Query 001543
Match_columns 1057
No_of_seqs 180 out of 193
Neff 4.2
Searched_HMMs 46136
Date Fri Mar 29 03:28:00 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/001543.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/001543hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0196 Tyrosine kinase, EPH ( 96.6 0.0019 4.2E-08 79.2 4.5 56 795-863 260-319 (996)
2 PF07699 GCC2_GCC3: GCC2 and G 96.4 0.0016 3.4E-08 54.1 1.9 26 805-832 9-34 (48)
3 PF10256 Erf4: Golgin subfamil 95.9 0.018 3.9E-07 55.9 6.6 82 966-1047 21-112 (118)
4 PF07562 NCD3G: Nine Cysteines 92.0 0.041 8.8E-07 47.2 -0.2 36 795-832 6-51 (54)
5 PHA02637 TNF-alpha-receptor-li 91.2 0.24 5.2E-06 49.8 4.1 57 797-858 31-92 (127)
6 cd00185 TNFR Tumor necrosis fa 88.1 0.38 8.2E-06 45.6 2.7 66 793-864 12-87 (98)
7 PHA02637 TNF-alpha-receptor-li 87.6 0.42 9.1E-06 48.1 2.8 41 789-830 38-87 (127)
8 PF07699 GCC2_GCC3: GCC2 and G 80.3 1.4 3E-05 36.8 2.4 32 791-822 7-43 (48)
9 PF15496 DUF4646: Domain of un 74.6 4.1 8.8E-05 40.7 4.3 68 973-1041 45-120 (123)
10 PTZ00382 Variant-specific surf 66.6 3.2 6.9E-05 40.0 1.5 24 805-831 4-27 (96)
11 PF12273 RCR: Chitin synthesis 66.1 5.5 0.00012 39.7 3.1 21 881-901 2-23 (130)
12 cd00185 TNFR Tumor necrosis fa 62.4 9.7 0.00021 36.2 3.9 32 804-835 11-44 (98)
13 smart00180 EGF_Lam Laminin-typ 57.3 6.1 0.00013 32.9 1.4 21 796-816 20-40 (46)
14 cd00055 EGF_Lam Laminin-type e 56.8 6.1 0.00013 33.2 1.4 23 796-818 21-43 (50)
15 KOG4289 Cadherin EGF LAG seven 56.1 9.6 0.00021 50.8 3.4 78 787-873 1734-1846(2531)
16 KOG0921 Dosage compensation co 54.2 32 0.0007 44.6 7.4 11 558-568 1136-1146(1282)
17 KOG4069 Uncharacterized conser 51.2 46 0.00099 34.2 6.6 79 965-1047 45-136 (154)
18 PF14946 DUF4501: Domain of un 49.5 60 0.0013 34.5 7.4 29 876-904 83-112 (180)
19 KOG2675 Adenylate cyclase-asso 45.6 12 0.00027 44.5 2.0 22 342-363 446-467 (480)
20 PF04494 TFIID_90kDa: WD40 ass 44.4 37 0.0008 34.5 5.0 65 971-1041 10-74 (142)
21 PF00053 Laminin_EGF: Laminin 43.4 9.7 0.00021 31.7 0.5 22 797-818 21-42 (49)
22 KOG1836 Extracellular matrix g 42.4 17 0.00038 49.9 2.9 43 790-832 794-838 (1705)
23 PF07354 Sp38: Zona-pellucida- 41.8 17 0.00037 41.1 2.2 35 794-831 218-261 (271)
24 PHA02844 putative transmembran 41.2 26 0.00057 32.7 3.0 15 977-991 17-31 (75)
25 KOG1219 Uncharacterized conser 39.2 38 0.00083 47.8 5.0 14 795-808 3887-3900(4289)
26 KOG4258 Insulin/growth factor 35.1 14 0.0003 47.3 0.3 46 805-873 304-350 (1025)
27 PF02166 Androgen_recep: Andro 34.5 13 0.00028 43.1 0.0 26 21-57 335-360 (423)
28 cd00064 FU Furin-like repeats. 34.1 32 0.00068 28.5 2.2 22 796-817 18-42 (49)
29 PF05268 GP38: Phage tail fibr 33.8 1.4E+02 0.003 33.4 7.4 37 210-247 114-152 (260)
30 PF15195 TMEM210: TMEM210 fami 33.5 26 0.00057 34.2 1.8 13 40-52 100-112 (116)
31 PF05281 Secretogranin_V: Neur 31.5 65 0.0014 35.4 4.5 91 761-867 49-144 (208)
32 PHA02650 hypothetical protein; 31.3 51 0.0011 31.3 3.2 15 977-991 17-31 (81)
33 TIGR01477 RIFIN variant surfac 30.7 40 0.00087 39.6 3.0 37 996-1032 309-349 (353)
34 PTZ00046 rifin; Provisional 30.2 40 0.00088 39.6 3.0 38 995-1032 313-354 (358)
35 PF15203 TMEM95: TMEM95 family 30.0 37 0.0008 34.6 2.2 48 972-1025 37-84 (152)
36 PF12273 RCR: Chitin synthesis 29.9 30 0.00064 34.6 1.6 40 996-1041 2-41 (130)
37 PF04519 Bactofilin: Polymer-f 29.6 1.9E+02 0.0042 27.2 7.0 14 137-150 83-96 (101)
38 COG3290 CitA Signal transducti 29.2 2.3E+02 0.005 35.3 9.0 84 939-1038 283-374 (537)
39 PF02009 Rifin_STEVOR: Rifin/s 28.8 57 0.0012 37.6 3.8 22 1011-1032 274-295 (299)
40 KOG4260 Uncharacterized conser 28.2 64 0.0014 36.9 3.9 24 797-820 131-154 (350)
41 PF14018 DUF4234: Domain of un 27.3 1.1E+02 0.0024 27.6 4.7 45 980-1024 22-68 (75)
42 KOG0921 Dosage compensation co 27.3 1.1E+02 0.0024 40.2 6.1 9 172-180 1190-1198(1282)
43 PF12661 hEGF: Human growth fa 27.0 19 0.00042 23.2 -0.1 11 797-807 3-13 (13)
44 PF00020 TNFR_c6: TNFR/NGFR cy 25.3 32 0.00069 27.5 0.7 19 810-830 1-19 (39)
45 PF14163 SieB: Superinfection 24.4 1.3E+02 0.0027 30.8 5.0 57 967-1032 15-77 (151)
46 PRK09677 putative lipopolysacc 23.9 2E+02 0.0042 30.5 6.5 60 87-149 35-94 (192)
47 PRK10506 hypothetical protein; 23.7 96 0.0021 32.1 4.1 47 1001-1055 23-69 (162)
48 PF05545 FixQ: Cbb3-type cytoc 23.5 94 0.002 26.2 3.2 17 889-905 18-34 (49)
49 KOG4611 Uncharacterized conser 23.4 87 0.0019 36.9 3.9 63 807-873 52-125 (747)
50 KOG4289 Cadherin EGF LAG seven 23.0 83 0.0018 42.9 4.0 30 784-813 1745-1776(2531)
51 PF04519 Bactofilin: Polymer-f 22.4 5E+02 0.011 24.5 8.3 12 118-129 34-45 (101)
52 COG4698 Uncharacterized protei 22.3 64 0.0014 34.9 2.4 15 922-936 52-69 (197)
53 KOG4539 Uncharacterized conser 22.1 88 0.0019 34.9 3.5 37 1004-1040 119-155 (274)
54 COG4457 SrfB Uncharacterized p 20.8 66 0.0014 40.7 2.5 82 941-1037 129-218 (1014)
55 PRK13245 hetR heterocyst diffe 20.7 84 0.0018 35.1 3.0 113 910-1032 139-274 (299)
56 COG4736 CcoQ Cbb3-type cytochr 20.6 1.1E+02 0.0025 27.6 3.3 34 867-907 3-36 (60)
57 PRK05886 yajC preprotein trans 20.5 1.1E+02 0.0024 30.6 3.5 22 1012-1033 17-38 (109)
No 1
>KOG0196 consensus Tyrosine kinase, EPH (ephrin) receptor family [Signal transduction mechanisms]
Probab=96.58 E-value=0.0019 Score=79.23 Aligned_cols=56 Identities=32% Similarity=0.752 Sum_probs=42.7
Q ss_pred ccCCCCCCc----cccceeCCCCceeccCCCCCCCcccCCCCCCCCCceeecccCcccCCCCCccccCCcccC
Q 001543 795 GKACPRGLY----GVFCEECPVGTFKNVSGSDRALCRNCSSNELPHRALYIPIRGGVTECPCPYKCVSERYHM 863 (1057)
Q Consensus 795 g~~CP~G~~----G~fC~eCp~GtYK~~~Gs~~~~C~pC~~~~lp~ra~~iy~~gg~~~~~Cpy~C~~dk~~~ 863 (1057)
...|.+||. +.-|+.||.||||...| ..+|.+||.++..+ ....+.|. |..+.|+.
T Consensus 260 ~C~C~aGye~~~~~~~C~aCp~G~yK~~~~--~~~C~~CP~~S~s~---------~ega~~C~--C~~gyyRA 319 (996)
T KOG0196|consen 260 GCVCKAGYEEAENGKACQACPPGTYKASQG--DSLCLPCPPNSHSS---------SEGATSCT--CENGYYRA 319 (996)
T ss_pred ceeecCCCCcccCCCcceeCCCCcccCCCC--CCCCCCCCCCCCCC---------CCCCCccc--ccCCcccC
Confidence 478999996 66799999999999865 58999999865432 12355675 87777754
No 2
>PF07699 GCC2_GCC3: GCC2 and GCC3; InterPro: IPR011641 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases. Protein kinases catalyse the transfer of the gamma phosphate from nucleotide triphosphates (often ATP) to one or more amino acid residues in a protein substrate side chain, resulting in a conformational change affecting protein function. Phosphoprotein phosphatases catalyse the reverse process. Protein kinases fall into three broad classes, characterised with respect to substrate specificity []: Serine/threonine-protein kinases Tyrosine-protein kinases Dual specific protein kinases (e.g. MEK - phosphorylates both Thr and Tyr on target proteins) Protein kinase function has been evolutionarily conserved from Escherichia coli to human []. Protein kinases play a role in a multitude of cellular processes, including division, proliferation, apoptosis, and differentiation []. Phosphorylation usually results in a functional change of the target protein by changing enzyme activity, cellular location, or association with other proteins. The catalytic subunits of protein kinases are highly conserved, and several structures have been solved [], leading to large screens to develop kinase-specific inhibitors for the treatments of a number of diseases []. Tyrosine-protein kinases can transfer a phosphate group from ATP to a tyrosine residue in a protein. These enzymes can be divided into two main groups []: Receptor tyrosine kinases (RTK), which are transmembrane proteins involved in signal transduction; they play key roles in growth, differentiation, metabolism, adhesion, motility, death and oncogenesis []. RTKs are composed of 3 domains: an extracellular domain (binds ligand), a transmembrane (TM) domain, and an intracellular catalytic domain (phosphorylates substrate). The TM domain plays an important role in the dimerisation process necessary for signal transduction []. Cytoplasmic / non-receptor tyrosine kinases, which act as regulatory proteins, playing key roles in cell differentiation, motility, proliferation, and survival. For example, the Src-family of protein-tyrosine kinases []. This entry represents various ephrin type A and B receptors, which have tyrosine kinase activity.
Probab=96.45 E-value=0.0016 Score=54.13 Aligned_cols=26 Identities=31% Similarity=0.887 Sum_probs=22.8
Q ss_pred ccceeCCCCceeccCCCCCCCcccCCCC
Q 001543 805 VFCEECPVGTFKNVSGSDRALCRNCSSN 832 (1057)
Q Consensus 805 ~fC~eCp~GtYK~~~Gs~~~~C~pC~~~ 832 (1057)
.-|++||+||||+..|+ ..|.+||.+
T Consensus 9 ~~C~~Cp~GtYq~~~g~--~~C~~Cp~g 34 (48)
T PF07699_consen 9 NKCQPCPKGTYQDEEGQ--TSCTPCPPG 34 (48)
T ss_pred CccCCCCCCccCCccCC--ccCccCcCC
Confidence 46999999999999875 589999975
No 3
>PF10256 Erf4: Golgin subfamily A member 7/ERF4 family; InterPro: IPR019383 Proteins in this entry include Golgin subfamily A member 7 and the Ras modification protein ERF4.
Probab=95.93 E-value=0.018 Score=55.92 Aligned_cols=82 Identities=18% Similarity=0.360 Sum_probs=54.7
Q ss_pred CCcchhhhhhcHHHHHHHHHHHhhhhh--hhh--hhhhhhhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHH----hhcCc
Q 001543 966 SPPEQVIEIVYEDAFNRFADEINALAA--YQW--WEGSVYSILSVLAYPLAWSWLQLCRKNKLQQLREFVR----SEYDH 1037 (1057)
Q Consensus 966 spP~~i~~ivye~~fn~Fa~~iN~laa--y~~--we~~i~~iLsvl~YPlaw~~~q~~rr~k~~rL~efv~----seydh 1037 (1057)
.-|.++..++.++||++++++||++.+ |.. |.-++-.+|.++..=+..++.....||++++|.+|+. ..|.+
T Consensus 21 ~~P~~L~~~is~~ef~~iI~~IN~~l~~a~~~~~~~~~~~~~l~~lt~~l~~~~~~~~~~~~~~~le~~l~~~N~~~~~~ 100 (118)
T PF10256_consen 21 EYPGELSGYISPEEFEEIINTINQILKEAFEPISWRNIIENILGCLTLGLSSLCFKTHYKRKLRELEKYLEQLNEELFKP 100 (118)
T ss_pred cCCHhhcCCCCHHHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence 567778999999999999999999873 222 4445555555555333333345556778999999996 24555
Q ss_pred cccc--ccchhh
Q 001543 1038 SCLR--SCRSRA 1047 (1057)
Q Consensus 1038 ~clr--s~rsr~ 1047 (1057)
.-++ ++|.++
T Consensus 101 ~gi~ii~pr~~g 112 (118)
T PF10256_consen 101 RGIKIISPRRSG 112 (118)
T ss_pred CCcEEEchhHce
Confidence 5444 666655
No 4
>PF07562 NCD3G: Nine Cysteines Domain of family 3 GPCR; InterPro: IPR011500 G-protein-coupled receptors, GPCRs, constitute a vast protein family that encompasses a wide range of functions (including various autocrine, paracrine and endocrine processes). They show considerable diversity at the sequence level, on the basis of which they can be separated into distinct groups. We use the term clan to describe the GPCRs, as they embrace a group of families for which there are indications of evolutionary relationship, but between which there is no statistically significant similarity in sequence []. The currently known clan members include the rhodopsin-like GPCRs, the secretin-like GPCRs, the cAMP receptors, the fungal mating pheromone receptors, and the metabotropic glutamate receptor family. There is a specialised database for GPCRs (http://www.gpcr.org/7tm/). GPCR family 3 receptors (also known as family C) are structurally similar to other GPCRs, but do not show any significant sequence similarity and thus represent a distinct group. Structurally they are composed of four elements; an N-terminal signal sequence; a large hydrophilic extracellular agonist-binding region containing several conserved cysteine residues which could be involved in disulphide bonds; a shorter region containing seven transmembrane domains; and a C-terminal cytoplasmic domain of variable length []. Family 3 members include the metabotropic glutamate receptors, the extracellular calcium-sensing receptors, the gamma-amino-butyric acid (GABA) type B receptors, and the vomeronasal type-2 receptors [, , , ]. As these receptors regulate many important physiological processes they are potentially promising targets for drug development. This entry represents a conserved sequence, found in the extracellular region, that contains several highly-conserved Cys residues that are predicted to form disulphide bridges.; GO: 0004930 G-protein coupled receptor activity, 0007186 G-protein coupled receptor protein signaling pathway; PDB: 2E4X_B 2E4Y_A 2E4U_B 2E4V_B 2E4W_A.
Probab=92.05 E-value=0.041 Score=47.23 Aligned_cols=36 Identities=31% Similarity=0.755 Sum_probs=20.8
Q ss_pred ccCCCCCCcc-----c-----cceeCCCCceeccCCCCCCCcccCCCC
Q 001543 795 GKACPRGLYG-----V-----FCEECPVGTFKNVSGSDRALCRNCSSN 832 (1057)
Q Consensus 795 g~~CP~G~~G-----~-----fC~eCp~GtYK~~~Gs~~~~C~pC~~~ 832 (1057)
..+|++|++- . -|++||.|+|.|.+ +...|.+||.+
T Consensus 6 S~~C~pG~~k~~~~~~~~CCw~C~~C~~~~is~~~--~~~~C~~C~~~ 51 (54)
T PF07562_consen 6 SEPCPPGQRKKIQKGQPSCCWDCVPCPEGEISNQT--DSTSCTKCPEG 51 (54)
T ss_dssp S----TTTEEEE--SSS-S--EEEE--TTEEEE----ETTEEEE--TT
T ss_pred CCCCCCCCEECccCCCcceEEEeecCCCCcEECCC--CccccccCCCc
Confidence 4689999872 2 39999999999976 56899999975
No 5
>PHA02637 TNF-alpha-receptor-like protein; Provisional
Probab=91.17 E-value=0.24 Score=49.75 Aligned_cols=57 Identities=23% Similarity=0.571 Sum_probs=37.9
Q ss_pred CCCCCCc---cccceeCCCCceeccCC--CCCCCcccCCCCCCCCCceeecccCcccCCCCCccccC
Q 001543 797 ACPRGLY---GVFCEECPVGTFKNVSG--SDRALCRNCSSNELPHRALYIPIRGGVTECPCPYKCVS 858 (1057)
Q Consensus 797 ~CP~G~~---G~fC~eCp~GtYK~~~G--s~~~~C~pC~~~~lp~ra~~iy~~gg~~~~~Cpy~C~~ 858 (1057)
.|..+-| +.-|.+||.|+|+...= .....|.|||..++-+..++.. ....|.-.|++
T Consensus 31 ~C~e~EY~~~~~CC~kCPPGt~v~~~Ct~~t~T~C~PCp~GTYTe~~N~~~-----~C~~C~~~Cd~ 92 (127)
T PHA02637 31 KCKDNEYKRHNLCCLSCPPGTYASRLCDIKTNTQCTPCGSGTFTSHNNHLP-----ACLSCNGRCDR 92 (127)
T ss_pred CCCCCcCcCCCeEcCCCCCCCEEeCcCCCCCCcccccCCCCCeeccCCCCC-----cccccCCccCc
Confidence 6888866 34589999999987431 1245799999876555444432 35677777765
No 6
>cd00185 TNFR Tumor necrosis factor receptor (TNFR) domain; superfamily of TNF-like receptor domains. When bound to TNF-like cytokines, TNFRs trigger multiple signal transduction pathways, they are involved in inflammation response, apoptosis, autoimmunity and organogenesis. TNFRs domains are elongated with generally three tandem repeats of cysteine-rich domains (CRDs). They fit in the grooves between protomers within the ligand trimer. Some TNFRs, such as NGFR and HveA, bind ligands with no structural similarity to TNF and do not bind ligand trimers.
Probab=88.13 E-value=0.38 Score=45.60 Aligned_cols=66 Identities=24% Similarity=0.564 Sum_probs=40.2
Q ss_pred EEccCCCCCCc---------cccceeCCCCceeccCCCCCCCcccCCCCCCCCCceeecccCc-ccCCCCCccccCCccc
Q 001543 793 VTGKACPRGLY---------GVFCEECPVGTFKNVSGSDRALCRNCSSNELPHRALYIPIRGG-VTECPCPYKCVSERYH 862 (1057)
Q Consensus 793 i~g~~CP~G~~---------G~fC~eCp~GtYK~~~Gs~~~~C~pC~~~~lp~ra~~iy~~gg-~~~~~Cpy~C~~dk~~ 862 (1057)
.-=+.||+|++ ..-|++||.|+|.+... ....|++|..= + ...++....- ...+.|- |.++.|-
T Consensus 12 ~cC~~C~pG~~~~~~C~~~~~t~C~~C~~g~ys~~~~-~~~~C~~c~~C--~-~g~~~~~~ct~t~dt~C~--C~~G~y~ 85 (98)
T cd00185 12 LCCDQCPPGTYLSKDCTPGSDTVCEPCPPGTYTDSWN-HLPKCLSCRTC--D-SGLVEKAPCTATRNTVCG--CKPGFYC 85 (98)
T ss_pred CCCCCCCCCccCCCcCCCCCCCeecCCCCCCcccCCC-CCCcCCcCccC--C-CCCEEEccCCCCCCCeEe--CCCCCEe
Confidence 44578999987 24699999999988653 23578888652 2 2223322222 2334664 7776664
Q ss_pred CC
Q 001543 863 MP 864 (1057)
Q Consensus 863 ~p 864 (1057)
..
T Consensus 86 ~~ 87 (98)
T cd00185 86 LT 87 (98)
T ss_pred cC
Confidence 43
No 7
>PHA02637 TNF-alpha-receptor-like protein; Provisional
Probab=87.63 E-value=0.42 Score=48.10 Aligned_cols=41 Identities=27% Similarity=0.665 Sum_probs=30.9
Q ss_pred CCceEEccCCCCCCc---------cccceeCCCCceeccCCCCCCCcccCC
Q 001543 789 GNGTVTGKACPRGLY---------GVFCEECPVGTFKNVSGSDRALCRNCS 830 (1057)
Q Consensus 789 ~~Gti~g~~CP~G~~---------G~fC~eCp~GtYK~~~Gs~~~~C~pC~ 830 (1057)
..+.+-=+.||||++ ..-|.+||.|||..... ....|.+|.
T Consensus 38 ~~~~~CC~kCPPGt~v~~~Ct~~t~T~C~PCp~GTYTe~~N-~~~~C~~C~ 87 (127)
T PHA02637 38 KRHNLCCLSCPPGTYASRLCDIKTNTQCTPCGSGTFTSHNN-HLPACLSCN 87 (127)
T ss_pred cCCCeEcCCCCCCCEEeCcCCCCCCcccccCCCCCeeccCC-CCCcccccC
Confidence 455667789999987 55799999999977543 245688776
No 8
>PF07699 GCC2_GCC3: GCC2 and GCC3; InterPro: IPR011641 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases. Protein kinases catalyse the transfer of the gamma phosphate from nucleotide triphosphates (often ATP) to one or more amino acid residues in a protein substrate side chain, resulting in a conformational change affecting protein function. Phosphoprotein phosphatases catalyse the reverse process. Protein kinases fall into three broad classes, characterised with respect to substrate specificity []: Serine/threonine-protein kinases Tyrosine-protein kinases Dual specific protein kinases (e.g. MEK - phosphorylates both Thr and Tyr on target proteins) Protein kinase function has been evolutionarily conserved from Escherichia coli to human []. Protein kinases play a role in a multitude of cellular processes, including division, proliferation, apoptosis, and differentiation []. Phosphorylation usually results in a functional change of the target protein by changing enzyme activity, cellular location, or association with other proteins. The catalytic subunits of protein kinases are highly conserved, and several structures have been solved [], leading to large screens to develop kinase-specific inhibitors for the treatments of a number of diseases []. Tyrosine-protein kinases can transfer a phosphate group from ATP to a tyrosine residue in a protein. These enzymes can be divided into two main groups []: Receptor tyrosine kinases (RTK), which are transmembrane proteins involved in signal transduction; they play key roles in growth, differentiation, metabolism, adhesion, motility, death and oncogenesis []. RTKs are composed of 3 domains: an extracellular domain (binds ligand), a transmembrane (TM) domain, and an intracellular catalytic domain (phosphorylates substrate). The TM domain plays an important role in the dimerisation process necessary for signal transduction []. Cytoplasmic / non-receptor tyrosine kinases, which act as regulatory proteins, playing key roles in cell differentiation, motility, proliferation, and survival. For example, the Src-family of protein-tyrosine kinases []. This entry represents various ephrin type A and B receptors, which have tyrosine kinase activity.
Probab=80.29 E-value=1.4 Score=36.76 Aligned_cols=32 Identities=38% Similarity=0.886 Sum_probs=24.6
Q ss_pred ceEEccCCCCCCc----cc-cceeCCCCceeccCCCC
Q 001543 791 GTVTGKACPRGLY----GV-FCEECPVGTFKNVSGSD 822 (1057)
Q Consensus 791 Gti~g~~CP~G~~----G~-fC~eCp~GtYK~~~Gs~ 822 (1057)
+.-.=.+||+|+| |. .|.+||.++|-...|+.
T Consensus 7 ~~~~C~~Cp~GtYq~~~g~~~C~~Cp~g~~T~~~Gs~ 43 (48)
T PF07699_consen 7 GNNKCQPCPKGTYQDEEGQTSCTPCPPGSTTSSEGST 43 (48)
T ss_pred CCCccCCCCCCccCCccCCccCccCcCCCccCCcCCc
Confidence 3344579999998 33 59999999998877763
No 9
>PF15496 DUF4646: Domain of unknown function (DUF4646)
Probab=74.65 E-value=4.1 Score=40.75 Aligned_cols=68 Identities=16% Similarity=0.289 Sum_probs=51.7
Q ss_pred hhhcHHHHHHHHHHHhhhhhhhhhhhhhhhh------hh--hhhhhhHHHHHHHHHHHHHHHHHHHHHhhcCccccc
Q 001543 973 EIVYEDAFNRFADEINALAAYQWWEGSVYSI------LS--VLAYPLAWSWLQLCRKNKLQQLREFVRSEYDHSCLR 1041 (1057)
Q Consensus 973 ~ivye~~fn~Fa~~iN~laay~~we~~i~~i------Ls--vl~YPlaw~~~q~~rr~k~~rL~efv~seydh~clr 1041 (1057)
.=|.++++.+|.++++.-++..-+|.++-.. +. +..|=.++-....+++||-..+.++|+ ..|+.|+|
T Consensus 45 ~DVs~eDW~~F~~dl~~aa~ls~~~~~~~~~~~~~~~v~~Gi~~~~v~~~~~~~~~~~k~~~v~~~i~-~WN~~FF~ 120 (123)
T PF15496_consen 45 HDVSEEDWTRFLNDLSEAASLSPSQSIVAGVGPIVMGVGFGIPAYLVAKAIRKAMKEKKRGEVESTID-QWNEGFFR 120 (123)
T ss_pred cCCCHHHHHHHHHHHHHHHhcCcccceeeeeccccccccccchhhhhhHhhhhcccccchHHHHHHHH-HHHHHhcc
Confidence 3478899999999999988777666433222 22 445556777888888899999999996 88888876
No 10
>PTZ00382 Variant-specific surface protein (VSP); Provisional
Probab=66.58 E-value=3.2 Score=39.95 Aligned_cols=24 Identities=25% Similarity=0.493 Sum_probs=18.4
Q ss_pred ccceeCCCCceeccCCCCCCCcccCCC
Q 001543 805 VFCEECPVGTFKNVSGSDRALCRNCSS 831 (1057)
Q Consensus 805 ~fC~eCp~GtYK~~~Gs~~~~C~pC~~ 831 (1057)
..|.+|..|+|++.. ...|.+|+.
T Consensus 4 ~~Ct~C~~g~~~~~~---~~~C~~C~~ 27 (96)
T PTZ00382 4 AVCTSCDSDKKPNKD---GSGCVLCSV 27 (96)
T ss_pred cccCcCCCCCccCCC---CCcCCcCCC
Confidence 368999999988853 357888885
No 11
>PF12273 RCR: Chitin synthesis regulation, resistance to Congo red; InterPro: IPR020999 RCR proteins are ER membrane proteins that regulate chitin deposition in fungal cell walls. Although chitin, a linear polymer of beta-1,4-linked N-acetylglucosamine, constitutes only 2% of the cell wall it plays a vital role in the overall protection of the cell wall against stress, noxious chemicals and osmotic pressure changes. Congo red is a cell wall-disrupting benzidine-type dye extensively used in many cell wall mutant studies that specifically targets chitin in yeast cells and inhibits growth. RCR proteins render the yeasts resistant to Congo red by diminishing the content of chitin in the cell wall []. RCR proteins are probably regulating chitin synthase III interact directly with ubiquitin ligase Rsp5, and the VPEY motif is necessary for this, via interaction with the WW domains of Rsp5 [].
Probab=66.13 E-value=5.5 Score=39.71 Aligned_cols=21 Identities=33% Similarity=0.838 Sum_probs=9.6
Q ss_pred c-hhhHHHHHHHHHHHHHHHHh
Q 001543 881 W-LFGLILLGLLILLALVLSVA 901 (1057)
Q Consensus 881 ~-~F~l~l~~llilLalv~s~~ 901 (1057)
| +|+||++++||+|+++....
T Consensus 2 W~l~~iii~~i~l~~~~~~~~~ 23 (130)
T PF12273_consen 2 WVLFAIIIVAILLFLFLFYCHN 23 (130)
T ss_pred eeeHHHHHHHHHHHHHHHHHHH
Confidence 5 45455444444444443333
No 12
>cd00185 TNFR Tumor necrosis factor receptor (TNFR) domain; superfamily of TNF-like receptor domains. When bound to TNF-like cytokines, TNFRs trigger multiple signal transduction pathways, they are involved in inflammation response, apoptosis, autoimmunity and organogenesis. TNFRs domains are elongated with generally three tandem repeats of cysteine-rich domains (CRDs). They fit in the grooves between protomers within the ligand trimer. Some TNFRs, such as NGFR and HveA, bind ligands with no structural similarity to TNF and do not bind ligand trimers.
Probab=62.37 E-value=9.7 Score=36.19 Aligned_cols=32 Identities=25% Similarity=0.816 Sum_probs=23.5
Q ss_pred cccceeCCCCceeccCCC--CCCCcccCCCCCCC
Q 001543 804 GVFCEECPVGTFKNVSGS--DRALCRNCSSNELP 835 (1057)
Q Consensus 804 G~fC~eCp~GtYK~~~Gs--~~~~C~pC~~~~lp 835 (1057)
+.-|..||.|+|-..... ....|.|||...+-
T Consensus 11 ~~cC~~C~pG~~~~~~C~~~~~t~C~~C~~g~ys 44 (98)
T cd00185 11 GLCCDQCPPGTYLSKDCTPGSDTVCEPCPPGTYT 44 (98)
T ss_pred CCCCCCCCCCccCCCcCCCCCCCeecCCCCCCcc
Confidence 456999999999776532 24579999986543
No 13
>smart00180 EGF_Lam Laminin-type epidermal growth factor-like domai.
Probab=57.29 E-value=6.1 Score=32.89 Aligned_cols=21 Identities=24% Similarity=0.670 Sum_probs=18.9
Q ss_pred cCCCCCCccccceeCCCCcee
Q 001543 796 KACPRGLYGVFCEECPVGTFK 816 (1057)
Q Consensus 796 ~~CP~G~~G~fC~eCp~GtYK 816 (1057)
-.|++++.|..|++|+.|+|-
T Consensus 20 C~C~~~~~G~~C~~C~~g~~g 40 (46)
T smart00180 20 CECKPNVTGRRCDRCAPGYYG 40 (46)
T ss_pred EECCCCCCCCCCCcCCCCcCC
Confidence 349999999999999999996
No 14
>cd00055 EGF_Lam Laminin-type epidermal growth factor-like domain; laminins are the major noncollagenous components of basement membranes that mediate cell adhesion, growth migration, and differentiation; the laminin-type epidermal growth factor-like module occurs in tandem arrays; the domain contains 4 disulfide bonds (loops a-d) the first three resemble epidermal growth factor (EGF); the number of copies of this domain in the different forms of laminins is highly variable ranging from 3 up to 22 copies
Probab=56.82 E-value=6.1 Score=33.23 Aligned_cols=23 Identities=22% Similarity=0.498 Sum_probs=20.2
Q ss_pred cCCCCCCccccceeCCCCceecc
Q 001543 796 KACPRGLYGVFCEECPVGTFKNV 818 (1057)
Q Consensus 796 ~~CP~G~~G~fC~eCp~GtYK~~ 818 (1057)
-.|++++.|..|++|+.|+|...
T Consensus 21 C~C~~~~~G~~C~~C~~g~~~~~ 43 (50)
T cd00055 21 CECKPNTTGRRCDRCAPGYYGLP 43 (50)
T ss_pred EeCCCcCCCCCCCCCCCCCccCC
Confidence 35999999999999999999664
No 15
>KOG4289 consensus Cadherin EGF LAG seven-pass G-type receptor [Signal transduction mechanisms]
Probab=56.12 E-value=9.6 Score=50.82 Aligned_cols=78 Identities=26% Similarity=0.566 Sum_probs=48.3
Q ss_pred ccCCceEEccCCCCCCccccce-----eCCCCceeccCCCCCCCcccCCCCCC----CC-----------Cceeeccc--
Q 001543 787 AGGNGTVTGKACPRGLYGVFCE-----ECPVGTFKNVSGSDRALCRNCSSNEL----PH-----------RALYIPIR-- 844 (1057)
Q Consensus 787 ~g~~Gti~g~~CP~G~~G~fC~-----eCp~GtYK~~~Gs~~~~C~pC~~~~l----p~-----------ra~~iy~~-- 844 (1057)
++.+| +...||+||+|-.|| +||.|+|- ...|.||.-.-- |. +.+|- .+
T Consensus 1734 p~a~G--Y~C~C~~g~~G~~Ce~~~dq~CPrGWWG------~P~CgpC~CavsKgfdp~CnKt~G~CqCKe~hy~-~~~~ 1804 (2531)
T KOG4289|consen 1734 PGAHG--YTCECPPGYTGPYCELRADQPCPRGWWG------FPTCGPCNCAVSKGFDPDCNKTNGQCQCKENHYR-PIGS 1804 (2531)
T ss_pred CCCCc--eeEECCCcccCcchhhhccCCCCCcccC------CCCccCccccccCCCCCCccccCcceeecccccc-CCCc
Confidence 33444 348999999999997 89999973 357888863210 10 11222 22
Q ss_pred -------CcccCCCCC----ccccCCcc--cCCcccchHHHH
Q 001543 845 -------GGVTECPCP----YKCVSERY--HMPHCYTTLEEL 873 (1057)
Q Consensus 845 -------gg~~~~~Cp----y~C~~dk~--~~p~C~t~leel 873 (1057)
.|..++.|. -+|.++.- +...|..|+.|.
T Consensus 1805 Cl~CdC~~Gs~Sr~C~adGqC~C~pgaiGRqCdrCd~pfaev 1846 (2531)
T KOG4289|consen 1805 CLPCDCYFGSDSRECDADGQCPCKPGAIGRQCDRCDNPFAEV 1846 (2531)
T ss_pred ceeeccccCCCcccccCCCcCCCCCccccccccccCChhhhc
Confidence 234444443 34777644 678999998883
No 16
>KOG0921 consensus Dosage compensation complex, subunit MLE [Transcription]
Probab=54.21 E-value=32 Score=44.65 Aligned_cols=11 Identities=27% Similarity=0.341 Sum_probs=5.0
Q ss_pred EEEEEeeeeee
Q 001543 558 ICRAEEINIEG 568 (1057)
Q Consensus 558 i~rveditv~g 568 (1057)
|||-+-..++.
T Consensus 1136 Is~pSAa~inL 1146 (1282)
T KOG0921|consen 1136 ISRPSAADINL 1146 (1282)
T ss_pred hcccccccccc
Confidence 44444444443
No 17
>KOG4069 consensus Uncharacterized conserved protein [Function unknown]
Probab=51.23 E-value=46 Score=34.24 Aligned_cols=79 Identities=24% Similarity=0.332 Sum_probs=56.1
Q ss_pred CCCcchhhhhhcHHHHHHHHHHHhhhhhh-------hhhhhhhhhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHh----
Q 001543 965 HSPPEQVIEIVYEDAFNRFADEINALAAY-------QWWEGSVYSILSVLAYPLAWSWLQLCRKNKLQQLREFVRS---- 1033 (1057)
Q Consensus 965 ~spP~~i~~ivye~~fn~Fa~~iN~laay-------~~we~~i~~iLsvl~YPlaw~~~q~~rr~k~~rL~efv~s---- 1033 (1057)
...|..+++.|..+.|+.=+..+|++-|= ..+|+.+- ++.+|-.|.--..-. +||+++|+||+.+
T Consensus 45 ~~~pa~le~~i~R~vfE~Ti~rlN~~yAeAE~~~~qty~Egclg---C~TaY~iy~ctethY-ek~L~klskfl~~qNe~ 120 (154)
T KOG4069|consen 45 AEYPARLEEKIPRDVFENTIVRLNRIYAEAEAITPQTYFEGCLG---CFTAYAIYACTETHY-EKKLDKLSKFLNRQNEE 120 (154)
T ss_pred ecCcHHHhccCcHHHHHHHHHHHHHHHHHHHhcCCcchHHHHHH---HHHHHHHHHHHHHHH-HHHHHHHHHHHHhhhhh
Confidence 45789999999999999999999998543 24666544 566666655444443 5689999999985
Q ss_pred hcCcc--cccccchhh
Q 001543 1034 EYDHS--CLRSCRSRA 1047 (1057)
Q Consensus 1034 eydh~--clrs~rsr~ 1047 (1057)
-|.|- =||++--|.
T Consensus 121 IY~~~Gl~l~dP~eRG 136 (154)
T KOG4069|consen 121 IYHHVGLHLRDPMERG 136 (154)
T ss_pred hccccceeecCchhhc
Confidence 47776 456665553
No 18
>PF14946 DUF4501: Domain of unknown function (DUF4501)
Probab=49.49 E-value=60 Score=34.54 Aligned_cols=29 Identities=41% Similarity=0.502 Sum_probs=20.3
Q ss_pred HhCCcc-hhhHHHHHHHHHHHHHHHHhhhh
Q 001543 876 TFGGPW-LFGLILLGLLILLALVLSVARMK 904 (1057)
Q Consensus 876 ~~GGp~-~F~l~l~~llilLalv~s~~R~k 904 (1057)
.+|||+ .-.|||=.|+|-++|++|++-.-
T Consensus 83 ~~g~P~vAASL~LgTffIS~~LilSvA~FF 112 (180)
T PF14946_consen 83 HTGGPQVAASLFLGTFFISLGLILSVASFF 112 (180)
T ss_pred cCCChhHHHHHHHHHHHHHHHHHHHHhhhe
Confidence 489997 44555556777788888877544
No 19
>KOG2675 consensus Adenylate cyclase-associated protein (CAP/Srv2p) [Cytoskeleton; Signal transduction mechanisms]
Probab=45.60 E-value=12 Score=44.52 Aligned_cols=22 Identities=32% Similarity=0.622 Sum_probs=10.2
Q ss_pred CCCccceeeecCCCcceeeeEE
Q 001543 342 LPTNTDTLLLEFPKQQLWTNVY 363 (1057)
Q Consensus 342 ~~t~t~tlll~fp~~~l~~nv~ 363 (1057)
..+..|-=+.|||--.-|.|.+
T Consensus 446 vp~~~dgDy~EfpvPEQfkt~~ 467 (480)
T KOG2675|consen 446 VPTNEDGDYVEFPVPEQFKTKF 467 (480)
T ss_pred cccCCCCCcccccChHHHhhhc
Confidence 3343444456665433344433
No 20
>PF04494 TFIID_90kDa: WD40 associated region in TFIID subunit; InterPro: IPR007582 This region, possibly a domain is found in subunits of transcription factor TFIID. The function of this region is unknown.; GO: 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 2J4B_D 2J49_A 2NXP_F.
Probab=44.42 E-value=37 Score=34.45 Aligned_cols=65 Identities=15% Similarity=0.207 Sum_probs=43.5
Q ss_pred hhhhhcHHHHHHHHHHHhhhhhhhhhhhhhhhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHhhcCccccc
Q 001543 971 VIEIVYEDAFNRFADEINALAAYQWWEGSVYSILSVLAYPLAWSWLQLCRKNKLQQLREFVRSEYDHSCLR 1041 (1057)
Q Consensus 971 i~~ivye~~fn~Fa~~iN~laay~~we~~i~~iLsvl~YPlaw~~~q~~rr~k~~rL~efv~seydh~clr 1041 (1057)
..+-.|+++|.+|.+=|+... +..-+-+..++|+=|...+++..++.+.++.++|+. +|...+..
T Consensus 10 ~~p~~y~~~y~~l~~wv~~sl-----d~yK~EL~~lLyPvFvh~YL~Lv~~~~~~~A~~F~~-kf~~~~~~ 74 (142)
T PF04494_consen 10 NDPDKYEQAYSRLRNWVDNSL-----DIYKPELSRLLYPVFVHSYLDLVSKGHPEEAKSFLE-KFSPDFED 74 (142)
T ss_dssp --GCCHHHHHHHHHHHHHTS------HHHHHHHGGGHHHHHHHHHHHHHHTT-HHHHHHHHH-HHGGGGHG
T ss_pred CCHHHHHHHHHHHHHHHHhCc-----HhhHHHHHHHHHHHHHHHHHHHHHCCChHHHHHHHH-HHHHHHhH
Confidence 344458888888877775532 222334455666668899999999999999999997 55554433
No 21
>PF00053 Laminin_EGF: Laminin EGF-like (Domains III and V); InterPro: IPR002049 Laminins [] are the major noncollagenous components of basement membranes that mediate cell adhesion, growth migration, and differentiation. They are composed of distinct but related alpha, beta and gamma chains. The three chains form a cross-shaped molecule that consist of a long arm and three short globular arms. The long arm consist of a coiled coil structure contributed by all three chains and cross-linked by interchain disulphide bonds. Beside different types of globular domains each subunit contains, in its first half, consecutive repeats of about 60 amino acids in length that include eight conserved cysteines []. The tertiary structure [, ] of this domain is remotely similar in its N-terminal to that of the EGF-like module (see PDOC00021 from PROSITEDOC). It is known as a 'LE' or 'laminin-type EGF-like' domain. The number of copies of the LE domain in the different forms of laminins is highly variable; from 3 up to 22 copies have been found. A schematic representation of the topology of the four disulphide bonds in the LE domain is shown below. +-------------------+ +-|-----------+ | +--------+ +-----------------+ | | | | | | | | xxCxCxxxxxxxxxxxCxxxxxxxCxxCxxxxxGxxCxxCxxgaagxxxxxxxxxxxCxx sssssssssssssssssssssssssssssssssss 'C': conserved cysteine involved in a disulphide bond 'a': conserved aromatic residue 'G': conserved glycine (lower case = less conserved) 's': region similar to the EGF-like domain In mouse laminin gamma-1 chain, the seventh LE domain has been shown to be the only one that binds with a high affinity to nidogen []. The binding-sites are located on the surface within the loops C1-C3 and C5-C6 [, ]. Long consecutive arrays of LE domains in laminins form rod-like elements of limited flexibility [], which determine the spacing in the formation of laminin networks of basement membranes [].; PDB: 3TBD_A 3ZYG_B 3ZYI_B 2Y38_A 1KLO_A 1NPE_B 3ZYJ_B 1TLE_A.
Probab=43.38 E-value=9.7 Score=31.66 Aligned_cols=22 Identities=32% Similarity=0.696 Sum_probs=18.2
Q ss_pred CCCCCCccccceeCCCCceecc
Q 001543 797 ACPRGLYGVFCEECPVGTFKNV 818 (1057)
Q Consensus 797 ~CP~G~~G~fC~eCp~GtYK~~ 818 (1057)
.|++++.|.+|++|..|+|...
T Consensus 21 ~C~~~~~G~~C~~C~~g~~~~~ 42 (49)
T PF00053_consen 21 VCKPGTTGPRCDQCKPGYFGLP 42 (49)
T ss_dssp SBSTTEESTTS-EE-TTEECST
T ss_pred eccccccCCcCcCCCCcccccc
Confidence 4999999999999999999774
No 22
>KOG1836 consensus Extracellular matrix glycoprotein Laminin subunits alpha and gamma [Extracellular structures]
Probab=42.39 E-value=17 Score=49.94 Aligned_cols=43 Identities=42% Similarity=0.767 Sum_probs=35.1
Q ss_pred CceEEccCCCCCCccccceeCCCCceeccCCC--CCCCcccCCCC
Q 001543 790 NGTVTGKACPRGLYGVFCEECPVGTFKNVSGS--DRALCRNCSSN 832 (1057)
Q Consensus 790 ~Gti~g~~CP~G~~G~fC~eCp~GtYK~~~Gs--~~~~C~pC~~~ 832 (1057)
.-++.-|.||+||.|..|++|.-|+|=+..+- +...|++|+-+
T Consensus 794 ~~~~iCk~Cp~gytG~rCe~c~dgyfg~p~~~~~~~~~c~~c~c~ 838 (1705)
T KOG1836|consen 794 ILEVVCKNCPPGYTGLRCEECADGYFGNPLGHDGDVRPCQSCQCN 838 (1705)
T ss_pred ccceecCCCCCCCcccccccCCCccccCCCCCCCCcccCccceec
Confidence 56677799999999999999999999886532 23579999964
No 23
>PF07354 Sp38: Zona-pellucida-binding protein (Sp38); InterPro: IPR010857 This family contains a number of zona-pellucida-binding proteins that seem to be restricted to mammals. These are sperm proteins that bind to the 90 kDa family of zona pellucida glycoproteins in a calcium-dependent manner []. These represent some of the specific molecules that mediate the first steps of gamete interaction, allowing fertilisation to occur [].; GO: 0007339 binding of sperm to zona pellucida, 0005576 extracellular region
Probab=41.79 E-value=17 Score=41.06 Aligned_cols=35 Identities=26% Similarity=0.607 Sum_probs=26.8
Q ss_pred EccCCCCCCcc---------ccceeCCCCceeccCCCCCCCcccCCC
Q 001543 794 TGKACPRGLYG---------VFCEECPVGTFKNVSGSDRALCRNCSS 831 (1057)
Q Consensus 794 ~g~~CP~G~~G---------~fC~eCp~GtYK~~~Gs~~~~C~pC~~ 831 (1057)
+=..|+|||+- .=|+-|++|||....+ ..|+.|..
T Consensus 218 ~idsC~PGfG~N~~~h~~C~~CCVvCsPgTysp~~~---~~C~~C~~ 261 (271)
T PF07354_consen 218 RIDSCRPGFGKNDILHSDCPSCCVVCSPGTYSPDDD---VHCQQCNS 261 (271)
T ss_pred EeeccCCCCCcCcccCCCCCCeeEECCCcccCCCCC---ceEEecCc
Confidence 34678888761 2499999999988654 58999995
No 24
>PHA02844 putative transmembrane protein; Provisional
Probab=41.24 E-value=26 Score=32.72 Aligned_cols=15 Identities=27% Similarity=0.645 Sum_probs=12.8
Q ss_pred HHHHHHHHHHHhhhh
Q 001543 977 EDAFNRFADEINALA 991 (1057)
Q Consensus 977 e~~fn~Fa~~iN~la 991 (1057)
+|.||+|+|-+-++.
T Consensus 17 DdDFnnFI~vVksVL 31 (75)
T PHA02844 17 NEDFNNFIDVVKSVL 31 (75)
T ss_pred hHHHHHHHHHHHHHH
Confidence 588999999987776
No 25
>KOG1219 consensus Uncharacterized conserved protein, contains laminin, cadherin and EGF domains [Signal transduction mechanisms]
Probab=39.21 E-value=38 Score=47.80 Aligned_cols=14 Identities=36% Similarity=0.740 Sum_probs=9.4
Q ss_pred ccCCCCCCccccce
Q 001543 795 GKACPRGLYGVFCE 808 (1057)
Q Consensus 795 g~~CP~G~~G~fC~ 808 (1057)
-..||+-|.|.-||
T Consensus 3887 ~CkCpsqysG~~CE 3900 (4289)
T KOG1219|consen 3887 KCKCPSQYSGNHCE 3900 (4289)
T ss_pred EEeCcccccCcccc
Confidence 36777777776665
No 26
>KOG4258 consensus Insulin/growth factor receptor (contains protein kinase domain) [Signal transduction mechanisms]
Probab=35.14 E-value=14 Score=47.30 Aligned_cols=46 Identities=28% Similarity=0.619 Sum_probs=30.4
Q ss_pred ccce-eCCCCceeccCCCCCCCcccCCCCCCCCCceeecccCcccCCCCCccccCCcccCCcccchHHHH
Q 001543 805 VFCE-ECPVGTFKNVSGSDRALCRNCSSNELPHRALYIPIRGGVTECPCPYKCVSERYHMPHCYTTLEEL 873 (1057)
Q Consensus 805 ~fC~-eCp~GtYK~~~Gs~~~~C~pC~~~~lp~ra~~iy~~gg~~~~~Cpy~C~~dk~~~p~C~t~leel 873 (1057)
..|. +||.|+-.|.+ ..+|++|.. .||-.|.+ +.+--+=.+..|+|
T Consensus 304 ~~Cv~~CPsGy~~N~~---~~~C~~C~g-------------------~C~~vC~~-~~~tIds~~~Aq~L 350 (1025)
T KOG4258|consen 304 GQCVAKCPSGYKRNSS---SSECVKCEG-------------------PCPKVCEP-GTKTIDSVADAQNL 350 (1025)
T ss_pred ccchhhCCCcceecCc---ccceeccCC-------------------CCcceecc-CceEecchhhhHHh
Confidence 3565 89999877753 589999983 68888875 33222334555554
No 27
>PF02166 Androgen_recep: Androgen receptor; InterPro: IPR001103 Steroid or nuclear hormone receptors (NRs) constitute an important super-family of transcription regulators that are involved in diverse physiological functions, including control of embryonic development, cell differentiation and homeostasis. Members include the steroid hormone receptors and receptors for thyroid hormone, retinoids and 1,25-dihydroxy-vitamin D3. The proteins function as dimeric molecules in the nucleus to regulate the transcription of target genes in a ligand-responsive manner [, ]. NRs are extremely important in medical research, a large number of them being implicated in diseases such as cancer, diabetes and hormone resistance syndromes. Many do not yet have a defined ligand and are accordingly termed "orphan" receptors. More than 300 NRs have been described to date and a new system has recently been introduced in an attempt to rationalise the increasingly complex set of names used to describe superfamily members. The androgen receptor (AR) consists of 3 functional and structural domains: an N-terminal (modulatory) domain; a DNA binding domain (IPR001628 from INTERPRO) that mediates specific binding to target DNA sequences (ligand-responsive elements); and a hormone binding domain. The N-terminal domain (NTD) is unique to the androgen receptors and spans approximately the first 530 residues; the highly-conserved DNA-binding domain is smaller (around 65 residues) and occupies the central portion of the protein; and the hormone ligand binding domain (LBD) lies at the receptor C terminus. In the absence of ligand, steroid hormone receptors are thought to be weakly associated with nuclear components; hormone binding greatly increases receptor affinity. The LBDs of steroid hormone receptors fold into 12 helices that form a ligand-binding pocket. When an agonist is bound, helix 12 folds over the pocket to enclose the ligand []. When an antagonist is unbound, helix 12 is positioned away from the pocket in a way that interferes with the binding of coactivators to a groove in the hormone-binding domain formed after ligand binding. In AR, ligand binding that induces folding of helix 12 to overlie the pocket discloses a groove that binds a region of the NTD. Coactivator molecules can also bind to this groove, but the predominant site for coactivator binding to AR is in the NTD. AR ligand resides in a pocket and primarily contacts helices 4, 5, and 10. The DNA-binding region includes eight cysteine residues that form two coordination complexes, each composed of four cysteines and a Zn2+ ion. These two zinc fingers form the structure that binds to the major groove of DNA. The second zinc finger stabilises the binding complex by hydrophobic interactions with the first finger and contributes to specificity of receptor DNA binding. It is also necessary for receptor dimerisation that occurs during DNA binding Defects in the androgen receptor cause testicular feminisation syndrome, androgen insensibility syndrome (AIS) [, ]. AIS may be complete (CAIS), where external genitalia are phenotypically female; partial (PAIS), where genitalia are substantively ambiguous; or mild (MAIS), where external genitalia are normal male, or nearly so. Defects in the receptor also cause X-linked spinal and bulbar muscular atrophy (also known as Kennedy's disease).; GO: 0003677 DNA binding, 0004882 androgen receptor activity, 0005496 steroid binding, 0006355 regulation of transcription, DNA-dependent, 0030521 androgen receptor signaling pathway, 0005634 nucleus; PDB: 1XOW_B 2Q7K_B 2Q7I_B.
Probab=34.49 E-value=13 Score=43.05 Aligned_cols=26 Identities=50% Similarity=0.989 Sum_probs=0.0
Q ss_pred cccccccceeeeCCCCCcccCCCCCCCCCCCCCCCCC
Q 001543 21 SLDQYNFPVIGFGADSLFHGDYTPPSPPPPIAPPHPP 57 (1057)
Q Consensus 21 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 57 (1057)
+-|-||||+- ..-|+|||||+|||+.
T Consensus 335 sRDyYnF~la-----------Lag~~~p~~~~hph~R 360 (423)
T PF02166_consen 335 SRDYYNFPLA-----------LAGPPPPPPPPHPHAR 360 (423)
T ss_dssp -------------------------------------
T ss_pred cccccccccc-----------cccccccccccccccc
Confidence 4577888752 2335556666677554
No 28
>cd00064 FU Furin-like repeats. Cysteine rich region. Exact function of the domain is not known. Furin is a serine-kinase dependent proprotein processor. Other members of this family include endoproteases and cell surface receptors.
Probab=34.10 E-value=32 Score=28.50 Aligned_cols=22 Identities=41% Similarity=0.995 Sum_probs=12.3
Q ss_pred cCCCCCC--ccccce-eCCCCceec
Q 001543 796 KACPRGL--YGVFCE-ECPVGTFKN 817 (1057)
Q Consensus 796 ~~CP~G~--~G~fC~-eCp~GtYK~ 817 (1057)
..|++++ ....|+ +||.++|.+
T Consensus 18 ~~C~~~~~~~~~~Cv~~C~~~~~~~ 42 (49)
T cd00064 18 TSCRHGFYLDGGTCVSECPEGTYAD 42 (49)
T ss_pred ccCcCccCCCCCcccccCCCCceec
Confidence 4566665 344565 666666654
No 29
>PF05268 GP38: Phage tail fibre adhesin Gp38; InterPro: IPR007932 This entry is represented by Bacteriophage T2, Gp38. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family contains several Gp38 proteins from T-even-like phages. Gp38, together with a second phage protein, Gp57, catalyses the organisation of Gp37 but is absent from the phage particle. Gp37 is responsible for receptor recognition [].
Probab=33.77 E-value=1.4e+02 Score=33.35 Aligned_cols=37 Identities=24% Similarity=0.514 Sum_probs=20.8
Q ss_pred cccCCCCCCCCCCCCCcCcccEEEEEEceeeee--ccEEE
Q 001543 210 SYGSKGGTTFKGENFGGDGGGRIRLEVVNEIEV--NGSLL 247 (1057)
Q Consensus 210 ~~GSGGG~~~~~~~~GG~GGG~I~i~a~~~l~l--~G~i~ 247 (1057)
.+|-|| +++.....+.+||=+|+=....+|.| +|.|-
T Consensus 114 ~yGRGG-nGs~~~~~g~~GG~~I~N~iG~rLRI~N~GaIA 152 (260)
T PF05268_consen 114 MYGRGG-NGSGSNSAGAAGGHAIQNDIGGRLRINNNGAIA 152 (260)
T ss_pred EEecCC-CCCCCCCCccccceeeecCCcceEEEecCCEEe
Confidence 444444 33444566777787887555555554 45554
No 30
>PF15195 TMEM210: TMEM210 family
Probab=33.46 E-value=26 Score=34.23 Aligned_cols=13 Identities=38% Similarity=0.869 Sum_probs=5.7
Q ss_pred cCCCCCCCCCCCC
Q 001543 40 GDYTPPSPPPPIA 52 (1057)
Q Consensus 40 ~~~~~~~~~~~~~ 52 (1057)
-+-+|++||||||
T Consensus 100 m~~~p~~pppppP 112 (116)
T PF15195_consen 100 MEASPEEPPPPPP 112 (116)
T ss_pred cCCCCCCCCcCcC
Confidence 3444554444433
No 31
>PF05281 Secretogranin_V: Neuroendocrine protein 7B2 precursor (Secretogranin V); InterPro: IPR007945 Mature peptide hormones and neuropeptides are typically synthesised from much larger precursors and require several post-translational processing steps--including proteolytic cleavage--for the formation of the bioactive species. The subtilisin-related proteolytic enzymes that accomplish neuroendocrine-specific cleavages are known as prohormone convertases 1 and 2 (PC1 and PC2), which belong to MEROPS peptidase family S8B. The cell biology of these proteases within the regulated secretory pathway of neuroendocrine cells is complex, and they are themselves initially synthesised as inactive precursor molecules. ProPC1 propeptide cleavage occurs rapidly in the endoplasmic reticulum, yet its major site of action on prohormones takes place later in the secretory pathway. PC1 undergoes an interesting carboxyl terminal processing event whose function appears to be to activate the enzyme. ProPC2, on the other hand, exhibits comparatively long initial folding times and exits the endoplasmic reticulum without propeptide cleavage, in association with the neuroendocrine-specific protein 7B2. Once the proPC2/7B2 complex arrives at the trans-Golgi network, 7B2 is internally cleaved into two domains, the 21kDa fragment and a carboxy-terminal 31 residue peptide. PC2 propeptide removal occurs in the maturing secretory granule, most likely through autocatalysis, and 7B2 association does not appear to be directly required for this cleavage event. However, if proPC2 has not encountered 7B2 intracellularly, it cannot generate a catalytically active mature species. The molecular mechanism behind the intriguing intracellular association of 7B2 and proPC2 is still unknown, but may involve conformational rearrangement or stabilisation of a proPC2 conformer mediated by a 36-residue internal segment of 21kDa 7B2. This family represents, 7B2 (secretogranin V), which is the molecular escort protein for PC2. 7B2 is a bifunctional protein with an N-terminal activation domain and a C-terminal inhibitory domain (MEROPS inhibitor family I21, clan I-) separated by a furin cleavage site []. Although 7B2 represents a potent inhibitor of PC2, there is an absolute requirement of 7B2 for the activation of PC2, which is synthesised as a zymogen. Both the full length, 27 kDa, and the C-terminal peptide (CT domain) derived from intramolecular cleavage of 7B2 are potent inhibitors of PC2. Studies have shown that the active peptide in the CT domain to be LLRVHK, active in the nanomolar range not only against PC2 but also PC1 [, ]. Knock-out studies have shown that the PC2 nulls are not phenotypically equivalent to the 7B2 nulls, which suggests that 7B2 may have other activities in addition to being the activator of PC2 []. 7B2 exhibits both structural and functional homology to proSAAS (IPR010832 from INTERPRO), which is the PC1 binding protein. The CT domain of proSAAS contains the same inhibitor hexapeptide as 7B2, consequently both 7B2 and proSAAS are two members of a homologous family of prohormone convertase inhibitor proteins. ; GO: 0007218 neuropeptide signaling pathway, 0030141 stored secretory granule
Probab=31.49 E-value=65 Score=35.39 Aligned_cols=91 Identities=25% Similarity=0.448 Sum_probs=53.4
Q ss_pred CCcccccceeeeEEEccCCCCCCCCcccCCceEEccCCCCCCc--cccce---eCCCCceeccCCCCCCCcccCCCCCCC
Q 001543 761 GDEYLPLASVNGSIDARGGLGRGQGLAGGNGTVTGKACPRGLY--GVFCE---ECPVGTFKNVSGSDRALCRNCSSNELP 835 (1057)
Q Consensus 761 gd~y~~ia~~~G~I~~~GG~~~~~g~~g~~Gti~g~~CP~G~~--G~fC~---eCp~GtYK~~~Gs~~~~C~pC~~~~lp 835 (1057)
-+||.+=...-|.-.++||++-+....+..|.|-...=.+--- =-+|. +||+|+- .. ..|. ++++
T Consensus 49 d~E~l~hssLwG~q~isGGagEG~q~L~~~~~i~n~~~~ktd~~lPaYCnPPNPCPvGyt-~~-----dgCl----e~fE 118 (208)
T PF05281_consen 49 DQEYLQHSSLWGHQYISGGAGEGPQHLGPEGNIPNIKIVKTDNNLPAYCNPPNPCPVGYT-AE-----DGCL----ENFE 118 (208)
T ss_pred ccccccccccCCceeeeCCCCccchhcCccCCcCcccccccccCCCCCCCCCCCCCCCcc-cc-----cCcc----cCCc
Confidence 3577766667788889999988776667776664321111100 13687 8999985 22 2354 3566
Q ss_pred CCceeecccCcccCCCCCccccCCcccCCccc
Q 001543 836 HRALYIPIRGGVTECPCPYKCVSERYHMPHCY 867 (1057)
Q Consensus 836 ~ra~~iy~~gg~~~~~Cpy~C~~dk~~~p~C~ 867 (1057)
+-|.|--.-+ ....|. | |--||-+|-
T Consensus 119 nTAeFSReyQ--a~QdC~--C--D~EHMf~C~ 144 (208)
T PF05281_consen 119 NTAEFSREYQ--AAQDCM--C--DTEHMFDCP 144 (208)
T ss_pred cHHHhhHHHH--hcCccC--C--CcccccCCc
Confidence 6565542221 223443 4 667888886
No 32
>PHA02650 hypothetical protein; Provisional
Probab=31.33 E-value=51 Score=31.28 Aligned_cols=15 Identities=33% Similarity=0.729 Sum_probs=12.4
Q ss_pred HHHHHHHHHHHhhhh
Q 001543 977 EDAFNRFADEINALA 991 (1057)
Q Consensus 977 e~~fn~Fa~~iN~la 991 (1057)
+|.||+|+|-+-++.
T Consensus 17 DdDFnnFI~VVkSVL 31 (81)
T PHA02650 17 DDDFNNFIDVVKSVL 31 (81)
T ss_pred HHHHHHHHHHHHHHH
Confidence 588999999887665
No 33
>TIGR01477 RIFIN variant surface antigen, rifin family. This model represents the rifin branch of the rifin/stevor family (pfam02009) of predicted variant surface antigens as found in Plasmodium falciparum. This model is based on a set of rifin sequences kindly provided by Matt Berriman from the Sanger Center. This is a global model and assesses a penalty for incomplete sequence. Additional fragmentary sequences may be found with the fragment model and a cutoff of 20 bits.
Probab=30.67 E-value=40 Score=39.57 Aligned_cols=37 Identities=19% Similarity=0.424 Sum_probs=27.8
Q ss_pred hhhhhhhhhhhhhhh----hHHHHHHHHHHHHHHHHHHHHH
Q 001543 996 WEGSVYSILSVLAYP----LAWSWLQLCRKNKLQQLREFVR 1032 (1057)
Q Consensus 996 we~~i~~iLsvl~YP----law~~~q~~rr~k~~rL~efv~ 1032 (1057)
--.++++|..|+..- .-+.+|+||||||+++=-+|++
T Consensus 309 ~t~IiaSiIAIvvIVLIMvIIYLILRYRRKKKMkKKLQYiK 349 (353)
T TIGR01477 309 YTPIIASIIAILIIVLIMVIIYLILRYRRKKKMKKKLQYIK 349 (353)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHH
Confidence 345666666555444 4678999999999999888886
No 34
>PTZ00046 rifin; Provisional
Probab=30.24 E-value=40 Score=39.62 Aligned_cols=38 Identities=16% Similarity=0.345 Sum_probs=29.3
Q ss_pred hhhhhhhhhhhhhhhh----hHHHHHHHHHHHHHHHHHHHHH
Q 001543 995 WWEGSVYSILSVLAYP----LAWSWLQLCRKNKLQQLREFVR 1032 (1057)
Q Consensus 995 ~we~~i~~iLsvl~YP----law~~~q~~rr~k~~rL~efv~ 1032 (1057)
|--.+++||..|+..- .-|.+|+||||||+++=-+|++
T Consensus 313 ~~taIiaSiiAIvVIVLIMvIIYLILRYRRKKKMkKKLQYiK 354 (358)
T PTZ00046 313 LQTAIIASIVAIVVIVLIMVIIYLILRYRRKKKMKKKLQYIK 354 (358)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhHHHHHHHH
Confidence 4556677776665554 4678999999999999888886
No 35
>PF15203 TMEM95: TMEM95 family
Probab=30.05 E-value=37 Score=34.62 Aligned_cols=48 Identities=19% Similarity=0.294 Sum_probs=27.2
Q ss_pred hhhhcHHHHHHHHHHHhhhhhhhhhhhhhhhhhhhhhhhhHHHHHHHHHHHHHH
Q 001543 972 IEIVYEDAFNRFADEINALAAYQWWEGSVYSILSVLAYPLAWSWLQLCRKNKLQ 1025 (1057)
Q Consensus 972 ~~ivye~~fn~Fa~~iN~laay~~we~~i~~iLsvl~YPlaw~~~q~~rr~k~~ 1025 (1057)
....||...|+..|+-.++.+- +-+==++--.|+||.|+|..|--.|.
T Consensus 37 afalDevsmnkvtEKTHRVLRV------mEiK~s~S~lP~Yw~WL~ktklP~Yt 84 (152)
T PF15203_consen 37 AFALDEVSMNKVTEKTHRVLRV------MEIKGSFSSLPLYWQWLQKTKLPQYT 84 (152)
T ss_pred hhhhhhhHHHHHHHHhhhheee------eeeccccccCcHHHHHHHhcccchhh
Confidence 3345566666666665554431 11113445679999998876544443
No 36
>PF12273 RCR: Chitin synthesis regulation, resistance to Congo red; InterPro: IPR020999 RCR proteins are ER membrane proteins that regulate chitin deposition in fungal cell walls. Although chitin, a linear polymer of beta-1,4-linked N-acetylglucosamine, constitutes only 2% of the cell wall it plays a vital role in the overall protection of the cell wall against stress, noxious chemicals and osmotic pressure changes. Congo red is a cell wall-disrupting benzidine-type dye extensively used in many cell wall mutant studies that specifically targets chitin in yeast cells and inhibits growth. RCR proteins render the yeasts resistant to Congo red by diminishing the content of chitin in the cell wall []. RCR proteins are probably regulating chitin synthase III interact directly with ubiquitin ligase Rsp5, and the VPEY motif is necessary for this, via interaction with the WW domains of Rsp5 [].
Probab=29.86 E-value=30 Score=34.57 Aligned_cols=40 Identities=15% Similarity=0.296 Sum_probs=22.7
Q ss_pred hhhhhhhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHhhcCccccc
Q 001543 996 WEGSVYSILSVLAYPLAWSWLQLCRKNKLQQLREFVRSEYDHSCLR 1041 (1057)
Q Consensus 996 we~~i~~iLsvl~YPlaw~~~q~~rr~k~~rL~efv~seydh~clr 1041 (1057)
|-.++.+|+.|+.+=|...+..+||||| .+ +-.|.|++|-
T Consensus 2 W~l~~iii~~i~l~~~~~~~~~rRR~r~--G~----~P~~gt~w~~ 41 (130)
T PF12273_consen 2 WVLFAIIIVAILLFLFLFYCHNRRRRRR--GL----QPIYGTRWMA 41 (130)
T ss_pred eeeHHHHHHHHHHHHHHHHHHHHHHhhc--CC----CCcCCceecC
Confidence 5555555555555555555555555555 22 3466677766
No 37
>PF04519 Bactofilin: Polymer-forming cytoskeletal; InterPro: IPR007607 This family contains several uncharacterised hypothetical proteins.
Probab=29.64 E-value=1.9e+02 Score=27.23 Aligned_cols=14 Identities=21% Similarity=0.325 Sum_probs=6.7
Q ss_pred EeeeEEEcCCcEEE
Q 001543 137 SALNASFSSGSVVN 150 (1057)
Q Consensus 137 ~A~nv~i~~~s~I~ 150 (1057)
.+..+.|..++.|+
T Consensus 83 ~~~~l~v~~ga~i~ 96 (101)
T PF04519_consen 83 TAGKLEVEGGASIN 96 (101)
T ss_pred EECEEEEeCCCEEE
Confidence 44445555554443
No 38
>COG3290 CitA Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]
Probab=29.19 E-value=2.3e+02 Score=35.30 Aligned_cols=84 Identities=11% Similarity=0.205 Sum_probs=55.1
Q ss_pred ccccccceEEEEEecCCCCCCCcccCCCCcchhhhhhcHHHHHHHHHHHhhhhhhh--------hhhhhhhhhhhhhhhh
Q 001543 939 TEESQSHVHRMYFMGQNTFSEPWHLPHSPPEQVIEIVYEDAFNRFADEINALAAYQ--------WWEGSVYSILSVLAYP 1010 (1057)
Q Consensus 939 ~eDl~~Hv~RmY~~G~NT~~~PW~Lp~spP~~i~~ivye~~fn~Fa~~iN~laay~--------~we~~i~~iLsvl~YP 1010 (1057)
.++..+|--|.++. -+.|-.....+--.|.-+.+.+++++.+++.-.+-+|- -+-..+|.|+-
T Consensus 283 ~~~e~~~ng~~~i~----nr~pI~~~~~~~GaI~tFRdktei~~L~eqLt~vr~ya~aLRaq~HEfmNkLhtI~G----- 353 (537)
T COG3290 283 HDEEIRINGRLLVA----NRVPIRSGGQIVGAIITFRDKTEIKKLTEQLTGVRQYAEALRAQSHEFMNKLHTILG----- 353 (537)
T ss_pred cchhhhcCCeEEEE----EeccEEECCEEeEEEEEEecHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHH-----
Confidence 34555555555554 23566666666667777889999999999988888773 24444665543
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHhhcCcc
Q 001543 1011 LAWSWLQLCRKNKLQQLREFVRSEYDHS 1038 (1057)
Q Consensus 1011 law~~~q~~rr~k~~rL~efv~seydh~ 1038 (1057)
+.+-++|+++++|+++++++.
T Consensus 354 -------Llql~~yd~a~~~I~~~~~~q 374 (537)
T COG3290 354 -------LLQLGEYDDALDYIQQESEEQ 374 (537)
T ss_pred -------HHhhccHHHHHHHHHHHHhhh
Confidence 345677777777777666543
No 39
>PF02009 Rifin_STEVOR: Rifin/stevor family; InterPro: IPR002858 Malaria is still a major cause of mortality in many areas of the world. Plasmodium falciparum causes the most severe human form of the disease and is responsible for most fatalities. Severe cases of malaria can occur when the parasite invades and then proliferates within red blood cell erythrocytes. The parasite produces many variant antigenic proteins, encoded by multigene families, which are present on the surface of the infected erythrocyte and play important roles in virulence. A crucial survival mechanism for the malaria parasite is its ability to evade the immune response by switching these variant surface antigens. The high virulence of P. falciparum relative to other malarial parasites is in large part due to the fact that in this organism many of these surface antigens mediate the binding of infected erythrocytes to the vascular endothelium (cytoadherence) and non-infected erythrocytes (rosetting). This can lead to the accumulation of infected cells in the vasculature of a variety of organs, blocking the blood flow and reducing the oxygen supply. Clinical symptoms of severe infection can include fever, progressive anaemia, multi-organ dysfunction and coma. For more information see []. Several multicopy gene families have been described in Plasmodium falciparum, including the stevor family of subtelomeric open reading frames and the rif interspersed repetitive elements. Both families contain three predicted transmembrane segments. It has been proposed that stevor and rif are members of a larger superfamily that code for variant surface antigens [].
Probab=28.76 E-value=57 Score=37.56 Aligned_cols=22 Identities=18% Similarity=0.478 Sum_probs=17.4
Q ss_pred hHHHHHHHHHHHHHHHHHHHHH
Q 001543 1011 LAWSWLQLCRKNKLQQLREFVR 1032 (1057)
Q Consensus 1011 law~~~q~~rr~k~~rL~efv~ 1032 (1057)
.-+.+|+||||||.++=-||++
T Consensus 274 IIYLILRYRRKKKmkKKlQYiK 295 (299)
T PF02009_consen 274 IIYLILRYRRKKKMKKKLQYIK 295 (299)
T ss_pred HHHHHHHHHHHhhhhHHHHHHH
Confidence 3456778999999988888876
No 40
>KOG4260 consensus Uncharacterized conserved protein [Function unknown]
Probab=28.15 E-value=64 Score=36.92 Aligned_cols=24 Identities=42% Similarity=0.953 Sum_probs=19.7
Q ss_pred CCCCCCccccceeCCCCceeccCC
Q 001543 797 ACPRGLYGVFCEECPVGTFKNVSG 820 (1057)
Q Consensus 797 ~CP~G~~G~fC~eCp~GtYK~~~G 820 (1057)
-||+|.||.-|.+||-|+=+.-+|
T Consensus 131 CCp~gtyGpdCl~Cpggser~C~G 154 (350)
T KOG4260|consen 131 CCPDGTYGPDCLQCPGGSERPCFG 154 (350)
T ss_pred ccCCCCcCCccccCCCCCcCCcCC
Confidence 589999999999999888666444
No 41
>PF14018 DUF4234: Domain of unknown function (DUF4234)
Probab=27.34 E-value=1.1e+02 Score=27.62 Aligned_cols=45 Identities=16% Similarity=0.183 Sum_probs=24.4
Q ss_pred HHHHHHHHhhhhhhh--hhhhhhhhhhhhhhhhhHHHHHHHHHHHHH
Q 001543 980 FNRFADEINALAAYQ--WWEGSVYSILSVLAYPLAWSWLQLCRKNKL 1024 (1057)
Q Consensus 980 fn~Fa~~iN~laay~--~we~~i~~iLsvl~YPlaw~~~q~~rr~k~ 1024 (1057)
+.+..+++|++..-. .+...+..++.++..++++.+.-+.-++++
T Consensus 22 ~y~~~~~~~~~~~~~~~~~~~~~~lll~ilt~gi~~i~w~~k~~~~i 68 (75)
T PF14018_consen 22 LYKIWKELNQLTGRIISPRSMTLWLLLSILTCGIYSIYWAYKLGNRI 68 (75)
T ss_pred HHHHHHHHHHHhcCCCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455667778774333 244555556666655555544445444444
No 42
>KOG0921 consensus Dosage compensation complex, subunit MLE [Transcription]
Probab=27.33 E-value=1.1e+02 Score=40.18 Aligned_cols=9 Identities=56% Similarity=0.996 Sum_probs=3.6
Q ss_pred CCCCCCCCC
Q 001543 172 AGGGHGGRG 180 (1057)
Q Consensus 172 ~GGGHGG~G 180 (1057)
+|||+||..
T Consensus 1190 sgGGYGggy 1198 (1282)
T KOG0921|consen 1190 SGGGYGGGY 1198 (1282)
T ss_pred CCCCcCCCC
Confidence 344444333
No 43
>PF12661 hEGF: Human growth factor-like EGF; PDB: 2YGQ_A 2E26_A 3A7Q_A 2YGP_A 2YGO_A 1HRE_A 1HAE_A 1HAF_A 1HRF_A.
Probab=27.02 E-value=19 Score=23.23 Aligned_cols=11 Identities=45% Similarity=1.066 Sum_probs=8.5
Q ss_pred CCCCCCccccc
Q 001543 797 ACPRGLYGVFC 807 (1057)
Q Consensus 797 ~CP~G~~G~fC 807 (1057)
.||+||.|..|
T Consensus 3 ~C~~G~~G~~C 13 (13)
T PF12661_consen 3 QCPPGWTGPNC 13 (13)
T ss_dssp EE-TTEETTTT
T ss_pred cCcCCCcCCCC
Confidence 59999999877
No 44
>PF00020 TNFR_c6: TNFR/NGFR cysteine-rich region; InterPro: IPR001368 A number of proteins, some of which are known to be receptors for growth factors have been found to contain a cysteine-rich domain at the N-terminal region that can be subdivided into four (or in some cases, three) repeats containing six conserved cysteines all of which are involved in intrachain disulphide bonds []. CD27 (also called S152 or T14) mediates a co-stimulatory signal for T and B cell activation and is involved in murine T cell development. Tyrosine-phosphorylation of ZAP-70 following CD27 ligation of T cells has been reported [], but not confirmed independently. CD30 was originally identified as Ki-1, an antigen expressed on Reed-Sternberg cells in Hodgkin's lymphomas and other non-Hodgkin's lymphomas, particularly diffuse large-cell lymphoma and immunoblastic lymphoma. CD30 has pleiotropic effects on CD30-positive lymphoma cell lines ranging from cell proliferation to cell death. It is thought to be involved in negative selection of T-cells in the thymus and is involved in TCR-mediated cell death. CD30 is a member of the TNFR family of molecules, activate NFkB through interaction with TRAF2 and TRAF5. CD40 (Bp50) plays a central role in the regulation of cell-mediated immunity as well as antibody mediated immunity. It is central to T cell dependent (TD)-responses and may influence survival of B cell lymphomas. CD95 (also called APO-1, fas antigen, Fas tumour necrosis factor receptor superfamily, member 6, TNFRSF6 or apoptosis antigen 1, APT1) is expressed, typically at high levels, on activated T and B cells. It is involved in the mediation of apoptosis-inducing signals. Other proteins known to belong to this family [, , , ] are, tumour Necrosis Factor type I and type II receptors (TNFR), Rabbit fibroma virus soluble TNF receptor (protein T2), lymphotoxin alpha/beta receptor, low-affinity nerve growth factor receptor (LA-NGFR) (p75), T-cell antigen OX40, Wsl-1, a receptor (for a yet undefined ligand) that mediates apoptosis and Vaccinia virus protein A53 (SalF19R). CD molecules are leucocyte antigens on cell surfaces. CD antigens nomenclature is updated at Protein Reviews On The Web (http://prow.nci.nih.gov/).; GO: 0005488 binding; PDB: 3TJE_F 3QD6_S 3ALQ_U 3IJ2_Y 3BUK_D 1SG1_X 1NCF_B 1EXT_A 1FT4_B 1TNR_R ....
Probab=25.32 E-value=32 Score=27.48 Aligned_cols=19 Identities=37% Similarity=0.947 Sum_probs=14.0
Q ss_pred CCCCceeccCCCCCCCcccCC
Q 001543 810 CPVGTFKNVSGSDRALCRNCS 830 (1057)
Q Consensus 810 Cp~GtYK~~~Gs~~~~C~pC~ 830 (1057)
||.|+|.+..+. ..|+||.
T Consensus 1 C~~g~y~~~~~~--~~C~~C~ 19 (39)
T PF00020_consen 1 CPPGTYSDSENH--PQCLPCS 19 (39)
T ss_dssp ECTTEEEESSCS--SSEEEEE
T ss_pred CccCcccCCCCC--CcCCccC
Confidence 899999997543 6776664
No 45
>PF14163 SieB: Superinfection exclusion protein B
Probab=24.43 E-value=1.3e+02 Score=30.80 Aligned_cols=57 Identities=26% Similarity=0.459 Sum_probs=29.9
Q ss_pred CcchhhhhhcHHHHHHHHHHHhhhhhhhhhhhhhhhh-hhhhh-hhhHHHHH----HHHHHHHHHHHHHHHH
Q 001543 967 PPEQVIEIVYEDAFNRFADEINALAAYQWWEGSVYSI-LSVLA-YPLAWSWL----QLCRKNKLQQLREFVR 1032 (1057)
Q Consensus 967 pP~~i~~ivye~~fn~Fa~~iN~laay~~we~~i~~i-Lsvl~-YPlaw~~~----q~~rr~k~~rL~efv~ 1032 (1057)
.|+++.+.++.++|. ..|+.|=..+..+ ++++. .=+.|.++ .+.+|++.++++|+++
T Consensus 15 ~P~~~~~~l~l~~~~---------~~y~~~i~~~fl~s~s~li~~~~~~~~~~~~~~~~~k~~~~~~~~~l~ 77 (151)
T PF14163_consen 15 LPESLLEWLNLDKFE---------IKYQPWIGLIFLFSVSYLIAQLLSFIYKEAKDRYQRKRKKKKIEKKLN 77 (151)
T ss_pred CCHHHHHHhCcchHH---------HhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 467777766666662 2477775555443 22222 12222222 2556666666666665
No 46
>PRK09677 putative lipopolysaccharide biosynthesis O-acetyl transferase WbbJ; Provisional
Probab=23.94 E-value=2e+02 Score=30.54 Aligned_cols=60 Identities=15% Similarity=0.251 Sum_probs=34.3
Q ss_pred ceEEeccceeEEcCCceEEeccCCcEEEEEEeeeEEecccceEEeeeEEEEeeeEEEcCCcEE
Q 001543 87 DIYVEGSGNLHILPGVTLCCPIKGCLLTINVTGEFLLGRNSEIVAGTVYVSALNASFSSGSVV 149 (1057)
Q Consensus 87 Dv~i~G~g~l~I~~~v~~~c~~~G~~I~v~~~G~~~lg~~s~i~ag~i~l~A~nv~i~~~s~I 149 (1057)
..++.+.++++|..+|.+ ..+|.+.+...+.+.+++++.|-.........+++|.++..|
T Consensus 35 pf~~~~~~~I~iG~~v~i---~~~~ri~~~~~~~i~IG~~v~Ig~~v~I~~~~~v~IG~~v~I 94 (192)
T PRK09677 35 PFYIRNDGSINFGEGFTS---GVGLRLDAFGRGKLFFGDNVQVNDYVHIACIESITIGRDTLI 94 (192)
T ss_pred CEEEcCCCeEEECCceEE---CCCeEEEecCCCeEEECCCCEECCCcEEccCceEEECCCCEE
Confidence 345556666666666543 445666655566677777766655544333345555555444
No 47
>PRK10506 hypothetical protein; Provisional
Probab=23.71 E-value=96 Score=32.14 Aligned_cols=47 Identities=19% Similarity=0.198 Sum_probs=26.9
Q ss_pred hhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHhhcCcccccccchhhhhccceee
Q 001543 1001 YSILSVLAYPLAWSWLQLCRKNKLQQLREFVRSEYDHSCLRSCRSRALYEGLKVL 1055 (1057)
Q Consensus 1001 ~~iLsvl~YPlaw~~~q~~rr~k~~rL~efv~seydh~clrs~rsr~l~~~~Kv~ 1055 (1057)
..||..++.|. |..|+++.+++...+.++ ..++..|+.|.+.+-.+.
T Consensus 23 i~il~~~a~p~---~~~~~~~~~~~~~~~~l~-----~~l~~ar~~A~~~~~~~~ 69 (162)
T PRK10506 23 VSILSAWGLYG---WQRWQQRQRLWQTAQQLL-----DFLLRLQEDANWHNRDHI 69 (162)
T ss_pred HHHHHHHHHHH---HHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHcCCcEE
Confidence 34455555555 556666666665555554 345566777776665543
No 48
>PF05545 FixQ: Cbb3-type cytochrome oxidase component FixQ; InterPro: IPR008621 This family consists of several Cbb3-type cytochrome oxidase components (FixQ/CcoQ). FixQ is found in nitrogen fixing bacteria. Since nitrogen fixation is an energy-consuming process, effective symbioses depend on operation of a respiratory chain with a high affinity for O2, closely coupled to ATP production. This requirement is fulfilled by a special three-subunit terminal oxidase (cytochrome terminal oxidase cbb3), which was first identified in Bradyrhizobium japonicum as the product of the fixNOQP operon [].
Probab=23.53 E-value=94 Score=26.25 Aligned_cols=17 Identities=12% Similarity=0.239 Sum_probs=10.4
Q ss_pred HHHHHHHHHHHHhhhhc
Q 001543 889 GLLILLALVLSVARMKY 905 (1057)
Q Consensus 889 ~llilLalv~s~~R~k~ 905 (1057)
.+++++++++++.|.|.
T Consensus 18 ~~~~F~gi~~w~~~~~~ 34 (49)
T PF05545_consen 18 FFVFFIGIVIWAYRPRN 34 (49)
T ss_pred HHHHHHHHHHHHHcccc
Confidence 33445667777777654
No 49
>KOG4611 consensus Uncharacterized conserved protein [Function unknown]
Probab=23.41 E-value=87 Score=36.92 Aligned_cols=63 Identities=32% Similarity=0.667 Sum_probs=0.0
Q ss_pred ceeCCCCceeccCCCCCCCcccCCCCC--CCCCceeecccCc----ccCCCCCccccCCcccC-----CcccchHHHH
Q 001543 807 CEECPVGTFKNVSGSDRALCRNCSSNE--LPHRALYIPIRGG----VTECPCPYKCVSERYHM-----PHCYTTLEEL 873 (1057)
Q Consensus 807 C~eCp~GtYK~~~Gs~~~~C~pC~~~~--lp~ra~~iy~~gg----~~~~~Cpy~C~~dk~~~-----p~C~t~leel 873 (1057)
|+|||.||.... +.--|..|-+.. .|++...|.-.-. ....+|- .|-++-|++ ..|-|...|.
T Consensus 52 ceecpegtlssp---dqtgclncnngtchcpsqstlifrdasgnlltndafcg-ncasgfyrndngyctkcetscsem 125 (747)
T KOG4611|consen 52 CEECPEGTLSSP---DQTGCLNCNNGTCHCPSQSTLIFRDASGNLLTNDAFCG-NCASGFYRNDNGYCTKCETSCSEM 125 (747)
T ss_pred cccCCCcccCCC---ccCCceecCCCccCCCCcceEEEEcCCCCeeccccccc-cccccceECCCcccccccccHhhh
No 50
>KOG4289 consensus Cadherin EGF LAG seven-pass G-type receptor [Signal transduction mechanisms]
Probab=22.97 E-value=83 Score=42.89 Aligned_cols=30 Identities=30% Similarity=0.795 Sum_probs=19.2
Q ss_pred CCcccCCceEE-ccCCCCCCccc-cceeCCCC
Q 001543 784 QGLAGGNGTVT-GKACPRGLYGV-FCEECPVG 813 (1057)
Q Consensus 784 ~g~~g~~Gti~-g~~CP~G~~G~-fC~eCp~G 813 (1057)
+|..|.+.-.- -.+||.||.|. .|-+|.-.
T Consensus 1745 ~g~~G~~Ce~~~dq~CPrGWWG~P~CgpC~Ca 1776 (2531)
T KOG4289|consen 1745 PGYTGPYCELRADQPCPRGWWGFPTCGPCNCA 1776 (2531)
T ss_pred CcccCcchhhhccCCCCCcccCCCCccCcccc
Confidence 35555554332 57999999985 38877543
No 51
>PF04519 Bactofilin: Polymer-forming cytoskeletal; InterPro: IPR007607 This family contains several uncharacterised hypothetical proteins.
Probab=22.44 E-value=5e+02 Score=24.48 Aligned_cols=12 Identities=33% Similarity=0.695 Sum_probs=6.0
Q ss_pred eeeEEecccceE
Q 001543 118 TGEFLLGRNSEI 129 (1057)
Q Consensus 118 ~G~~~lg~~s~i 129 (1057)
.+.+.|..++.+
T Consensus 34 ~g~v~i~~~~~v 45 (101)
T PF04519_consen 34 EGKVKIGGNGEV 45 (101)
T ss_pred ceEEEEcCCCEE
Confidence 445555555544
No 52
>COG4698 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=22.28 E-value=64 Score=34.89 Aligned_cols=15 Identities=33% Similarity=0.618 Sum_probs=9.1
Q ss_pred ccccch---hhHHHhhcc
Q 001543 922 HSFPFL---ESLNEVMET 936 (1057)
Q Consensus 922 ~~f~~l---eSL~Ev~~t 936 (1057)
.+|.+. ++|||+.+.
T Consensus 52 ~~fqitttr~~LN~li~s 69 (197)
T COG4698 52 KSFQITTTRSQLNELINS 69 (197)
T ss_pred eeEEEEccHHHHHHHHHH
Confidence 445443 568887765
No 53
>KOG4539 consensus Uncharacterized conserved protein [Function unknown]
Probab=22.10 E-value=88 Score=34.87 Aligned_cols=37 Identities=24% Similarity=0.177 Sum_probs=29.8
Q ss_pred hhhhhhhhHHHHHHHHHHHHHHHHHHHHHhhcCcccc
Q 001543 1004 LSVLAYPLAWSWLQLCRKNKLQQLREFVRSEYDHSCL 1040 (1057)
Q Consensus 1004 Lsvl~YPlaw~~~q~~rr~k~~rL~efv~seydh~cl 1040 (1057)
|.|.|+|-.-+=.-+||.||+.+.....+.+|--.|+
T Consensus 119 l~V~yPP~l~s~~~lr~l~~~~q~g~i~Hkkylvg~v 155 (274)
T KOG4539|consen 119 LQVTYPPSLDSRLVLRRLRHIAQSGTILHKKYLVGSV 155 (274)
T ss_pred eEEEcCCCCChHHHHHHHHHHHhhcchhhhheeeeee
Confidence 3467778777778889999999999999989887743
No 54
>COG4457 SrfB Uncharacterized protein conserved in bacteria, putative virulence factor [Function unknown]
Probab=20.76 E-value=66 Score=40.71 Aligned_cols=82 Identities=20% Similarity=0.457 Sum_probs=53.8
Q ss_pred ccccceEEEEEe-----cCCCCCCCcccCCCCcchhhhhhcHHHHHHHHHHHhhhhhh---hhhhhhhhhhhhhhhhhhH
Q 001543 941 ESQSHVHRMYFM-----GQNTFSEPWHLPHSPPEQVIEIVYEDAFNRFADEINALAAY---QWWEGSVYSILSVLAYPLA 1012 (1057)
Q Consensus 941 Dl~~Hv~RmY~~-----G~NT~~~PW~Lp~spP~~i~~ivye~~fn~Fa~~iN~laay---~~we~~i~~iLsvl~YPla 1012 (1057)
|---|.||+.|+ -+|.++.|.--|.. +++..-.-| +||-.-|.++.| +|-..|+.-||.
T Consensus 129 Dq~GnThRitfAFDskl~p~s~n~~yLAP~e-----eD~~~g~sF-~fa~r~~dva~FLD~kWvdeWLrdif~------- 195 (1014)
T COG4457 129 DQKGNTHRITFAFDSKLAPNSPNRAYLAPCE-----EDAMRGESF-AFASRLEDVASFLDQKWVDEWLRDIFH------- 195 (1014)
T ss_pred ccCCCeeEEEEEeccccCCCCCCccccCCCh-----hHhhccceE-EeeecCHHHHHHHhHHHHHHHHHHHHH-------
Confidence 888899999996 56776666543321 122222333 566666666654 677888877764
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhcCc
Q 001543 1013 WSWLQLCRKNKLQQLREFVRSEYDH 1037 (1057)
Q Consensus 1013 w~~~q~~rr~k~~rL~efv~seydh 1037 (1057)
......|++|.+++.++++ +|.|
T Consensus 196 -q~a~q~r~~~e~~isdal~-~feh 218 (1014)
T COG4457 196 -QQAKQQRKRKELRISDALR-QFEH 218 (1014)
T ss_pred -HHHHHHhhhhhhhHHHHHH-HHHH
Confidence 3445678889999999998 4444
No 55
>PRK13245 hetR heterocyst differentiation control protein; Reviewed
Probab=20.70 E-value=84 Score=35.06 Aligned_cols=113 Identities=27% Similarity=0.536 Sum_probs=61.9
Q ss_pred CCCCCCccccccccccchhh---H-----HHhhcccc---ccccccceEE-EEEecCCC-CCCCcccCC--------CCc
Q 001543 910 ELPALVPARRIDHSFPFLES---L-----NEVMETNR---TEESQSHVHR-MYFMGQNT-FSEPWHLPH--------SPP 968 (1057)
Q Consensus 910 ~l~~~~~t~~id~~f~~leS---L-----~Ev~~t~r---~eDl~~Hv~R-mY~~G~NT-~~~PW~Lp~--------spP 968 (1057)
++|...|..++..||.|+|= | .+++...| .|-|-.|++| +-..|.-| ..+||-+|. +|-
T Consensus 139 kLp~~lPdAqli~sfqF~eLiefLh~rsQed~p~~rrmpLSeAlaEHIkRRLlysgTVtrid~pwGmPfYaLtr~sYsP~ 218 (299)
T PRK13245 139 KLPSNLPDAQLVSSFEFLELIEFLHKRSQEDLPPEHRMPLSEALAEHIKRRLLYSGTVTRIDSPWGMPFYALTRPFYAPA 218 (299)
T ss_pred hCCCCCchhhhhhHHHHHHHHHHHHHhhhhcCChhccCchHHHHHHHHHHHHhhccceeeccCCCCCchhheeccccCCC
Confidence 46666666677788888642 1 12221111 3677889876 34445544 579999984 232
Q ss_pred c--hhhhhhcHHHHHHHHHHHhhhhhhhhhhhhhhhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHH
Q 001543 969 E--QVIEIVYEDAFNRFADEINALAAYQWWEGSVYSILSVLAYPLAWSWLQLCRKNKLQQLREFVR 1032 (1057)
Q Consensus 969 ~--~i~~ivye~~fn~Fa~~iN~laay~~we~~i~~iLsvl~YPlaw~~~q~~rr~k~~rL~efv~ 1032 (1057)
+ +-..++-||+= +| +--.-+|..-+.-+..||-=|=.|. -+...-+..|-|.+|
T Consensus 219 ~~~erty~mvEDtA-ry---fRlm~~Wae~~~~vmRilEeldIp~------~~~~qA~~eLdeiir 274 (299)
T PRK13245 219 DDQERTYIMVEDTA-RY---FRMMKDWAERRHNVMRILEELDIPP------ERMEQAMEELDEIIR 274 (299)
T ss_pred CcccccchhHHHHH-HH---HHHHHHHHHccchHHHHHHHcCCCH------HHHHHHHHHHHHHHH
Confidence 2 22233444442 11 1122245444445666676677776 344556667777776
No 56
>COG4736 CcoQ Cbb3-type cytochrome oxidase, subunit 3 [Posttranslational modification, protein turnover, chaperones]
Probab=20.58 E-value=1.1e+02 Score=27.62 Aligned_cols=34 Identities=18% Similarity=0.301 Sum_probs=20.0
Q ss_pred cchHHHHHHHhCCcchhhHHHHHHHHHHHHHHHHhhhhccC
Q 001543 867 YTTLEELVYTFGGPWLFGLILLGLLILLALVLSVARMKYMG 907 (1057)
Q Consensus 867 ~t~leeli~~~GGp~~F~l~l~~llilLalv~s~~R~k~~~ 907 (1057)
|+.+.++++.+| ++..+++++++++++.|.+.++
T Consensus 3 ~e~~~~~a~a~~-------t~~~~l~fiavi~~ayr~~~K~ 36 (60)
T COG4736 3 YEMMRGFADAWG-------TIAFTLFFIAVIYFAYRPGKKG 36 (60)
T ss_pred HHHHHHHHHHHH-------HHHHHHHHHHHHHHHhcccchh
Confidence 455666776544 2223445577778888865543
No 57
>PRK05886 yajC preprotein translocase subunit YajC; Validated
Probab=20.47 E-value=1.1e+02 Score=30.59 Aligned_cols=22 Identities=9% Similarity=0.070 Sum_probs=14.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHh
Q 001543 1012 AWSWLQLCRKNKLQQLREFVRS 1033 (1057)
Q Consensus 1012 aw~~~q~~rr~k~~rL~efv~s 1033 (1057)
.|++..+.||||-|+.++++.+
T Consensus 17 ~yF~~iRPQkKr~K~~~~m~~~ 38 (109)
T PRK05886 17 FMYFASRRQRKAMQATIDLHES 38 (109)
T ss_pred HHHHHccHHHHHHHHHHHHHHh
Confidence 3445556677777777777763
Done!