-cell lymphoma 9 (BCL9) associates with beta-catenin and Tcf in the nucleus when the Wnt pathway is stimulated leading to the transactivation of Wnt target genes []. This entry represents a beta-catenin binding domain found in BCL9 and BCL9 homologues.; PDB: 3SL9_F 2GL7_C.
Probab=30.89 E-value=32 Score=20.42 Aligned_cols=16 Identities=44% Similarity=0.625 Sum_probs=9.6
Q ss_pred hHHHHHhhhhhhhhcC
Q psy14251 28 AAALTDMGKYLFRERR 43 (76)
Q Consensus 28 ~~AL~~Mg~YlyRE~R 43 (76)
=+-||+|-+.||+|.+
T Consensus 14 L~tlr~mq~~lfpe~~ 29 (40)
T PF11502_consen 14 LATLRDMQRMLFPEES 29 (40)
T ss_dssp HHHHHHHHHHH-----
T ss_pred HHHHHHHHHHhCcccc
Confidence 3679999999999975
No 28
>cd01834 SGNH_hydrolase_like_2 SGNH_hydrolase subfamily. SGNH hydrolases are a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad found in other serine hydrolases.
Probab=30.46 E-value=23 Score=21.87 Aligned_cols=35 Identities=11% Similarity=0.146 Sum_probs=27.1
Q ss_pred hhhhcCCcceeeeeeeeecccc--cceEeccceeecc
Q psy14251 38 LFRERRLPVYDIAVAVTKKERS--GMIWLSNQFHLTS 72 (76)
Q Consensus 38 lyRE~RlP~YDiAia~T~lDmc--~m~~~s~~~~~~~ 72 (76)
+-+|...+|.|+.-++.+.+.| .....+|.+|++.
T Consensus 142 ~a~~~~~~~iD~~~~~~~~~~~~~~~~~~~D~~Hpn~ 178 (191)
T cd01834 142 LAAENGVAFVDLFTPMKEAFQKAGEAVLTVDGVHPNE 178 (191)
T ss_pred HHHHcCCeEEecHHHHHHHHHhCCCccccCCCCCCCH
Confidence 3457789999999888877777 4566789999863
No 29
>cd01879 FeoB Ferrous iron transport protein B (FeoB) subfamily. E. coli has an iron(II) transport system, known as 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 contains a P-loop motif suggesting that iron transport may be ATP dependent.
Probab=30.00 E-value=26 Score=20.92 Aligned_cols=13 Identities=15% Similarity=0.253 Sum_probs=11.0
Q ss_pred eeeeeeecccccc
Q psy14251 49 IAVAVTKKERSGM 61 (76)
Q Consensus 49 iAia~T~lDmc~m 61 (76)
+.|++||.|+++.
T Consensus 104 ~iiv~NK~Dl~~~ 116 (158)
T cd01879 104 VVVALNMIDEAEK 116 (158)
T ss_pred EEEEEehhhhccc
Confidence 5799999999864
No 30
>PF00674 DUP: DUP family; InterPro: IPR001142 A number of uncharacterised integral membrane proteins from yeast contain an internal duplication due to duplicated genes. Duplicated copies of genes may be classified in two types of cluster organisation. The first type includes genes sharing a significant level of identity in the amino acid sequences of their predicted protein product. They are recovered on two different chromosomes, transcribed in the same orientation and the distance between them is conserved. The second type of cluster is based on one gene unit tandemly repeated. This duplication is itself repeated elsewhere in the genome. The basic gene unit is recovered many times in the genome and is a component of a multigene family of unknown function. These organisations in clusters of genes suggest a 'Lego organisation' of the yeast chromosomes []. The proteins belonging to this family are of unknown function.
Probab=28.82 E-value=62 Score=20.63 Aligned_cols=29 Identities=28% Similarity=0.402 Sum_probs=22.1
Q ss_pred cccchhchhHHHHHhhhhhhhhcCCc----cee
Q psy14251 20 VGRDAIDSAAALTDMGKYLFRERRLP----VYD 48 (76)
Q Consensus 20 v~~~~iDa~~AL~~Mg~YlyRE~RlP----~YD 48 (76)
-+.++-.=|.--+.|-.|||.|.--+ |||
T Consensus 55 P~~d~~~Wd~IA~~mN~yly~~~~w~t~~~FyD 87 (108)
T PF00674_consen 55 PGVDMKKWDIIASRMNQYLYEEGLWNTPYFFYD 87 (108)
T ss_pred CCCCcccHHHHHHHHHHHHHhCCCCCCcCcccC
Confidence 34555666778889999999987655 887
No 31
>smart00177 ARF ARF-like small GTPases; ARF, ADP-ribosylation factor. Ras homologues involved in vesicular transport. Activator of phospholipase D isoforms. Unlike Ras proteins they lack cysteine residues at their C-termini and therefore are unlikely to be prenylated. ARFs are N-terminally myristoylated. Contains ATP/GTP-binding motif (P-loop).
Probab=28.23 E-value=56 Score=20.93 Aligned_cols=14 Identities=21% Similarity=0.159 Sum_probs=11.6
Q ss_pred eeeeeeeecccccc
Q psy14251 48 DIAVAVTKKERSGM 61 (76)
Q Consensus 48 DiAia~T~lDmc~m 61 (76)
-|+|+.+|.|+++.
T Consensus 116 piilv~NK~Dl~~~ 129 (175)
T smart00177 116 VILVFANKQDLPDA 129 (175)
T ss_pred cEEEEEeCcCcccC
Confidence 47899999999753
No 32
>COG3077 RelB DNA-damage-inducible protein J [DNA replication, recombination, and repair]
Probab=26.77 E-value=57 Score=21.69 Aligned_cols=22 Identities=23% Similarity=0.258 Sum_probs=17.9
Q ss_pred hchhHHHHHhhhhhhhhcCCcc
Q psy14251 25 IDSAAALTDMGKYLFRERRLPV 46 (76)
Q Consensus 25 iDa~~AL~~Mg~YlyRE~RlP~ 46 (76)
++-..|.|-|-+|.=+|.++||
T Consensus 28 lt~S~airm~L~~va~~~~lPf 49 (88)
T COG3077 28 LTISDAIRMFLTKVAREGALPF 49 (88)
T ss_pred CCHHHHHHHHHHHHHHcCCCCc
Confidence 4556677788899999999996
No 33
>TIGR03348 VI_IcmF type VI secretion protein IcmF. Members of this protein family are IcmF homologs and tend to be associated with type VI secretion systems.
Probab=26.74 E-value=31 Score=30.28 Aligned_cols=16 Identities=38% Similarity=0.656 Sum_probs=13.2
Q ss_pred hcCCcceeeeeeeeecccc
Q psy14251 41 ERRLPVYDIAVAVTKKERS 59 (76)
Q Consensus 41 E~RlP~YDiAia~T~lDmc 59 (76)
.-|+||| |++||+|+=
T Consensus 241 g~~~PVY---vv~Tk~Dll 256 (1169)
T TIGR03348 241 GARFPVY---LVLTKADLL 256 (1169)
T ss_pred CCCCCEE---EEEecchhh
Confidence 4599999 889999963
No 34
>PF08477 Miro: Miro-like protein; InterPro: IPR013684 Mitochondrial Rho proteins (Miro-1, Q8IXI2 from SWISSPROT and Miro-2, Q8IXI1 from SWISSPROT) are atypical Rho GTPases. They have a unique domain organisation, with tandem GTP-binding domains and two EF hand domains (IPR002048 from INTERPRO), that may bind calcium. They are also larger than classical small GTPases. It has been proposed that they are involved in mitochondrial homeostasis and apoptosis []. ; GO: 0005525 GTP binding, 0007264 small GTPase mediated signal transduction, 0005622 intracellular; PDB: 2IWR_A 2BMJ_A 3IHW_A 2ZEJ_A 3D6T_B 3DPU_A.
Probab=25.99 E-value=61 Score=18.81 Aligned_cols=12 Identities=25% Similarity=0.529 Sum_probs=8.4
Q ss_pred CCcceeeeeeeeecc
Q psy14251 43 RLPVYDIAVAVTKKE 57 (76)
Q Consensus 43 RlP~YDiAia~T~lD 57 (76)
..| |.++.||.|
T Consensus 108 ~~p---iilv~nK~D 119 (119)
T PF08477_consen 108 NIP---IILVGNKSD 119 (119)
T ss_dssp CSE---EEEEEE-TC
T ss_pred CCC---EEEEEeccC
Confidence 377 678889987
No 35
>COG4917 EutP Ethanolamine utilization protein [Amino acid transport and metabolism]
Probab=25.36 E-value=34 Score=25.12 Aligned_cols=21 Identities=43% Similarity=0.621 Sum_probs=16.7
Q ss_pred hhcCCc--ceeeee-----eeeeccccc
Q psy14251 40 RERRLP--VYDIAV-----AVTKKERSG 60 (76)
Q Consensus 40 RE~RlP--~YDiAi-----a~T~lDmc~ 60 (76)
.|.||| |-||.. .+||.||-.
T Consensus 77 ~~s~f~p~f~~~~~k~vIgvVTK~DLae 104 (148)
T COG4917 77 PESRFPPGFLDIGVKKVIGVVTKADLAE 104 (148)
T ss_pred ccccCCcccccccccceEEEEecccccc
Confidence 589999 888743 589999974
No 36
>cd04175 Rap1 Rap1 subgroup. The Rap1 subgroup is part of the Rap subfamily of the Ras family. It can be further divided into the Rap1a and Rap1b isoforms. In humans, Rap1a and Rap1b share 95% sequence homology, but are products of two different genes located on chromosomes 1 and 12, respectively. Rap1a is sometimes called smg p21 or Krev1 in the older literature. Rap1 proteins are believed to perform different cellular functions, depending on the isoform, its subcellular localization, and the effector proteins it binds. For example, in rat salivary gland, neutrophils, and platelets, Rap1 localizes to secretory granules and is believed to regulate exocytosis or the formation of secretory granules. Rap1 has also been shown to localize in the Golgi of rat fibroblasts, zymogen granules, plasma membrane, and the microsomal membrane of pancreatic acini, as well as in the endocytic compartment of skeletal muscle cells and fibroblasts. High expression of Rap1 has been observed in the n
Probab=24.32 E-value=1.1e+02 Score=18.67 Aligned_cols=13 Identities=8% Similarity=0.003 Sum_probs=11.2
Q ss_pred eeeeeeecccccc
Q psy14251 49 IAVAVTKKERSGM 61 (76)
Q Consensus 49 iAia~T~lDmc~m 61 (76)
|.|+.+|.|+++.
T Consensus 109 iilv~nK~Dl~~~ 121 (164)
T cd04175 109 MILVGNKCDLEDE 121 (164)
T ss_pred EEEEEECCcchhc
Confidence 6799999999864
No 37
>smart00174 RHO Rho (Ras homology) subfamily of Ras-like small GTPases. Members of this subfamily of Ras-like small GTPases include Cdc42 and Rac, as well as Rho isoforms.
Probab=23.97 E-value=78 Score=19.45 Aligned_cols=33 Identities=18% Similarity=0.186 Sum_probs=19.7
Q ss_pred hHHHHHhhhhhhhh--cCCcceeeeeeeeeccccc
Q psy14251 28 AAALTDMGKYLFRE--RRLPVYDIAVAVTKKERSG 60 (76)
Q Consensus 28 ~~AL~~Mg~YlyRE--~RlP~YDiAia~T~lDmc~ 60 (76)
..++..+-..++++ .+.|---|.|+.||.|+..
T Consensus 82 ~~s~~~~~~~~~~~i~~~~~~~piilv~nK~Dl~~ 116 (174)
T smart00174 82 PASFENVKEKWYPEVKHFCPNTPIILVGTKLDLRE 116 (174)
T ss_pred HHHHHHHHHHHHHHHHhhCCCCCEEEEecChhhhh
Confidence 34455554322222 2345556899999999975
No 38
>cd01829 SGNH_hydrolase_peri2 SGNH_peri2; putative periplasmic member of the SGNH-family of hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad found in other serine hydrolases.
Probab=23.86 E-value=79 Score=20.13 Aligned_cols=35 Identities=9% Similarity=0.016 Sum_probs=24.5
Q ss_pred hhhhcCCcceeeeeeeeeccccc------------ceEeccceeecc
Q psy14251 38 LFRERRLPVYDIAVAVTKKERSG------------MIWLSNQFHLTS 72 (76)
Q Consensus 38 lyRE~RlP~YDiAia~T~lDmc~------------m~~~s~~~~~~~ 72 (76)
+-++.-.+|.|+.-.+.+.+-|- ..+..|.+|+|.
T Consensus 138 ~a~~~~~~~id~~~~~~~~~~~~~~~~~~~~~~~~~~~~~DgvH~~~ 184 (200)
T cd01829 138 EVAKAGGEFVDVWDGFVDENGRFTYSGTDVNGKKVRLRTNDGIHFTA 184 (200)
T ss_pred HHHHcCCEEEEhhHhhcCCCCCeeeeccCCCCcEEEeecCCCceECH
Confidence 33456688999988887766662 123569999985
No 39
>PF13472 Lipase_GDSL_2: GDSL-like Lipase/Acylhydrolase family; PDB: 1ES9_A 1WAB_A 3DT9_A 1BWQ_A 1FXW_A 3DT6_A 1BWR_A 3DT8_A 1BWP_A 2WAA_A ....
Probab=23.43 E-value=30 Score=20.32 Aligned_cols=37 Identities=16% Similarity=0.239 Sum_probs=26.2
Q ss_pred hhhhhhcCCcceeeeeeeeecccc-cceEeccceeecc
Q psy14251 36 KYLFRERRLPVYDIAVAVTKKERS-GMIWLSNQFHLTS 72 (76)
Q Consensus 36 ~YlyRE~RlP~YDiAia~T~lDmc-~m~~~s~~~~~~~ 72 (76)
+-+.++..+||+|+.-++.+-+.+ ...+.+|.+|++.
T Consensus 136 ~~~a~~~~~~~id~~~~~~~~~~~~~~~~~~D~~Hp~~ 173 (179)
T PF13472_consen 136 RELAKKYGVPFIDLFDAFDDHDGWFPKYYFSDGVHPNP 173 (179)
T ss_dssp HHHHHHCTEEEEEHHHHHBTTTSCBHTCTBTTSSSBBH
T ss_pred HHHHHHcCCEEEECHHHHccccccchhhcCCCCCCcCH
Confidence 335577799999999887754322 2445689999874
No 40
>cd04154 Arl2 Arl2 subfamily. Arl2 (Arf-like 2) GTPases are members of the Arf family that bind GDP and GTP with very low affinity. Unlike most Arf family proteins, Arl2 is not myristoylated at its N-terminal helix. The protein PDE-delta, first identified in photoreceptor rod cells, binds specifically to Arl2 and is structurally very similar to RhoGDI. Despite the high structural similarity between Arl2 and Rho proteins and between PDE-delta and RhoGDI, the interactions between the GTPases and their effectors are very different. In its GTP bound form, Arl2 interacts with the protein Binder of Arl2 (BART), and the complex is believed to play a role in mitochondrial adenine nucleotide transport. In its GDP bound form, Arl2 interacts with tubulin- folding Cofactor D; this interaction is believed to play a role in regulation of microtubule dynamics that impact the cytoskeleton, cell division, and cytokinesis.
Probab=23.19 E-value=91 Score=19.52 Aligned_cols=14 Identities=14% Similarity=0.373 Sum_probs=11.3
Q ss_pred eeeeeeeecccccc
Q psy14251 48 DIAVAVTKKERSGM 61 (76)
Q Consensus 48 DiAia~T~lDmc~m 61 (76)
-+.|+++|.|+++-
T Consensus 117 p~iiv~nK~Dl~~~ 130 (173)
T cd04154 117 TLLILANKQDLPGA 130 (173)
T ss_pred CEEEEEECcccccC
Confidence 36799999999763
No 41
>PF01584 CheW: CheW-like domain; InterPro: IPR002545 CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flagellar rotation. This family includes CheW and other related proteins that are involved in chemotaxis. The CheW-like regulatory domain in CheA [] binds to CheW, suggesting that these domains can interact with each other.; GO: 0004871 signal transducer activity, 0006935 chemotaxis, 0007165 signal transduction, 0005622 intracellular; PDB: 2HO9_A 2CH4_A 1B3Q_A 3UR1_A 1K0S_A 2QDL_B.
Probab=22.39 E-value=9.7 Score=22.83 Aligned_cols=20 Identities=30% Similarity=0.544 Sum_probs=15.9
Q ss_pred hhhhhhhhcCCcceeeeeee
Q psy14251 34 MGKYLFRERRLPVYDIAVAV 53 (76)
Q Consensus 34 Mg~YlyRE~RlP~YDiAia~ 53 (76)
.|-+-||++.+|++|++-.+
T Consensus 39 ~G~~~~~g~~ipvidL~~~l 58 (138)
T PF01584_consen 39 LGVINYRGEIIPVIDLARLL 58 (138)
T ss_dssp EEEEEETTEEEEEEEHHHHH
T ss_pred EEEEEECCcEEEhhhHHHhh
Confidence 46788999999999987433
No 42
>PF13688 Reprolysin_5: Metallo-peptidase family M12; PDB: 2FV5_B 3EWJ_A 3KME_A 3L0T_B 1BKC_E 3G42_D 2I47_D 2FV9_B 3LEA_A 1ZXC_B ....
Probab=21.82 E-value=64 Score=21.21 Aligned_cols=40 Identities=28% Similarity=0.360 Sum_probs=24.5
Q ss_pred ccchhchhHHHHHhhhhhhhhcCCcceeeeeeeeeccccc
Q psy14251 21 GRDAIDSAAALTDMGKYLFRERRLPVYDIAVAVTKKERSG 60 (76)
Q Consensus 21 ~~~~iDa~~AL~~Mg~YlyRE~RlP~YDiAia~T~lDmc~ 60 (76)
..+.+|+...|....+..-..+....+||++.+|-.|+.+
T Consensus 67 ~~~~~~~~~~L~~f~~~~~~~~~~~~~dl~~l~t~~d~~~ 106 (196)
T PF13688_consen 67 SNSNIDAEDTLQDFNNDFSSWRDSSYYDLAHLFTGRDFSG 106 (196)
T ss_dssp TSSS--HHHHHHHH--HHHTHHHHTTSSEEEEEE----GG
T ss_pred cccccCHHHHHHHHhhhhhhccCCCCCCEEEEEecccCCC
Confidence 5567888889988876555555556889999999888764
No 43
>cd01865 Rab3 Rab3 subfamily. The Rab3 subfamily contains Rab3A, Rab3B, Rab3C, and Rab3D. All four isoforms were found in mouse brain and endocrine tissues, with varying levels of expression. Rab3A, Rab3B, and Rab3C localized to synaptic and secretory vesicles; Rab3D was expressed at high levels only in adipose tissue, exocrine glands, and the endocrine pituitary, where it is localized to cytoplasmic secretory granules. Rab3 appears to control Ca2+-regulated exocytosis. The appropriate GDP/GTP exchange cycle of Rab3A is required for Ca2+-regulated exocytosis to occur, and interaction of the GTP-bound form of Rab3A with effector molecule(s) is widely believed to be essential for this process. Functionally, most studies point toward a role for Rab3 in the secretion of hormones and neurotransmitters. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promot
Probab=21.77 E-value=1.2e+02 Score=18.82 Aligned_cols=17 Identities=6% Similarity=-0.091 Sum_probs=13.0
Q ss_pred ceeeeeeeeecccccce
Q psy14251 46 VYDIAVAVTKKERSGMI 62 (76)
Q Consensus 46 ~YDiAia~T~lDmc~m~ 62 (76)
---|.|+.+|.|+.+..
T Consensus 106 ~~piivv~nK~Dl~~~~ 122 (165)
T cd01865 106 NAQVILVGNKCDMEDER 122 (165)
T ss_pred CCCEEEEEECcccCccc
Confidence 33489999999997643
No 44
>KOG3944|consensus
Probab=21.22 E-value=41 Score=26.99 Aligned_cols=22 Identities=27% Similarity=0.498 Sum_probs=19.3
Q ss_pred HHHHhhhhhhhhcCCcceeeee
Q psy14251 30 ALTDMGKYLFRERRLPVYDIAV 51 (76)
Q Consensus 30 AL~~Mg~YlyRE~RlP~YDiAi 51 (76)
+|-+.|-|+-|-.-|||+|||-
T Consensus 5 s~~ela~~~srl~mfP~FDiah 26 (291)
T KOG3944|consen 5 SLDELALAFSRLKMFPFFDIAH 26 (291)
T ss_pred hHHHHHHHhhhccccchhhHHH
Confidence 5778899999999999999973
No 45
>cd04161 Arl2l1_Arl13_like Arl2l1/Arl13 subfamily. Arl2l1 (Arl2-like protein 1) and Arl13 form a subfamily of the Arf family of small GTPases. Arl2l1 was identified in human cells during a search for the gene(s) responsible for Bardet-Biedl syndrome (BBS). Like Arl6, the identified BBS gene, Arl2l1 is proposed to have cilia-specific functions. Arl13 is found on the X chromosome, but its expression has not been confirmed; it may be a pseudogene.
Probab=21.13 E-value=1.2e+02 Score=19.19 Aligned_cols=22 Identities=18% Similarity=0.264 Sum_probs=14.6
Q ss_pred hhcCCcceeeeeeeeecccccc
Q psy14251 40 RERRLPVYDIAVAVTKKERSGM 61 (76)
Q Consensus 40 RE~RlP~YDiAia~T~lDmc~m 61 (76)
++.+++-.=|.|+++|.|+.+-
T Consensus 94 ~~~~~~~~piliv~NK~Dl~~~ 115 (167)
T cd04161 94 QHPRVSGKPILVLANKQDKKNA 115 (167)
T ss_pred cCccccCCcEEEEEeCCCCcCC
Confidence 4434333347899999998653
No 46
>PRK11929 putative bifunctional UDP-N-acetylmuramoylalanyl-D-glutamate--2,6-diaminopimelate ligase/UDP-N-acetylmuramoyl-tripeptide:D-alanyl-D-alanine ligase; Provisional
Probab=20.94 E-value=88 Score=26.15 Aligned_cols=28 Identities=29% Similarity=0.357 Sum_probs=22.4
Q ss_pred chhHHHHHhhhhhhhhcCCcceeeeeeeee
Q psy14251 26 DSAAALTDMGKYLFRERRLPVYDIAVAVTK 55 (76)
Q Consensus 26 Da~~AL~~Mg~YlyRE~RlP~YDiAia~T~ 55 (76)
|...||..++.++|+....|+ |+|+-|+
T Consensus 585 d~~~al~~la~~~~~~~~~~v--I~VTGTn 612 (958)
T PRK11929 585 DTRAALGRLATAWRARFSLPV--VAITGSN 612 (958)
T ss_pred CHHHHHHHHHHHHHhcCCCcE--EEEeCCC
Confidence 678999999999998766665 6777664
No 47
>TIGR03598 GTPase_YsxC ribosome biogenesis GTP-binding protein YsxC/EngB. Members of this protein family are a GTPase associated with ribosome biogenesis, typified by YsxC from Bacillus subutilis. The family is widely but not universally distributed among bacteria. Members commonly are called EngB based on homology to EngA, one of several other GTPases of ribosome biogenesis. Cutoffs as set find essentially all bacterial members, but also identify large numbers of eukaryotic (probably organellar) sequences. This protein is found in about 80 percent of bacterial genomes.
Probab=20.79 E-value=72 Score=20.43 Aligned_cols=17 Identities=35% Similarity=0.743 Sum_probs=13.2
Q ss_pred hhcCCcceeeeeeeeecccc
Q psy14251 40 RERRLPVYDIAVAVTKKERS 59 (76)
Q Consensus 40 RE~RlP~YDiAia~T~lDmc 59 (76)
++.+.| +.|++||.|+-
T Consensus 126 ~~~~~p---viiv~nK~D~~ 142 (179)
T TIGR03598 126 RERGIP---VLIVLTKADKL 142 (179)
T ss_pred HHcCCC---EEEEEECcccC
Confidence 556778 46889999985
No 48
>cd01870 RhoA_like RhoA-like subfamily. The RhoA subfamily consists of RhoA, RhoB, and RhoC. RhoA promotes the formation of stress fibers and focal adhesions, regulating cell shape, attachment, and motility. RhoA can bind to multiple effector proteins, thereby triggering different downstream responses. In many cell types, RhoA mediates local assembly of the contractile ring, which is necessary for cytokinesis. RhoA is vital for muscle contraction; in vascular smooth muscle cells, RhoA plays a key role in cell contraction, differentiation, migration, and proliferation. RhoA activities appear to be elaborately regulated in a time- and space-dependent manner to control cytoskeletal changes. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. RhoA and RhoC are observed only in geranyl
Probab=20.30 E-value=81 Score=19.39 Aligned_cols=37 Identities=24% Similarity=0.193 Sum_probs=19.9
Q ss_pred hchhHHHHHhhhhhhhhc--CCcceeeeeeeeecccccc
Q psy14251 25 IDSAAALTDMGKYLFRER--RLPVYDIAVAVTKKERSGM 61 (76)
Q Consensus 25 iDa~~AL~~Mg~YlyRE~--RlP~YDiAia~T~lDmc~m 61 (76)
+|+..++.++..++..+- ..|-.-|.++.+|.|++..
T Consensus 82 ~~~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~ 120 (175)
T cd01870 82 IDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRND 120 (175)
T ss_pred CCCHHHHHHHHHHHHHHHHhhCCCCCEEEEeeChhcccC
Confidence 344445555554433221 1122236799999998753
No 49
>cd04176 Rap2 Rap2 subgroup. The Rap2 subgroup is part of the Rap subfamily of the Ras family. It consists of Rap2a, Rap2b, and Rap2c. Both isoform 3 of the human mitogen-activated protein kinase kinase kinase kinase 4 (MAP4K4) and Traf2- and Nck-interacting kinase (TNIK) are putative effectors of Rap2 in mediating the activation of c-Jun N-terminal kinase (JNK) to regulate the actin cytoskeleton. In human platelets, Rap2 was shown to interact with the cytoskeleton by binding the actin filaments. In embryonic Xenopus development, Rap2 is necessary for the Wnt/beta-catenin signaling pathway. The Rap2 interacting protein 9 (RPIP9) is highly expressed in human breast carcinomas and correlates with a poor prognosis, suggesting a role for Rap2 in breast cancer oncogenesis. Rap2b, but not Rap2a, Rap2c, Rap1a, or Rap1b, is expressed in human red blood cells, where it is believed to be involved in vesiculation. A number of additional effector proteins for Rap2 have been identified, incl
Probab=20.18 E-value=1.4e+02 Score=18.03 Aligned_cols=13 Identities=15% Similarity=0.077 Sum_probs=10.6
Q ss_pred eeeeeeecccccc
Q psy14251 49 IAVAVTKKERSGM 61 (76)
Q Consensus 49 iAia~T~lDmc~m 61 (76)
|+|+.+|.|++..
T Consensus 109 iviv~nK~Dl~~~ 121 (163)
T cd04176 109 IILVGNKVDLESE 121 (163)
T ss_pred EEEEEECccchhc
Confidence 4788999999763
No 50
>cd04129 Rho2 Rho2 subfamily. Rho2 is a fungal GTPase that plays a role in cell morphogenesis, control of cell wall integrity, control of growth polarity, and maintenance of growth direction. Rho2 activates the protein kinase C homolog Pck2, and Pck2 controls Mok1, the major (1-3) alpha-D-glucan synthase. Together with Rho1 (RhoA), Rho2 regulates the construction of the cell wall. Unlike Rho1, Rho2 is not an essential protein, but its overexpression is lethal. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for proper intracellular localization via membrane attachment. As with other Rho family GTPases, the GDP/GTP cycling is regulated by GEFs (guanine nucleotide exchange factors), GAPs (GTPase-activating proteins) and GDIs (guanine nucleotide dissociation inhibitors).
Probab=20.05 E-value=94 Score=20.04 Aligned_cols=36 Identities=19% Similarity=0.277 Sum_probs=21.8
Q ss_pred hchhHHHHHhhhhhhhh--cCCcceeeeeeeeeccccc
Q psy14251 25 IDSAAALTDMGKYLFRE--RRLPVYDIAVAVTKKERSG 60 (76)
Q Consensus 25 iDa~~AL~~Mg~YlyRE--~RlP~YDiAia~T~lDmc~ 60 (76)
+++..++..+...+..+ .+.|=--|.|+.||.|++.
T Consensus 82 i~~~~s~~~~~~~~~~~i~~~~~~~piilvgnK~Dl~~ 119 (187)
T cd04129 82 VDTPDSLENVRTKWIEEVRRYCPNVPVILVGLKKDLRQ 119 (187)
T ss_pred CCCHHHHHHHHHHHHHHHHHhCCCCCEEEEeeChhhhh
Confidence 35556677665432222 1334345788999999975
No 51
>cd04145 M_R_Ras_like M-Ras/R-Ras-like subfamily. This subfamily contains R-Ras2/TC21, M-Ras/R-Ras3, and related members of the Ras family. M-Ras is expressed in lympho-hematopoetic cells. It interacts with some of the known Ras effectors, but appears to also have its own effectors. Expression of mutated M-Ras leads to transformation of several types of cell lines, including hematopoietic cells, mammary epithelial cells, and fibroblasts. Overexpression of M-Ras is observed in carcinomas from breast, uterus, thyroid, stomach, colon, kidney, lung, and rectum. In addition, expression of a constitutively active M-Ras mutant in murine bone marrow induces a malignant mast cell leukemia that is distinct from the monocytic leukemia induced by H-Ras. TC21, along with H-Ras, has been shown to regulate the branching morphogenesis of ureteric bud cell branching in mice. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an ali
Probab=20.01 E-value=65 Score=19.35 Aligned_cols=15 Identities=7% Similarity=-0.024 Sum_probs=11.9
Q ss_pred eeeeeeeecccccce
Q psy14251 48 DIAVAVTKKERSGMI 62 (76)
Q Consensus 48 DiAia~T~lDmc~m~ 62 (76)
-|+|+++|.|+....
T Consensus 109 piiiv~NK~Dl~~~~ 123 (164)
T cd04145 109 PMILVGNKADLEHQR 123 (164)
T ss_pred CEEEEeeCccccccc
Confidence 368899999997654
Done!